2025

Cholet, Fabien, Vignola, Marta ORCID: https://orcid.org/0000-0002-3457-5748, Quinn, Dominic, Ijaz, Umer Z., Sloan, William T. ORCID: https://orcid.org/0000-0002-9450-7384 and Smith, Cindy J. ORCID: https://orcid.org/0000-0003-4905-0730 (2025) Microbial ecology of drinking water biofiltration based on 16S rRNA sequencing: a meta-analysis. Water Research, 281, 123684. (doi: 10.1016/j.watres.2025.123684) (PMID:40280003)

Mellya, R. V.K. et al. (2025) Natural dispersal is better than translocation for reducing risks of inbreeding depression in eastern black rhinoceros (Diceros bicornis michaeli). Proceedings of the National Academy of Sciences of the United States of America, 122(23), e241441212. (doi: 10.1073/pnas.2414412122)

Keating, Ciara ORCID: https://orcid.org/0000-0001-9199-3068, Trego, Anna, O'Flaherty, Vincent and Ijaz, Umer Zeeshan (2025) Microbiomes of high-rate anaerobic digestors reveal ‘study’-specific factors and limitations of synthetic wastewater. Water Research, (Accepted for Publication)

Trego, Anna, Morabito, Cristina, Bourven, Isabelle, Guibaud, Giles, O’Flaherty, Vincent, Collins, Gavin and Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551 (2025) Size matters: anaerobic granules exhibit distinct ecological and physico-chemical gradients across biofilm size. Environmental Science and Ecotechnology, 25, 100561. (doi: 10.1016/j.ese.2025.100561) (PMID:40242235) (PMCID:PMC12003022)

Saleem, Farrukh, Ameer, Aqsa, Afzal, Farhan, Usman, Muhammad, Irshad, Hamid, Sattar, Sadia, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551 and Javed, Sundus (2025) A cross-sectional survey of poultry management systems, practices and antimicrobial use in relation to disease outbreak in Pakistan. BMC Research Notes, 18, 144. (doi: 10.1186/s13104-025-07220-4) (PMID:40200331) (PMCID:PMC11977947)

Badar, Ayesha, Aqueel, Rhea, Nawaz, Ali, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551 and Malik, Kauser Abdulla (2025) Microbiota transplantation for Cotton Leaf Curl Disease suppression - core microbiome and transcriptome dynamics. Communications Biology, 8(1), 380. (doi: 10.1038/s42003-025-07812-7) (PMID:40050684) (PMCID:PMC11885576)

Zainy, Zainy, Hyder, Muhammad Zeeshan, Uzma, Uzma, Fayyaz, Muhammad, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551 and Farrakh, Sumaira (2025) Comparative transcriptome analysis of resistant, moderately resistant and susceptible wheat near isogenic lines in response to Puccinia striiformis tritici. Journal of Plant Interactions, 20(1), 2481853. (doi: 10.1080/17429145.2025.2481853)

Khan, A. et al. (2025) Swatting flies: Biting insects as non-invasive samplers for mammalian population genomics. Molecular Ecology, (doi: 10.1111/mec.17661) (PMID:39838904) (Early Online Publication)

Pangga, G. M. et al. (2025) Impact of commercial gut health interventions on caecal metagenomic and broiler performance. Microbiome, (Accepted for Publication)

2024

Milling, S. et al. (2024) Beneficial modulation of the gut microbiome by leachates of Penicillium purpurogenum in the presence of clays: A model for the preparation and efficacy of historical Lemnian Earth. PLoS ONE, 19(12), e0313090. (doi: 10.1371/journal.pone.0313090) (PMID:39689103)

Ameer, Aqsa, Saleem, Farrukh, Keating, Ciara ORCID: https://orcid.org/0000-0001-9199-3068, Gundogdu, Ozan, Ijaz, Umer ORCID: https://orcid.org/0000-0001-5780-8551 and Javed, Sundus (2024) Dataset of 16S rRNA gene sequences of 111 healthy and Newcastle disease infected caecal samples from multiple chicken breeds of Pakistan. Data In Brief, 57, 110957. (doi: 10.1016/j.dib.2024.110957)

Stewart, Kelly, Boerlage, Annette S., Barr, William, Ijaz, Umer Z. ORCID: https://orcid.org/0000-0001-5780-8551 and Smith, Cindy ORCID: https://orcid.org/0000-0003-4905-0730 (2024) Hatchery type influences the gill microbiome of Atlantic farmed salmon (Salmo salar) after transfer to sea. Animal Microbiome, 6, 65. (doi: 10.1186/s42523-024-00347-y) (PMID:39516952) (PMCID:PMC11549768)

Keating, Ciara ORCID: https://orcid.org/0000-0001-9199-3068, Kilbride, Elizabeth, Stalham, Mark A., Nellist, Charlotte, Milner, Joel ORCID: https://orcid.org/0000-0003-3702-4295, Humphris, Sonia, Toth, Ian ORCID: https://orcid.org/0000-0002-4966-4727, Mable, Barbara K. ORCID: https://orcid.org/0000-0001-7118-4116 and Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551 (2024) Balancing the scales: assessing the impact of irrigation and pathogen burden on potato blackleg disease and soil microbial communities. Microbiome, 12, 210. (doi: 10.1186/s40168-024-01918-6)

Nichols, B. et al. (2024) Gut microbial signatures in pediatric Crohn's disease vary according to disease activity measures and are influenced by proxies of gastrointestinal transit time: an ImageKids study. Inflammatory Bowel Diseases, (doi: 10.1093/ibd/izae199) (Early Online Publication)

Ashraf, Hajra, Dikarlo, Plamena, Masia, Aurora, Zarbo, Ignazio R., Solla, Paolo, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551 and Sechi, Leonardo A. (2024) Mycobacterium avium subspecies paratuberculosis (MAP) infection, and its impact on gut microbiome of individuals with Multiple Sclerosis. Scientific Reports, 14, 24027. (doi: 10.1038/s41598-024-74975-4)

Cholet, Fabien, Agogué, Hélène, Ijaz, Umer Z. ORCID: https://orcid.org/0000-0001-5780-8551, Lachaussée, Nicolas, Pineau, Philippe and Smith, Cindy J. ORCID: https://orcid.org/0000-0003-4905-0730 (2024) Low-abundant but highly transcriptionally active uncharacterised Nitrosomonas drive ammonia-oxidation in the Brouage mudflat, France. Science of the Total Environment, 946, 174312. (doi: 10.1016/j.scitotenv.2024.174312) (PMID:38936706)

Bibi, Sara, Kerbiriou, Caroline, Uzma, Mckirdy, Shona, Kostrytsia, Anastasiia ORCID: https://orcid.org/0000-0002-2291-7261, Rasheed, Hifza, Eqani, Syed Ali Musstjab Akber Shah, Gerasimidis, Konstantinos ORCID: https://orcid.org/0000-0001-9432-2200, Nurulain, Syed Muhammad and Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551 (2024) Gut microbiome and function are altered for individuals living in high fluoride concentration areas in Pakistan. Ecotoxicology and Environmental Safety, 284, 116959. (doi: 10.1016/j.ecoenv.2024.116959) (PMID:39232295)

Martin, Signe, Smith, Cindy ORCID: https://orcid.org/0000-0003-4905-0730, Stewart, Kelly, Barr, William, Cheslett, Deborah, O'Connor, Ian, Swords, Fiona, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551 and O'Dwyer, Katie (2024) The hepatopancreas microbiome of velvet crab, Necora puber. Environmental Microbiology Reports, 16(5), e70014. (doi: 10.1111/1758-2229.70014) (PMID:39354672)

Shi, X. et al. (2024) Microbial stratification and DOM removal in drinking water biofilters: implications for enhanced performance. Water Research, 262, 122053. (doi: 10.1016/j.watres.2024.122053)

Trego, Anna, O'Sullivan, Sarah, O'Flaherty, Vincent, Collins, Gavin and Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551 (2024) Individual methanogenic granules are whole-ecosystem replicates with reproducible responses to environmental cues. Environmental Microbiome, 19, 68. (doi: 10.1186/s40793-024-00615-z) (PMID:39252061)

Trego, Anna, Palmeiro-Sánchez, Tania, Graham, Alison, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551 and O'Flaherty, Vincent (2024) First evidence for temperature influencing the enrichment, assembly and activity of polyhydroxyalkanoate-synthesizing mixed microbial communities. Frontiers in Systems Biology, 4, 1375472. (doi: 10.3389/fsysb.2024.1375472)

Aqueel, Rhea, Badar, Ayesha, Roy, Nazish, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551 and Malik, Kauser Abdulla (2024) Disease resistance correlates with core microbiome diversity in cotton. Current Microbiology, 81(9), 302. (doi: 10.1007/s00284-024-03827-1) (PMID:39115581)

Ashraf, Hajra, Dikarlo, Plamena, Masia, Aurora, Zarbo, Ignazio R., Solla, Paolo, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551 and Sechi, Leonardo A. (2024) Network analysis of gut microbial communities reveal key genera for a multiple sclerosis cohort with Mycobacterium avium subspecies paratuberculosis infection. Gut Pathogens, 16(1), 37. (doi: 10.1186/s13099-024-00627-7) (PMID:38987816) (PMCID:PMC11238521)

Corbett, Erin, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551, Jackson, Isla and Phoenix, Vernon R. (2024) Stormwater quality and microbial ecology in an urban rain garden system. Frontiers in Water, 6, 1383382. (doi: 10.3389/frwa.2024.1383382)

Koci, Orges, Russell, Richard K., Shaikh, M. Guftar, Edwards, Christine ORCID: https://orcid.org/0000-0003-0406-918X, Gerasimidis, Konstantinos ORCID: https://orcid.org/0000-0001-9432-2200 and Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551 (2024) CViewer: a Java-based statistical framework for integration of shotgun metagenomics with other omics datasets. Microbiome, 12(1), 117. (doi: 10.1186/s40168-024-01834-9) (PMID:38951915) (PMCID:PMC11218139)

Ameer, Aqsa, Saleem, Farrukh, Keating, Ciara ORCID: https://orcid.org/0000-0001-9199-3068, Gundogdu, Ozan, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551 and Javed, Sundus (2024) Dataset of 130 metagenome-assembled genomes of healthy and diseased broiler chicken caeca from Pakistan. Data In Brief, 54, 110487. (doi: 10.1016/j.dib.2024.110487)

Saleem, Farrukh, Ameer, Aqsa, Star-Shirko, Banaz, Keating, Ciara ORCID: https://orcid.org/0000-0001-9199-3068, Gundogdu, Ozan, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551 and Javed, Sundus (2024) Dataset of 569 metagenome-assembled genomes from the caeca of multiple chicken breeds from commercial and backyard farming setups of Pakistan. Data In Brief, 54, 110552. (doi: 10.1016/j.dib.2024.110552)

Nichols, B. et al. (2024) Gut metabolome and microbiota signatures predict response to treatment with exclusive enteral nutrition in a prospective study in children with active Crohn’s disease. American Journal of Clinical Nutrition, 119(4), pp. 885-895. (doi: 10.1016/j.ajcnut.2023.12.027) (PMID:38569785) (PMCID:PMC11007740)

Aqueel, Rhea, Badar, Ayesha, Ijaz, Umer ORCID: https://orcid.org/0000-0001-5780-8551 and Malik, Abdulla Kauser (2024) Microbial influencers and Cotton Leaf Curl Disease (CLCuD) susceptibility: a network perspective. Frontiers in Microbiology, 15, 1381883. (doi: 10.3389/fmicb.2024.1381883)

Gul, Farzana, Herrema, Hilde, Davids, Mark, Keating, Ciara ORCID: https://orcid.org/0000-0001-9199-3068, Nasir, Arshan, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551 and Javed, Sundus (2024) Gut microbial ecology and exposome of a healthy Pakistani cohort. Gut Pathogens, 16, 5. (doi: 10.1186/s13099-024-00596-x)

2023

Aqueel, Rhea, Badar, Ayesha, Roy, Nazish, Mushtaq, Qandeel, Ali, Aimen Fatima, Bashir, Aftab, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551 and Malik, Kauser Abdulla (2023) Cotton microbiome profiling and Cotton Leaf Curl Disease (CLCuD) suppression through microbial consortia associated. npj Biofilms and Microbiomes, 9(1), 100. (doi: 10.1038/s41522-023-00470-9) (PMID:38097579) (PMCID:PMC10721634)

Okonkwo, Valentine, Cholet, Fabien, Ijaz, Umer Z. ORCID: https://orcid.org/0000-0001-5780-8551, Koottatep, Thammarat, Pussayanavin, Tatchai, Polpraset, Chongrak, Sloan, William T. ORCID: https://orcid.org/0000-0002-9450-7384, Connelly, Stephanie ORCID: https://orcid.org/0000-0001-5261-2090 and Smith, Cindy J. ORCID: https://orcid.org/0000-0003-4905-0730 (2023) intI1 gene abundance from septic tanks in Thailand using validated intI1 primers. Applied and Environmental Microbiology, 89(11), e01071-23. (doi: 10.1128/aem.01071-23) (PMID:37874304) (PMCID:PMC10686061)

Craven, Hannah, Erlandsson, Helen, McGuinness, Dagmara ORCID: https://orcid.org/0000-0001-9057-3504, McGuinness, David ORCID: https://orcid.org/0000-0003-2947-2047, Mafra, Denise, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551, Bergman, Peter, Shiels, Paul G. ORCID: https://orcid.org/0000-0002-7577-9843 and Stenvinkel, Peter (2023) A normative microbiome is not restored following kidney transplantation. Clinical Science, 137(20), pp. 1563-1575. (doi: 10.1042/CS20230779) (PMID:37756543)

Vignola, Marta ORCID: https://orcid.org/0000-0002-3457-5748, Lenselink, Jeanine, Quinn, Dominic, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551, Pereira, Ryan, Sloan, William T. ORCID: https://orcid.org/0000-0002-9450-7384, Connelly, Stephanie ORCID: https://orcid.org/0000-0001-5261-2090, Moore, Graeme, Gauchotte-Lindsay, Caroline ORCID: https://orcid.org/0000-0002-4970-5031 and Smith, Cindy J. ORCID: https://orcid.org/0000-0003-4905-0730 (2023) Differential utilisation of dissolved organic matter compound fractions by different biofilter microbial communities. AQUA: Water Infrastructure, Ecosystems and Society, 72(10), pp. 1837-1851. (doi: 10.2166/aqua.2023.036)

Dessì, Paolo, Buenaño, Claribel, Martínez-Sosa, Santiago, Mills, Simon, Trego, Anna, Ijaz, Umer Z. ORCID: https://orcid.org/0000-0001-5780-8551, Pant, Deepak, Puig, Sebastià, O'Flaherty, Vincent and Farràs, Pau (2023) Microbial electrosynthesis of acetate from CO2 in three-chamber cells with gas diffusion biocathode under moderate saline conditions. Environmental Science and Ecotechnology, 16, 100261. (doi: 10.1016/j.ese.2023.100261)

Ameer, Aqsa, Cheng, Youqi, Saleem, Farrukh, Uzma, McKenna, Aaron, Richmond, Anne, Gundogdu, Ozan, Sloan, William T. ORCID: https://orcid.org/0000-0002-9450-7384, Javed, Sundus and Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551 (2023) Temporal stability and community assembly mechanisms in healthy broiler cecum. Frontiers in Microbiology, 14, 1197838. (doi: 10.3389/fmicb.2023.1197838) (PMID:37779716) (PMCID:PMC10534011)

Singh, Suniti, Keating, Ciara ORCID: https://orcid.org/0000-0001-9199-3068, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551 and Hassard, Francis (2023) Molecular insights informing factors affecting low temperature anaerobic applications: diversity, collated core microbiomes and complexity stability relationships in LCFA-fed systems. Science of the Total Environment, 874, 162420. (doi: 10.1016/j.scitotenv.2023.162420) (PMID:36842571)

Aziz, Israr, Noreen, Zobia, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551, Gundogdu, Ozan, Hamid, Muhammad Haroon, Muhammad, Nazir, Khan, Abdullah and Bokhari, Habib (2023) A prospective study on linking diarrheagenic E. coli with stunted childhood growth in relation to gut microbiome. Scientific Reports, 13, 6802. (doi: 10.1038/s41598-023-32491-x)

Bach, Lydia ORCID: https://orcid.org/0000-0002-5483-8891, Ram, Asha, Ijaz, Umer Z. ORCID: https://orcid.org/0000-0001-5780-8551, Evans, Thomas J. ORCID: https://orcid.org/0000-0002-4140-6352, Haydon, Daniel T. ORCID: https://orcid.org/0000-0002-1240-1886 and Lindström, Jan ORCID: https://orcid.org/0000-0001-5630-6680 (2023) The effects of smoking on human pharynx microbiota composition and stability. Microbiology Spectrum, 11(2), e02166-21. (doi: 10.1128/spectrum.02166-21) (PMID:36786634) (PMCID:PMC10101099)

Batool, Maria, Keating, Ciara ORCID: https://orcid.org/0000-0001-9199-3068, Javed, Sundus, Nasir, Arshan, Muddassar, Muhammad and Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551 (2023) A cross-sectional study of potential antimicrobial resistance and ecology in gastrointestinal and oral microbial communities of young normoweight Pakistani individuals. Microorganisms, 11(2), 279. (doi: 10.3390/microorganisms11020279) (PMID:36838244) (PMCID:PMC9965051)

2022

Carboni, Maria F., Mills, Simon, Arriaga, Sonia, Collins, Gavin, Ijaz, Umer Z. ORCID: https://orcid.org/0000-0001-5780-8551 and Lens, Piet N.L. (2022) Autotrophic denitrification of nitrate rich wastewater in fluidized bed reactors using pyrite and elemental sulfur as electron donors. Environmental Technology and Innovation, 28, 102878. (doi: 10.1016/j.eti.2022.102878)

Birlanga, Victor B., McCormack, Grace, Ijaz, Umer Z. ORCID: https://orcid.org/0000-0001-5780-8551, MacCarthy, Eugene, Smith, Cindy ORCID: https://orcid.org/0000-0003-4905-0730 and Collins, Gavin (2022) Dynamic gill and mucus microbiomes during a gill disease episode in farmed Atlantic salmon. Scientific Reports, 12, 16719. (doi: 10.1038/s41598-022-17008-2) (PMID:36202859) (PMCID:PMC9537138)

Trego, Anna, Keating, Ciara ORCID: https://orcid.org/0000-0001-9199-3068, Nzeteu, Corine, Graham, ALison, O'Flaherty, Vincent and Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551 (2022) Beyond basic diversity estimates – analytical tools for mechanistic interpretations of amplicon sequencing data. Microorganisms, 10(10), 1961. (doi: 10.3390/microorganisms10101961) (PMID:36296237) (PMCID:PMC9609705)

Ijaz, U. Z. et al. (2022) Analysis of pit latrine microbiota reveals depth-related variation in composition, and key parameters and taxa associated with latrine fill-up rate. Frontiers in Microbiology, 13, 960747. (doi: 10.3389/fmicb.2022.960747) (PMID:36212864) (PMCID:PMC9539666)

Mills, Simon, Dessì, Paolo, Pant, Deepak, Farràs, Pau, Sloan, William T. ORCID: https://orcid.org/0000-0002-9450-7384, Collins, Gavin and Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551 (2022) A meta-analysis of acetogenic and methanogenic microbiomes in microbial electrosynthesis. npj Biofilms and Microbiomes, 8, 73. (doi: 10.1038/s41522-022-00337-5) (PMID:36138044) (PMCID:PMC9500080)

Bain, K. A., Nichols, B., Kerbiriou, C., Moffat, F., Ijaz, U. Z. ORCID: https://orcid.org/0000-0001-5780-8551, Gerasimidis, K. ORCID: https://orcid.org/0000-0001-9432-2200, McInnes, I. B. ORCID: https://orcid.org/0000-0002-6462-4280, Åstrand, A., Holmes, S. and Milling, S. W. F. ORCID: https://orcid.org/0000-0003-4384-5516 (2022) Stratification of alopecia areata reveals involvement of CD4 T cell populations and altered faecal microbiota. Clinical and Experimental Immunology, 210(2), pp. 175-186. (doi: 10.1093/cei/uxac088) (PMID:36200950) (PMCID:PMC9750826)

Cholet, Fabien, Lisik, Agata, Agogué, Hélène, Ijaz, Umer Z. ORCID: https://orcid.org/0000-0001-5780-8551, Pineau, Philippe, Lachaussée, Nicolas and Smith, Cindy J. ORCID: https://orcid.org/0000-0003-4905-0730 (2022) Ecological observations based on functional gene sequencing are sensitive to the amplicon processing method. mSphere, 7(4), e0032422. (doi: 10.1128/msphere.00324-22) (PMID:35938727) (PMCID:PMC9429940)

Yin, Jianan, Chen, Xiuzhao, Li, Xiaobo, Kang, Guangbo, Wang, Ping, Song, Yanqing ORCID: https://orcid.org/0000-0002-8338-4016, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551, Yin, Huabing ORCID: https://orcid.org/0000-0001-7693-377X and Huang, He (2022) A droplet-based microfluidic approach to isolating functional bacteria from gut microbiota. Frontiers in Cellular and Infection Microbiology, 12, 920986. (doi: 10.3389/fcimb.2022.920986)

Kazlauskaite, R. et al. (2022) Deploying an in vitro gut model to assay the impact of the mannan-oligosaccharide prebiotic bio-mos on the Atlantic Salmon (Salmo salar) gut microbiome. Microbiology Spectrum, 10(3), e0195321. (doi: 10.1128/spectrum.01953-21) (PMID:35532227) (PMCID:PMC9241627)

Logan, Michael ORCID: https://orcid.org/0000-0003-3967-6123, Mackinder, Mary, Clark, Clare Martha, Kountouri, Aikaterini, Jere, Mwansa, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551, Hansen, Richard, McGrogan, Paraic, Russell, Richard K. and Gerasimidis, Konstantinos ORCID: https://orcid.org/0000-0001-9432-2200 (2022) Intestinal fatty acid binding protein is a disease biomarker in paediatric coeliac disease and Crohn’s disease. BMC Gastroenterology, 22, 260. (doi: 10.1186/s12876-022-02334-6) (PMID:35606704) (PMCID:PMC9125891)

Keating, C. ORCID: https://orcid.org/0000-0001-9199-3068, Bolton-Warberg, M., Hinchcliffe, J., Davies, R., Whelan, S., Wan, A.H.L., Fitzgerald, R.D., Davies, S.J., Smith, C.J. ORCID: https://orcid.org/0000-0003-4905-0730 and Ijaz, U.Z. ORCID: https://orcid.org/0000-0001-5780-8551 (2022) Drivers of ecological assembly in the hindgut of Atlantic Cod fed a macroalgal supplemented diet. npj Biofilms and Microbiomes, 8, 36. (doi: 10.1038/s41522-022-00296-x) (PMID:35508464) (PMCID:PMC9068720)

Thom, Claire, Smith, Cindy J. ORCID: https://orcid.org/0000-0003-4905-0730, Moore, Graeme, Weir, Paul and Ijaz, Umer Z. ORCID: https://orcid.org/0000-0001-5780-8551 (2022) Microbiomes in drinking water treatment and distribution: a meta-analysis from source to tap. Water Research, 212, 118106. (doi: 10.1016/j.watres.2022.118106) (PMID:35091225)

Khan, Alam, Akbar, Sedrah, Okonkwo, Valentine, Smith, Cindy ORCID: https://orcid.org/0000-0003-4905-0730, Khan, Samiullah, Shah, Aamer Ali, Adnan, Fazal, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551, Ahmed, Safia and Badshah, Malik (2022) Enrichment of the hydrogenotrophic methanogens for, in-situ biogas up-gradation by recirculation of gases and supply of hydrogen in methanogenic reactor. Bioresource Technology, 345, 126219. (doi: 10.1016/j.biortech.2021.126219) (PMID:34813923)

Tatti, Enrico, Duff, Aoife, Kostrysia, Anastasiia, Cholet, Fabien, Ijaz, Umer ORCID: https://orcid.org/0000-0001-5780-8551 and Smith, Cindy ORCID: https://orcid.org/0000-0003-4905-0730 (2022) Potential nitrification activity reflects ammonia oxidising bacteria but not archaea activity across a soil-sediment gradient. Estuarine, Coastal and Shelf Science, 264, 107666. (doi: 10.1016/j.ecss.2021.107666)

Kostrytsia, Anastasiia, Papirio, Stefano, Khodzhaev, Murod, Morrison, Liam, Collins, Gavin, Lens, Piet N.L., Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551 and Esposito, Giovanni (2022) Biofilm carrier type affects biogenic sulfur-driven denitrification performance and microbial community dynamics in moving-bed biofilm reactors. Chemosphere, 287(Part 1), 131975. (doi: 10.1016/j.chemosphere.2021.131975)

Rashid, Aneeba, Mirza, Safdar A., Keating, Ciara ORCID: https://orcid.org/0000-0001-9199-3068, Ijaz, Umer Z. ORCID: https://orcid.org/0000-0001-5780-8551, Ali, Sikander and Campos, Luiza C. (2022) Machine learning approach to predict quality parameters for bacterial consortium-treated hospital wastewater and phytotoxicity assessment on radish, cauliflower, hot pepper, rice and wheat crops. Water, 14(1), 116. (doi: 10.3390/w14010116)

Singh, Suniti, Rinta-Kanto, Johanna M., Lens, Piet N. L., Kokko, Marika, Rintala, Jukka, O’Flaherty, Vincent, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551 and Collins, Gavin (2022) Microbial community assembly and dynamics in granular, fixed-biofilm and planktonic microbiomes valorizing long-chain fatty acids at 20ºC. Bioresource Technology, 343, 126098. (doi: 10.1016/j.biortech.2021.126098) (PMID:34626764)

2021

Gkikas, K. et al. (2021) Dietary triggers of gut inflammation following exclusive enteral nutrition in children with Crohn’s disease: a pilot study. BMC Gastroenterology, 21, 454. (doi: 10.1186/s12876-021-02029-4) (PMID:34861829)

Trego, Anna Christine, Conall Holohan, B., Keating, Ciara ORCID: https://orcid.org/0000-0001-9199-3068, Graham, Alison, O'Connor, Sandra, Gerardo, Michael, Hughes, Dermot, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551 and O'Flaherty, Vincent (2021) First proof of concept for full-scale, direct, low-temperature anaerobic treatment of municipal wastewater. Bioresource Technology, 341, 125786. (doi: 10.1016/j.biortech.2021.125786) (PMID:34523560)

Oulas, Anastasis, Zachariou, Margarita, Chasapis, Christos T., Tomazou, Marios, Ijaz, Umer Z. ORCID: https://orcid.org/0000-0001-5780-8551, Schmartz, Georges Pierre, Spyrou, George M. and Vlamis-Gardikas, Alexios (2021) Putative antimicrobial peptides within bacterial proteomes affect bacterial predominance: a network analysis perspective. Frontiers in Microbiology, 12, 752674. (doi: 10.3389/fmicb.2021.752674)

Wright, P. B. et al. (2021) The mannose receptor (CD206) identifies a population of colonic macrophages in health and inflammatory bowel disease. Scientific Reports, 11, 19616. (doi: 10.1038/s41598-021-98611-7) (PMID:34608184) (PMCID:PMC8490356)

Kemp, Julie Ann, Paiva, Bruna Regis, dos Santos, Henrique Fragoso, Jesus, Hugo Emiliano, Craven, Hannah, Ijaz, Umer Z. ORCID: https://orcid.org/0000-0001-5780-8551, Borges, Natalia Alvarenga, Shiels, Paul G. ORCID: https://orcid.org/0000-0002-7577-9843 and Mafra, Denise (2021) The impact of enriched resistant starch type‐2 cookies on the gut microbiome in hemodialysis patients: a randomized controlled trial. Molecular Nutrition and Food Research, 65(19), 2100374. (doi: 10.1002/mnfr.202100374) (PMID:34390604)

Nikolova, Christina, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551 and Gutierrez, Tony (2021) Exploration of marine bacterioplankton community assembly mechanisms during chemical dispersant and surfactant‐assisted oil biodegradation. Ecology and Evolution, 11(20), pp. 13862-13874. (doi: 10.1002/ece3.8091) (PMCID:PMC8525123)

Nikolova, Christina N., Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551, Magill, Clayton, Kleindienst, Sara, Joye, Samantha B. and Gutierrez, Tony (2021) Response and oil degradation activities of a northeast Atlantic bacterial community to biogenic and synthetic surfactants. Microbiome, 9(1), 191. (doi: 10.1186/s40168-021-01143-5) (PMID:34548108) (PMCID:PMC8456599)

Cheaib, B. et al. (2021) Genome erosion and evidence for an intracellular niche – exploring the biology of mycoplasmas in Atlantic salmon. Aquaculture, 541, 736772. (doi: 10.1016/j.aquaculture.2021.736772) (PMID:34471330) (PMCID:PMC8192413)

Mahalhal, Awad, Frau, Alessandra, Burkitt, Michael D., Ijaz, Umer Z. ORCID: https://orcid.org/0000-0001-5780-8551, Lamb, Christopher A., Mansfield, John C., Lewis, Stephen, Pritchard, D. Mark and Probert, Chris S. (2021) Oral ferric maltol does not adversely affect the intestinal microbiome of patients or mice, but ferrous sulphate does. Nutrients, 13(7), 2269. (doi: 10.3390/nu13072269) (PMID:34209042) (PMCID:PMC8308237)

Craven, H. et al. (2021) Socioeconomic position links circulatory microbiota differences with biological age. Scientific Reports, 11, 12629. (doi: 10.1038/s41598-021-92042-0) (PMID:34135381) (PMCID:PMC8209159)

Durán, C. et al. (2021) Nonlinear machine learning pattern recognition and bacteria-metabolite multilayer network analysis of perturbed gastric microbiome. Nature Communications, 12, 1926. (doi: 10.1038/s41467-021-22135-x) (PMID:33771992) (PMCID:PMC7997970)

Bach, Lydia Luise ORCID: https://orcid.org/0000-0002-5483-8891, Ram, Asha, Ijaz, Umer Z. ORCID: https://orcid.org/0000-0001-5780-8551, Evans, Thomas J. ORCID: https://orcid.org/0000-0002-4140-6352 and Lindström, Jan ORCID: https://orcid.org/0000-0001-5630-6680 (2021) A longitudinal study of the human oropharynx microbiota over time reveals a common core and significant variations with self-reported disease. Frontiers in Microbiology, 11, 573969. (doi: 10.3389/fmicb.2020.573969) (PMID:33552004) (PMCID:PMC7861042)

Keating, C. ORCID: https://orcid.org/0000-0001-9199-3068, Bolton-Warberg, M., Hinchcliffe, J., Davies, R., Whelan, S., Wan, A.H.L., Fitzgerald, R.D., Davies, S.J., Ijaz, U.Z. ORCID: https://orcid.org/0000-0001-5780-8551 and Smith, C.J. ORCID: https://orcid.org/0000-0003-4905-0730 (2021) Temporal changes in the gut microbiota in farmed Atlantic cod (Gadus morhua) outweigh the response to diet supplementation with macroalgae. Animal Microbiome, 3, 7. (doi: 10.1186/s42523-020-00065-1) (PMID:33500003) (PMCID:PMC7934267)

Kazlauskaite, R. et al. (2021) SalmoSim: the development of a three-compartment in vitro simulator of the Atlantic Salmon GI tract and associated microbial communities. Microbiome, 9, 179. (doi: 10.1186/s40168-021-01134-6) (PMID:34465363) (PMCID:PMC8408954)

Mills, Simon, Trego, Anna Christine, Lens, Piet N.L., Ijaz, Umer ORCID: https://orcid.org/0000-0001-5780-8551 and Collins, Gavin (2021) A distinct, flocculent, acidogenic microbial community accompanies methanogenic granules in anaerobic digesters. Microbiology Spectrum, 9(3), e00784-21. (doi: 10.1128/Spectrum.00784-21) (PMID:34756083) (PMCID:PMC8579839)

2020

Zafeiropoulou, K. et al. (2020) Alterations in intestinal microbiota of children with celiac disease at time of diagnosis and on a gluten-free diet. Gastroenterology, 159(6), 2039-2051.e20. (doi: 10.1053/j.gastro.2020.08.007) (PMID:32791131) (PMCID:PMC7773982)

Mittell, Elizabeth A., Cobbold, Christina A. ORCID: https://orcid.org/0000-0001-8814-7688, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551, Kilbride, Elizabeth A., Moore, Karen A. and Mable, Barbara K. ORCID: https://orcid.org/0000-0001-7118-4116 (2020) Feral populations of Brassica oleracea along Atlantic coasts in western Europe. Ecology and Evolution, 10(20), pp. 11810-11825. (doi: 10.1002/ece3.6821) (PMID:33145003) (PMCID:PMC7593181)

Trego, Anna Christine, O'Sullivan, Sarah, Quince, Christopher, Mills, Simon, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551 and Collins, Gavin (2020) Size shapes the active microbiome of the methanogenic granules, corroborating a biofilm life cycle. mSystems, 5(5), e00323-20. (doi: 10.1128/mSystems.00323-20) (PMID:32994285)

McKenna, A. et al. (2020) Impact of industrial production system parameters on chicken microbiomes: mechanisms to improve performance and reduce Campylobacter. Microbiome, 8, 128. (doi: 10.1186/s40168-020-00908-8) (PMID:32907634) (PMCID:PMC7488076)

Gkikas, Konstantinos ORCID: https://orcid.org/0000-0003-1581-6566, Gerasimidis, Konstantinos ORCID: https://orcid.org/0000-0001-9432-2200, Milling, Simon ORCID: https://orcid.org/0000-0003-4384-5516, Ijaz, Umer Z. ORCID: https://orcid.org/0000-0001-5780-8551, Hansen, Richard and Russell, Richard (2020) Dietary strategies for maintenance of clinical remission in inflammatory bowel diseases: Are we there yet? Nutrients, 12(7), 2018. (doi: 10.3390/nu12072018) (PMID:32645980) (PMCID:PMC7400838)

Trego, A. C. et al. (2020) Growth and break-up of methanogenic granules suggests mechanisms for biofilm and community development. Frontiers in Microbiology, 11, 1126. (doi: 10.3389/fmicb.2020.01126) (PMID:32582085) (PMCID:PMC7285868)

Cholet, Fabien, Ijaz, Umer Z. ORCID: https://orcid.org/0000-0001-5780-8551 and Smith, Cindy J. ORCID: https://orcid.org/0000-0003-4905-0730 (2020) Reverse transcriptase enzyme and priming strategy affect quantification and diversity of environmental transcripts. Environmental Microbiology, 22(6), pp. 2383-2402. (doi: 10.1111/1462-2920.15017) (PMID:32285609)

Logan, M. et al. (2020) Analysis of 61 exclusive enteral nutrition formulas used in management of active Crohn's disease - new insights into dietary disease triggers. Alimentary Pharmacology and Therapeutics, 51(10), pp. 935-947. (doi: 10.1111/apt.15695) (PMID:32249975)

Heys, C. ORCID: https://orcid.org/0000-0002-3892-4538, Cheaib, B. ORCID: https://orcid.org/0000-0002-0325-823X, Busetti, A., Kazlauskaite, R., Maier, L., Sloan, W.T. ORCID: https://orcid.org/0000-0002-9450-7384, Ijaz, U.Z. ORCID: https://orcid.org/0000-0001-5780-8551, Kaufmann, J., McGinnity, P. and Llewellyn, M.S. ORCID: https://orcid.org/0000-0001-9856-1591 (2020) Neutral processes dominate microbial community assembly in Atlantic salmon, Salmo salar. Applied and Environmental Microbiology, 86(8), e02283-19. (doi: 10.1128/AEM.02283-19) (PMID:32033945) (PMCID:PMC7117918)

Cheaib, Bachar ORCID: https://orcid.org/0000-0002-0325-823X, Seghouani, Hamza, Ijaz, Umer ORCID: https://orcid.org/0000-0001-5780-8551 and Derome, Nicolas (2020) Community recovery dynamics in yellow perch microbiome after gradual and constant metallic perturbations. Microbiome, 8, 14. (doi: 10.1186/s40168-020-0789-0) (PMID:32041654) (PMCID:PMC7011381)

Bain, K.A. et al. (2020) Alopecia areata is characterized by dysregulation in systemic type 17 and type 2 cytokines, which may contribute to disease‐associated psychological morbidity. British Journal of Dermatology, 182(1), pp. 130-137. (doi: 10.1111/bjd.18008) (PMID:30980732)

Stratakos, A. C. et al. (2020) In vitro and in vivo characterisation of Listeria monocytogenes outbreak isolates. Food Control, 107, 106784. (doi: 10.1016/j.foodcont.2019.106784)

Jukes, Caitlin, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551, Buckley, Anthony, Spencer, Janice, Irvine, June, Li, Jia V., Marchesi, Julian R., Candlish, Denise and Douce, Gillian ORCID: https://orcid.org/0000-0002-6654-7346 (2020) Bile salt metabolism is not the only factor contributing to Clostridioides (Clostridium) difficile disease severity in the murine model of disease. Gut Microbes, 11(3), pp. 481-496. (doi: 10.1080/19490976.2019.1678996) (PMID:31793403) (PMCID:PMC7524298)

2019

Connelly, Stephanie ORCID: https://orcid.org/0000-0001-5261-2090, Pussayanavin, Tatchai, Randle-Boggis, Richard, Wicheansan, Araya, Jampathong, Suparat, Keating, Ciara ORCID: https://orcid.org/0000-0001-9199-3068, Ijaz, Umer Z. ORCID: https://orcid.org/0000-0001-5780-8551, Sloan, William ORCID: https://orcid.org/0000-0002-9450-7384 and Koottatep, Thammarat (2019) Solar Septic Tank: next generation sequencing reveals effluent microbial community composition as a useful index of system performance. Water, 11(12), 2660. (doi: 10.3390/w11122660)

Gerasimidis, Konstantinos ORCID: https://orcid.org/0000-0001-9432-2200, Svolos, Vaios, Nichols, Ben, Papadopoulou, Rodanthi, Quince, Christopher, Ijaz, Umer Z. ORCID: https://orcid.org/0000-0001-5780-8551, Milling, Simon ORCID: https://orcid.org/0000-0003-4384-5516, Gaya, Daniel R., Russell, Richard K. and Hansen, Richard (2019) Reply. Gastroenterology, 157(4), pp. 1161-1162. (doi: 10.1053/j.gastro.2019.08.015) (PMID:31408620)

Logan, M. et al. (2019) The reduction of faecal calprotectin during exclusive enteral nutrition is lost rapidly after food re-introduction. Alimentary Pharmacology and Therapeutics, 50(6), pp. 664-674. (doi: 10.1111/apt.15425) (PMID:31342536) (PMCID:PMC6772069)

Gauchotte-Lindsay, Caroline ORCID: https://orcid.org/0000-0002-4970-5031, Aspray, Thomas J., Knapp, Mara and Ijaz, Umer Z. ORCID: https://orcid.org/0000-0001-5780-8551 (2019) Systems biology approach to elucidation of contaminants biodegradation in complex samples- integration of high-resolution analytical and molecular tools. Faraday Discussions, 218, pp. 481-504. (doi: 10.1039/C9FD00020H) (PMID:31140531)

Plancq, Julien ORCID: https://orcid.org/0000-0001-7682-8419, Couto, Jillian, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551, Leavitt, Peter R. and Toney, Jaime ORCID: https://orcid.org/0000-0003-3182-6887 (2019) Next generation sequencing to identify lacustrine haptophytes in the Canadian Prairies: significance for temperature proxy applications. Journal of Geophysical Research: Biogeosciences, 124(7), pp. 2144-2158. (doi: 10.1029/2018JG004954)

Frau, A. et al. (2019) DNA extraction and amplicon production strategies deeply inf luence the outcome of gut mycobiome studies. Scientific Reports, 9, 9328. (doi: 10.1038/s41598-019-44974-x) (PMID:31249384) (PMCID:PMC6597572)

Trego, A. C. et al. (2019) De novo growth of methanogenic granules indicates a biofilm life-cycle with complex ecology. bioRxiv, (doi: 10.1101/667386) (Submitted)

Ormsby, M. J. et al. (2019) Inflammation associated ethanolamine facilitates infection by Crohn's disease-linked adherent-invasive Escherichia coli. EBioMedicine, 43, pp. 325-332. (doi: 10.1016/j.ebiom.2019.03.071) (PMID:31036531) (PMCID:PMC6557746)

Svolos, V. et al. (2019) Treatment of active Crohn’s disease with an ordinary food-based diet that replicates exclusive enteral nutrition. Gastroenterology, 156(5), 1354-1367.e6. (doi: 10.1053/j.gastro.2018.12.002) (PMID:30550821)

Dingle, K. E. et al. (2019) A role for tetracycline selection in recent evolution of agriculture-associated Clostridium difficile PCR ribotype 078. mBio, 10(2), e02790-18. (doi: 10.1128/mBio.02790-18) (PMID:30862754) (PMCID:PMC6414706)

Cholet, Fabien, Ijaz, Umer Z. ORCID: https://orcid.org/0000-0001-5780-8551 and Smith, Cindy J. ORCID: https://orcid.org/0000-0003-4905-0730 (2019) Differential ratio amplicons (Ramp) for the evaluation of RNA integrity extracted from complex environmental samples. Environmental Microbiology, 21(2), pp. 827-844. (doi: 10.1111/1462-2920.14516) (PMID:30585386) (PMCID:PMC6392129)

Keating, Ciara ORCID: https://orcid.org/0000-0001-9199-3068, Hinchcliff, James, Davies, Robert ORCID: https://orcid.org/0000-0002-6342-2222, Wan, Alexander, Davies, Simon, Fitzgerald, Richard, Ijaz, Umer ORCID: https://orcid.org/0000-0001-5780-8551, Smith, Cindy ORCID: https://orcid.org/0000-0003-4905-0730 and Bolton, Majbritt (2019) Effects of Supplementing a Fishmeal Diet with Algae on the Hindgut Microbiome of Farmed Atlantic Cod (Gadus Morhua) [Poster]. 8th Congress of European Microbiologists, Glasgow, UK, 07-11 Jul 2019.

2018

Trego, Anna Christine, Morabito, Cristina, Mills, Simon, Connelly, Stephanie ORCID: https://orcid.org/0000-0001-5261-2090, Bourven, Isabelle, Guibaud, Giles, Quince, Christopher, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551 and Collins, Gavin (2018) Diversity converges during community assembly in methanogenic granules, suggesting a biofilm life-cycle. bioRxiv, (doi: 10.1101/484642) (Submitted)

Calus, Szymon T., Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551 and Pinto, Ameet (2018) NanoAmpli-Seq: a workflow for amplicon sequencing for mixed microbial communities on the nanopore sequencing platform. GigaScience, 7(12), giy140. (doi: 10.1093/gigascience/giy140) (PMID:30476081) (PMCID:PMC6298384)

Kostrytsia, Anastasiia, Papirio, Stefano, Morrison, Liam, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551, Collins, Gavin, Lens, Piet N.L. and Esposito, Giovanni (2018) Biokinetics Of microbial consortia using biogenic sulfur as a novel electron donor for sustainable denitrification. Bioresource Technology, 270, pp. 359-367. (doi: 10.1016/j.biortech.2018.09.044) (PMID:30243243)

De Vrieze, Jo, Ijaz, Umer Z. ORCID: https://orcid.org/0000-0001-5780-8551, Saunders, Aaron M. and Theuerl, Susanne (2018) Terminal restriction fragment length polymorphism is an “old school” reliable technique for swift microbial community screening in anaerobic digestion. Scientific Reports, 8, 16818. (doi: 10.1038/s41598-018-34921-7) (PMID:30429514) (PMCID:PMC6235954)

Ijaz, U. Z. et al. (2018) Comprehensive longitudinal microbiome analysis of the chicken cecum reveals a shift from competitive to environmental drivers and a window of opportunity for Campylobacter. Frontiers in Microbiology, 9, 2452. (doi: 10.3389/fmicb.2018.02452) (PMID:30374341) (PMCID:PMC6196313)

Gerasimidis, Konstantinos ORCID: https://orcid.org/0000-0001-9432-2200, Zafeiropoulou, Konstantina, Mackinder-Jonas, Mary, Ijaz, Umer Z. ORCID: https://orcid.org/0000-0001-5780-8551, Duncan, Hazel, Buchanan, Elaine, Cardigan, Tracey, Edwards, Christine A. ORCID: https://orcid.org/0000-0003-0406-918X, McGrogan, Paraic and Russell, Richard K. (2018) Comparison of clinical methods with the faecal gluten immunogenic peptide to assess gluten intake in coeliac disease. Journal of Pediatric Gastroenterology and Nutrition, 67(3), pp. 356-360. (doi: 10.1097/MPG.0000000000002062) (PMID:29916953)

Reich, Inga, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551, Gormally, Mike and Smith, Cindy J. ORCID: https://orcid.org/0000-0003-4905-0730 (2018) 16S rRNA sequencing reveals likely beneficial core microbes within faecal samples of the EU protected slug Geomalacus maculosus. Scientific Reports, 8, 10402. (doi: 10.1038/s41598-018-28720-3) (PMID:29991804) (PMCID:PMC6039444)

Keating, C. ORCID: https://orcid.org/0000-0001-9199-3068, Hughes, D., Mahony, T., Cysneiros, D., Ijaz, U.Z. ORCID: https://orcid.org/0000-0001-5780-8551, Smith, C.J. ORCID: https://orcid.org/0000-0003-4905-0730 and O‘Flaherty, V. (2018) Cold adaptation and replicable microbial community development during long-term low temperature anaerobic digestion treatment of synthetic sewage. FEMS Microbiology Ecology, 94(7), fiy095. (doi: 10.1093/femsec/fiy095) (PMID:29846574) (PMCID:PMC5995215)

Pedersen, C. et al. (2018) Fecal Enterobacteriales enrichment is associated with increased in vivo intestinal permeability in humans. Physiological Reports, 6(7), e13649. (doi: 10.14814/phy2.13649) (PMID:29611319) (PMCID:PMC5880877)

Pinto, Ameet J., de Vrieze, Jo, Sloan, William T. ORCID: https://orcid.org/0000-0002-9450-7384 and Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551 (2018) The active microbial community more accurately reflects the anaerobic digestion process: 16S rRNA (gene) sequencing as a predictive tool. Microbiome, 6, 63. (doi: 10.1186/s40168-018-0449-9) (PMID:29609653) (PMCID:PMC5879801)

Yuan, X. et al. (2018) Effect of laser irradiation on cell function and its implications in Raman spectroscopy. Applied and Environmental Microbiology, 84(8), e02508-17. (doi: 10.1128/AEM.02508-17) (PMID:29427427) (PMCID:PMC5881070)

Joyce, Aoife, Ijaz, Umer Z. ORCID: https://orcid.org/0000-0001-5780-8551, Nzeteu, Corine, Vaughan, Aoife, Shirran, Sally L., Botting, Catherine H., Quince, Christopher, O'Flaherty, Vincent and Abram, Florence (2018) Linking microbial community structure and function during the acidified anaerobic digestion of grass. Frontiers in Microbiology, 9, 540. (doi: 10.3389/fmicb.2018.00540) (PMID:29619022) (PMCID:PMC5871674)

Koci, Orges, Logan, Michael ORCID: https://orcid.org/0000-0003-3967-6123, Svolos, Vaios, Russell, Richard K., Gerasimidis, Konstantinos ORCID: https://orcid.org/0000-0001-9432-2200 and Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551 (2018) An automated identification and analysis of ontological terms in gastrointestinal diseases and nutrition-related literature provides useful insights. PeerJ, 6, e5047. (doi: 10.7717/peerj.5047) (PMID:30065857) (PMCID:PMC6064635)

2017

Ho, Adrian, Ijaz, Umer Z. ORCID: https://orcid.org/0000-0001-5780-8551, Janssens, Thierry K.S., Ruijs, Rienke, Kim, Sang Yoon, de Boer, Wietse, Termorshuizen, Aad, van der Putten, Wim H. and Bodelier, Paul L.E. (2017) Effects of bio-based residue amendments on greenhouse gas emission from agricultural soil are stronger than effects of soil type with different microbial community composition. GCB Bioenergy, 9(12), pp. 1707-1720. (doi: 10.1111/gcbb.12457)

Logan, M. ORCID: https://orcid.org/0000-0003-3967-6123, Ijaz, U.Z. ORCID: https://orcid.org/0000-0001-5780-8551, Hansen, R., Gerasimidis, K. ORCID: https://orcid.org/0000-0001-9432-2200 and Russell, R.K. (2017) Letter: reproducible evidence shows that exclusive enteral nutrition significantly reduces faecal calprotectin concentrations in children with active Crohn's Disease. Alimentary Pharmacology and Therapeutics, 46(11-12), pp. 1119-1120. (doi: 10.1111/apt.14351) (PMID:29105140)

Parsons, B. N. et al. (2017) Comparison of the human gastric microbiota in hypochlorhydric states arising as a result of Helicobacter pylori-induced atrophic gastritis, autoimmune atrophic gastritis and proton pump inhibitor use. PLoS Pathogens, 13(11), e1006653. (doi: 10.1371/journal.ppat.1006653) (PMID:29095917) (PMCID:PMC5667734)

Ritchie, Neil D., Ijaz, Umer Z. ORCID: https://orcid.org/0000-0001-5780-8551 and Evans, Tom J. ORCID: https://orcid.org/0000-0002-4140-6352 (2017) IL-17 signalling restructures the nasal microbiome and drives dynamic changes following Streptococcus pneumoniae colonization. BMC Genomics, 18, 807. (doi: 10.1186/s12864-017-4215-3) (PMID:29058583) (PMCID:PMC5651609)

Ijaz, Ali Z., Jeffries, Thomas C., Ijaz, Umer Z. ORCID: https://orcid.org/0000-0001-5780-8551, Hamonts, Kelly and SinghIjaz, Brajesh K. (2017) Extending Seqenv: a taxa-centric approach to environmental annotations of 16S rDNA sequences. PeerJ, 5, e3827. (doi: 10.7717/peerj.3827) (PMID:29038749) (PMCID:PMC5639872)

Cho, Si-Kyung, Jung, Kyung-Won, Kim, Dong-Hoon, Kwon, Joong-Chun, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551 and Shin, Seung Gu (2017) Bacterial community analysis in upflow multilayer anaerobic reactor (UMAR) treating high-solids organic wastes. Biotechnology Progress, 33(5), pp. 1226-1234. (doi: 10.1002/btpr.2540) (PMID:28840641) (PMCID:PMC6585729)

Connelly, Stephanie ORCID: https://orcid.org/0000-0001-5261-2090, Shin, Seung G., Dillon, Robert J., Ijaz, Umer Z. ORCID: https://orcid.org/0000-0001-5780-8551, Quince, Christopher, Sloan, William T. ORCID: https://orcid.org/0000-0002-9450-7384 and Collins, Gavin (2017) Bioreactor scalability: laboratory-scale bioreactor design influences performance, ecology, and community physiology in expanded granular sludge bed bioreactors. Frontiers in Microbiology, 8, 664. (doi: 10.3389/fmicb.2017.00664) (PMID:28507535) (PMCID:PMC5410579)

De Vrieze, Jo, Christiaens, Marlies E.R., Walraedt, Diego, Devooght, Arno, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551 and Boon, Nico (2017) Microbial community redundancy in anaerobic digestion drives process recovery after salinity exposure. Water Research, 111, pp. 109-117. (doi: 10.1016/j.watres.2016.12.042) (PMID:28063283)

Harris, Keith, Parsons, Todd L., Ijaz, Umer Z. ORCID: https://orcid.org/0000-0001-5780-8551, Lahti, Leo, Holmes, Ian and Quince, Christopher (2017) Linking statistical and ecological theory: Hubbell's unified neutral theory of biodiversity as a hierarchical dirichlet process. Proceedings of the IEEE, 105(3), pp. 516-529. (doi: 10.1109/JPROC.2015.2428213)

Ijaz, U. Z. et al. (2017) The distinct features of microbial 'dysbiosis' of Crohn's disease do not occur to the same extent in their unaffected, genetically linked kindred. PLoS ONE, 12(2), e0172605. (doi: 10.1371/journal.pone.0172605) (PMID:28222161) (PMCID:PMC5319678)

Svolos, V. et al. (2017) Dietary Manipulation of the Healthy Human and Colitic Murine Gut Microbiome by CD-TREAT Diet and Exclusive Enteral Nutrition; A Proof of Concept Studyy. 12th Congress of ECCO, Barcelona, Spain, 15-18 Feb 2017. S29-S30. (doi: 10.1093/ecco-jcc/jjx002.045)

2016

Sinclair, L. et al. (2016) Seqenv: linking sequences to environments through text mining. PeerJ, 4, e2690. (doi: 10.7717/peerj.2690) (PMID:28028456) (PMCID:PMC5178346)

Pedersen, C. et al. (2016) Host–microbiome interactions in human type 2 diabetes following prebiotic fibre (galacto-oligosaccharide) intake. British Journal of Nutrition, 116(11), pp. 1869-1877. (doi: 10.1017/S0007114516004086) (PMID:27974055)

Pedersen, C. et al. (2016) Galacto-Oligosaccharide has no Effect on Glucose Tolerance, inflammatory Markers or Intestinal Permeability in Well-controlled Type 2 Diabetes. Nutrition Society Summer Meeting: New Technology in Nutrition Research and Practice, Dublin, Ireland, 11-14 July 2016. (doi: 10.1017/S0029665116001191)

Oulas, A. et al. (2016) Optimized R functions for analysis of ecological community data using the R virtual laboratory (RvLab). Biodiversity Data Journal, 4, e8357. (doi: 10.3897/BDJ.4.e8357) (PMID:27932907) (PMCID:PMC5136650)

Ray, J. L. et al. (2016) Metabarcoding and metabolome analyses of copepod grazing reveal feeding preference and linkage to metabolite classes in dynamic microbial plankton communities. Molecular Ecology, 25(21), pp. 5585-5602. (doi: 10.1111/mec.13844) (PMID:27662431)

Gerasimidis, Konstantinos ORCID: https://orcid.org/0000-0001-9432-2200, Ijaz, Umer Z. ORCID: https://orcid.org/0000-0001-5780-8551, Edwards, Christine ORCID: https://orcid.org/0000-0003-0406-918X, Russell, Richard K., Quince, Chris and Hansen, Richard (2016) Response to Kaakoush et al. American Journal of Gastroenterology, 111(7), pp. 1033-1034. (doi: 10.1038/ajg.2016.169) (PMID:27356826)

Svolos, V., Hansen, R., Hughes, K., Ijaz, U.Z. ORCID: https://orcid.org/0000-0001-5780-8551, Quince, C., Gaya, D., Russell, R. and Gerasimidis, K. ORCID: https://orcid.org/0000-0001-9432-2200 (2016) The Impact of ‘Crohn’s Disease-TReatment-with-EATing’ Diet (CD-TREAT Diet) and Exclusive Enteral Nutrition on Healthy Gut Bacteria Metabolism. 11th Congress of the European Crohn's and Colitis Organisation, Amsterdam, The Netherlands, 16-19 March 2016. S14-S15. (doi: 10.1093/ecco-jcc/jjw019.017)

Schirmer, Melanie, D’Amore, Rosalinda, Ijaz, Umer Z. ORCID: https://orcid.org/0000-0001-5780-8551, Hall, Neil and Quince, Christopher (2016) Illumina error profiles: resolving fine-scale variation in metagenomic sequencing data. BMC Bioinformatics, 17, 125. (doi: 10.1186/s12859-016-0976-y) (PMID:26968756) (PMCID:PMC4787001)

Torondel, B. et al. (2016) Assessment of the influence of intrinsic environmental and geographical factors on the bacterial ecology of pit latrines. Microbial Biotechnology, 9(2), pp. 209-223. (doi: 10.1111/1751-7915.12334) (PMID:26875588) (PMCID:PMC4767293)

D’Amore, Rosalinda, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551, Schirmer, Melanie, Kenny, John G., Gregory, Richard, Darby, Alistair C., Shakya, Migun, Podar, Mircea, Quince, Christopher and Hall, Neil (2016) A comprehensive benchmarking study of protocols and sequencing platforms for 16S rRNA community profiling. BMC Genomics, 17, 55. (doi: 10.1186/s12864-015-2194-9) (PMID:26763898) (PMCID:PMC4712552)

Bautista-de los Santos, Quyen Melina, Schroeder, Joanna, Sevillano-Rivera, Maria Catalina, Sungthong, Rungroch ORCID: https://orcid.org/0000-0002-5052-2611, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551, Sloan, William Taylor ORCID: https://orcid.org/0000-0002-9450-7384 and Pinto, Ameet J. (2016) Emerging investigators series: Microbial communities in full-scale drinking water distribution systems – A meta-analysis. Environmental Science: Water Research and Technology, 2(4), pp. 631-644. (doi: 10.1039/C6EW00030D)

Gerasimidis, Konstantinos ORCID: https://orcid.org/0000-0001-9432-2200, Bertz, Martin, Quince, Christopher, Brunner, Katja, Bruce, Alanna, Combet, Emilie ORCID: https://orcid.org/0000-0002-9302-8971, Calus, Szymon, Loman, Nick and Ijaz, Umer ORCID: https://orcid.org/0000-0001-5780-8551 (2016) The effect of DNA extraction methodology on gut microbiota research applications. BMC Research Notes, 9, 365. (doi: 10.1186/s13104-016-2171-7) (PMID:27456340) (PMCID:PMC4960752)

2015

Pinto, Ameet J., Marcus, Daniel N., Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551, Bautista-de lose Santos, Quyen Melina, Dick, Gregory J. and Raskin, Lutgarde (2015) Metagenomic evidence for the Presence of Comammox Nitrospira-Like Bacteria in a Drinking Water System. mSphere, 1(1), e00054-15. (doi: 10.1128/mSphere.00054-15)

Quince, C. et al. (2015) Extensive modulation of the fecal metagenome in children with Crohn’s Disease during exclusive enteral nutrition. American Journal of Gastroenterology, 110, pp. 1718-1729. (doi: 10.1038/ajg.2015.357) (PMID:26526081)

Savio, D. et al. (2015) Bacterial diversity along a 2600 km river continuum. Environmental Microbiology, 17(12), pp. 4994-5007. (doi: 10.1111/1462-2920.12886) (PMID:25922985)

Castelino, M., Eyre, S., Tutino, M., Moat, J., Martin, P., Ijaz, U. ORCID: https://orcid.org/0000-0001-5780-8551, Quince, C., Ho, P., Upton, M. and Barton, A. (2015) Bacterial Skin Microbiome in Psoriatic Arthritis: Pilot Data from Psoriatic Plaques on Dry Skin Sites from Patients with Psoriasis (PsC) and Psoriatic Arthritis (PsA). ACR/ARHP Annual Meeting, San Francisco, CA, USA, 6-11 Nov 2015. pp. 1-4046. (doi: 10.1002/art.39448)

Couto, Jillian M., Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551, Phoenix, Vernon R. ORCID: https://orcid.org/0000-0002-8682-5200, Schirmer, Melanie and Sloan, William T. ORCID: https://orcid.org/0000-0002-9450-7384 (2015) Metagenomic sequencing unravels gene fragments with phylogenetic signatures of O2-tolerant NiFe membrane-bound hydrogenases in lacustrine sediment. Current Microbiology, 71(2), pp. 296-302. (doi: 10.1007/s00284-015-0846-2) (PMID:26044993) (PMCID:PMC4486115)

Schirmer, Melanie, Ijaz, Umer Z. ORCID: https://orcid.org/0000-0001-5780-8551, D'Amore, Rosalinda, Hall, Neil, Sloan, William T. ORCID: https://orcid.org/0000-0002-9450-7384 and Quince, Christopher (2015) Insight into biases and sequencing errors for amplicon sequencing with the Illumina MiSeq platform. Nucleic Acids Research, 43(6), e37. (doi: 10.1093/nar/gku1341) (PMID:25586220) (PMCID:PMC4381044)

Castelino, Madhura, Eyre, Stephen, Moat, John, Fox, Graeme, Martin, Paul, Ijaz, Umer ORCID: https://orcid.org/0000-0001-5780-8551, Quince, Christopher, Ho, Pauline, Upton, Mathew and Barton, Anne (2015) The Skin Microbiome in Psoriatic Arthritis: Methodology Development and Pilot Data. Spring Meeting for Clinician Scientists in Training, London, UK, 26 Feb 2015. S27. (doi: 10.1016/S0140-6736(15)60342-7)

Khan, M. J. et al. (2015) A Detailed Analysis of the Gut Microbial Diversity and Metabolic Activity in Children with Obesity of Different Aetiology and Lean Controls. The Nutrition Society Summer Meeting: Carbohydrates in Health: Friends or Foes?, Glasgow, UK, 14-17 Jul 2014. (doi: 10.1017/S0029665115000907)

2014

Gerasimidis, K. ORCID: https://orcid.org/0000-0001-9432-2200, Loman, N., Quick, J., Calus, S., Ijaz, U. ORCID: https://orcid.org/0000-0001-5780-8551, McGrogan, P., Edwards, C.A. ORCID: https://orcid.org/0000-0003-0406-918X, Quince, C. and Russell, R.K. (2014) Metagenomic Analysis of the Gut Microbiome During a Course of Exclusive Enteral Nutrition (EEN) Provides Novel Insights on Mechanism of EEN Action. 3rd International Symposium on Pediatric Inflammatory Bowel Disease, Rotterdam, The Netherlands, 10-13 Sept 2014. S393-S394. (doi: 10.1016/S1873-9946(14)50003-7)

Alneberg, Johannes, Bjarnason, Brynjar Smári, de Bruijn, Ino, Schirmer, Melanie, Quick, Joshua, Ijaz, Umer Z. ORCID: https://orcid.org/0000-0001-5780-8551, Lahti, Leo, Loman, Nicholas J., Andersson, Anders F. and Quince, Christopher (2014) Binning metagenomic contigs by coverage and composition. Nature Methods, 11(11), pp. 1144-1146. (doi: 10.1038/NMETH.3103) (PMID:25218180)

2013

Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551, Housden, R. James, Treece, Graham M., Prager, Richard W. and Gee, Andrew H. (2013) Multidirectional scattering models for 3-dimensional ultrasound imaging. Journal of Ultrasound in Medicine, 32(4), pp. 699-714. (doi: 10.7863/ultra.32.4.699) (PMID:23525397)

2012

Dyer, E., Ijaz, U. ORCID: https://orcid.org/0000-0001-5780-8551, Housden, R., Prager, R., Gee, A. and Treece, G. (2012) A clinical system for three-dimensional extended-field-of-view ultrasound. British Journal of Radiology, 85(1018), e919-e924. (doi: 10.1259/bjr/46007369) (PMID:22972979) (PMCID:PMC3474010)

2011

Ijaz, U.Z. ORCID: https://orcid.org/0000-0001-5780-8551, Prager, R.W., Gee, A.H. and Treece, G.M. (2011) Particle swarm optimization for in vivo 3D ultrasound volume registration. In: André, M.P., Jones, J.P. and Lee, H. (eds.) Acoustical Imaging. Series: Acoustical Imaging (30). Springer Netherlands: Dordrecht, pp. 345-354. ISBN 9789048132553 (doi: 10.1007/978-90-481-3255-3_39)

Ijaz, U.Z. ORCID: https://orcid.org/0000-0001-5780-8551, Prager, R.W., Gee, A.H. and Treece, G.M. (2011) A study of similarity measures for in vivo 3D ultrasound volume registration. In: André, M.P., Jones, J.P. and Lee, H. (eds.) Acoustical Imaging. Series: Acoustical Imaging (30). Springer: Dordrecht, pp. 315-323. ISBN 9789048132553 (doi: 10.1007/978-90-481-3255-3_36)

2010

Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551, Prager, Richard W., Gee, Andrew H. and Treece, Graham M. (2010) Optimization strategies for ultrasound volume registration. Measurement Science and Technology, 21(8), 085803. (doi: 10.1088/0957-0233/21/8/085803)

Khambampati, Anil Kumar, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551, Lee, Jeong Seong, Kim, Sin and Kim, Kyung Youn (2010) Phase boundary estimation in electrical impedance tomography using the Hooke and Jeeves pattern search method. Measurement Science and Technology, 21(3), 035501. (doi: 10.1088/0957-0233/21/3/035501)

Prager, R.W., Ijaz, U.Z. ORCID: https://orcid.org/0000-0001-5780-8551, Treece, G.M. and Gee, A.H. (2010) Three-dimensional ultrasound imaging. Proceedings of the Institution of Mechanical Engineers Part H: Journal of Engineering in Medicine, 224(2), pp. 193-223. (doi: 10.1243/09544119JEIM586) (PMID:20349815)

2009

Kim, Ji Hoon, Choi, Bong Yeol, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551, Kim, Bong Seok, Kim, Sin and Kim, Kyung Youn (2009) Directional algebraic reconstruction technique for electrical impedance tomography. Journal of the Korean Physical Society, 54(4), pp. 1439-1447. (doi: 10.3938/jkps.54.1439)

Khambampati, A.K., Rashid, A., Ijaz, U.Z. ORCID: https://orcid.org/0000-0001-5780-8551, Kim, S., Soleimani, M. and Kim, K.Y. (2009) Unscented Kalman filter approach to tracking a moving interfacial boundary in sedimentation processes using three-dimensional electrical impedance tomography. Philosophical Transactions of the Royal Society A: Mathematical, Physical and Engineering Sciences, 367(1900), pp. 3095-3120. (doi: 10.1098/rsta.2009.0081) (PMID:19581257)

2008

Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551, Khambampati, Anil Kumar, Lee, Jeong Seong, Kim, Sin and Kim, Kyung Youn (2008) Nonstationary phase boundary estimation in electrical impedance tomography using unscented Kalman filter. Journal of Computational Physics, 227(15), pp. 7089-7112. (doi: 10.1016/j.jcp.2007.12.025)

Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551, Chung, Soon Il, Khambampati, Anil Kumar, Kim, Kyung Youn and Kim, Sin (2008) Electrical resistance imaging of a time-varying interface in stratified flows using an unscented Kalman filter. Measurement Science and Technology, 19(6), 065501. (doi: 10.1088/0957-0233/19/6/065501)

2007

Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551, Khambampati, Anil Kumar, Kim, Min-Chan, Kim, Sin and Kim, Kyung-Youn (2007) Estimation of time-dependent heat flux and measurement bias in two-dimensional inverse heat conduction problems. International Journal of Heat and Mass Transfer, 50(21-22), pp. 4117-4130. (doi: 10.1016/j.ijheatmasstransfer.2007.02.037)

Kim, Yong Song, Lee, Seong Hun, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551, Kim, Kyung Youn and Choi, Bong Yeol (2007) Sensitivity map generation in electrical capacitance tomography using mixed normalization models. Measurement Science and Technology, 18(7), pp. 2092-2102. (doi: 10.1088/0957-0233/18/7/040)

Kim, Sin, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551, Khambampati, Anil Kumar, Kim, Kyung Youn, Kim, Min Chan and Chung, Soon Il (2007) Moving interfacial boundary estimation in stratified flow of two immiscible liquids using electrical resistance tomography. Measurement Science and Technology, 18(5), pp. 1257-1269. (doi: 10.1088/0957-0233/18/5/012)

Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551, Kim, Jeong-Hoon, Khambampati, Anil Kumar, Kim, Min-Chan, Kim, Sin and Kim, Kyung-Youn (2007) Concentration distribution estimation of fluid through electrical impedance tomography based on interacting multiple model scheme. Flow Measurement and Instrumentation, 18(1), pp. 47-56. (doi: 10.1016/j.flowmeasinst.2006.12.005)

Kim, Bong Seok, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551, Kim, Jeong Hoon, Kim, Min Chan, Kim, Sin and Kim, Kyung Youn (2007) Nonstationary phase boundary estimation in electrical impedance tomography based on the interacting multiple model scheme. Measurement Science and Technology, 18(1), pp. 62-70. (doi: 10.1088/0957-0233/18/1/008)

Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551, Chaudhary, Safee Ullah, Don, Moon Sang and Kim, Kyung Youn (2007) Computational Strategies for Protein Quantitation in 2D Electrophoresis Gel Image Processor for Matlab. In: FBIT 2007: Frontiers in the Convergence of Bioscience and Information Technologies, Jeju City, Korea, 11-13 Oct 2007, pp. 129-134. ISBN 9780769529998 (doi: 10.1109/FBIT.2007.95)

Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551, Khambampati, Anil Kumar, Kim, Min Chan, Kim, Sin, Lee, Jeong Seong and Kim, Kyung Youn (2007) Particle swarm optimization technique For elliptic region boundary estimation in electrical impedance tomography. In: 5th International Symposium on Measurement Techniques for Multiphase Flows (5th ISMTMF), Macau, China, 10-13 Dec 2006, pp. 896-901. ISBN 9780735404229 (doi: 10.1063/1.2747529)

Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551, Khambampati, Anil Kumar, Lee, Jeong Seong, Kim, Kyung Youn, Kim, Min Chan and Kim, Sin (2007) Electrical resistance imaging of two-phase flow through rod bundles. In: 5th International Symposium on Measurement Techniques for Multiphase Flows (5th ISMTMF), Macau, China, 10-13 Dec 2006, pp. 844-849. ISBN 9780735404229 (doi: 10.1063/1.2747522)

Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551, Kim, Bong Seok, Kao, Tzu-Jen, Khambampati, Anil Kumar, Kim, Sin, Kim, Min Chan, Newell, Jonathan C., Isaacson, David and Kim, Kyung Youn (2007) Mammography phantom studies using 3D electrical impedance tomography with numerical forward solver. In: FBIT 2007: Frontiers in the Convergence of Bioscience and Information Technologies, Jeju City, Korea, 11-13 Oct 2007, pp. 379-383. ISBN 9780769529998 (doi: 10.1109/FBIT.2007.93)

2006

Ijaz, U.Z. ORCID: https://orcid.org/0000-0001-5780-8551, Kim, J.H., Kim, M.C., Kim, Sin, Park, J.W. and Kim, K.Y. (2006) Nondestructive dynamic process monitoring using electrical capacitance tomography. Key Engineering Materials, 321-32, pp. 1671-1674. (doi: 10.4028/www.scientific.net/KEM.321-323.1671)

Kim, Jae Hyoung, Kang, Byoung Chae, Lee, Seong Hun, Choi, Bong Yeol, Kim, Min Chan, Kim, Bong Seok, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551, Kim, Kyung Youn and Kim, Sin (2006) Phase boundary estimation in electrical resistance tomography with weighted multi-layered neural networks and front point approach. Measurement Science and Technology, 17(10), pp. 2731-2739. (doi: 10.1088/0957-0233/17/10/027)

Khan, Farrukh Aslam, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551, Kim, Kyung-Youn, Kang, Min-Jae and Song, Wang-Cheol (2006) Policy-Based Management in Ad hoc Networks Using Geographic Routing. In: ICOIN 2006: Information Networking: Advances in Data Communications and Wireless Networks, Sendai, Japan, 16-19 Jan 2006, pp. 237-246. ISBN 9783540485636 (doi: 10.1007/11919568_24)

Kim, S., Ijaz, U.Z ORCID: https://orcid.org/0000-0001-5780-8551, Khambampati, A.K., Kim, K.Y. and Kim, M.C. (2006) Effect of Current Injection Patterns on Dynamic Electrical Resistance Imaging for Fast Transient Processes. In: 5th IEEE Conference on Sensors 2006, Daegu, Korea, 22-25 Oct 2006, pp. 506-509. ISBN 1424403758 (doi: 10.1109/ICSENS.2007.355516)

Articles

Cholet, Fabien, Vignola, Marta ORCID: https://orcid.org/0000-0002-3457-5748, Quinn, Dominic, Ijaz, Umer Z., Sloan, William T. ORCID: https://orcid.org/0000-0002-9450-7384 and Smith, Cindy J. ORCID: https://orcid.org/0000-0003-4905-0730 (2025) Microbial ecology of drinking water biofiltration based on 16S rRNA sequencing: a meta-analysis. Water Research, 281, 123684. (doi: 10.1016/j.watres.2025.123684) (PMID:40280003)

Mellya, R. V.K. et al. (2025) Natural dispersal is better than translocation for reducing risks of inbreeding depression in eastern black rhinoceros (Diceros bicornis michaeli). Proceedings of the National Academy of Sciences of the United States of America, 122(23), e241441212. (doi: 10.1073/pnas.2414412122)

Keating, Ciara ORCID: https://orcid.org/0000-0001-9199-3068, Trego, Anna, O'Flaherty, Vincent and Ijaz, Umer Zeeshan (2025) Microbiomes of high-rate anaerobic digestors reveal ‘study’-specific factors and limitations of synthetic wastewater. Water Research, (Accepted for Publication)

Trego, Anna, Morabito, Cristina, Bourven, Isabelle, Guibaud, Giles, O’Flaherty, Vincent, Collins, Gavin and Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551 (2025) Size matters: anaerobic granules exhibit distinct ecological and physico-chemical gradients across biofilm size. Environmental Science and Ecotechnology, 25, 100561. (doi: 10.1016/j.ese.2025.100561) (PMID:40242235) (PMCID:PMC12003022)

Saleem, Farrukh, Ameer, Aqsa, Afzal, Farhan, Usman, Muhammad, Irshad, Hamid, Sattar, Sadia, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551 and Javed, Sundus (2025) A cross-sectional survey of poultry management systems, practices and antimicrobial use in relation to disease outbreak in Pakistan. BMC Research Notes, 18, 144. (doi: 10.1186/s13104-025-07220-4) (PMID:40200331) (PMCID:PMC11977947)

Badar, Ayesha, Aqueel, Rhea, Nawaz, Ali, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551 and Malik, Kauser Abdulla (2025) Microbiota transplantation for Cotton Leaf Curl Disease suppression - core microbiome and transcriptome dynamics. Communications Biology, 8(1), 380. (doi: 10.1038/s42003-025-07812-7) (PMID:40050684) (PMCID:PMC11885576)

Zainy, Zainy, Hyder, Muhammad Zeeshan, Uzma, Uzma, Fayyaz, Muhammad, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551 and Farrakh, Sumaira (2025) Comparative transcriptome analysis of resistant, moderately resistant and susceptible wheat near isogenic lines in response to Puccinia striiformis tritici. Journal of Plant Interactions, 20(1), 2481853. (doi: 10.1080/17429145.2025.2481853)

Khan, A. et al. (2025) Swatting flies: Biting insects as non-invasive samplers for mammalian population genomics. Molecular Ecology, (doi: 10.1111/mec.17661) (PMID:39838904) (Early Online Publication)

Pangga, G. M. et al. (2025) Impact of commercial gut health interventions on caecal metagenomic and broiler performance. Microbiome, (Accepted for Publication)

Milling, S. et al. (2024) Beneficial modulation of the gut microbiome by leachates of Penicillium purpurogenum in the presence of clays: A model for the preparation and efficacy of historical Lemnian Earth. PLoS ONE, 19(12), e0313090. (doi: 10.1371/journal.pone.0313090) (PMID:39689103)

Ameer, Aqsa, Saleem, Farrukh, Keating, Ciara ORCID: https://orcid.org/0000-0001-9199-3068, Gundogdu, Ozan, Ijaz, Umer ORCID: https://orcid.org/0000-0001-5780-8551 and Javed, Sundus (2024) Dataset of 16S rRNA gene sequences of 111 healthy and Newcastle disease infected caecal samples from multiple chicken breeds of Pakistan. Data In Brief, 57, 110957. (doi: 10.1016/j.dib.2024.110957)

Stewart, Kelly, Boerlage, Annette S., Barr, William, Ijaz, Umer Z. ORCID: https://orcid.org/0000-0001-5780-8551 and Smith, Cindy ORCID: https://orcid.org/0000-0003-4905-0730 (2024) Hatchery type influences the gill microbiome of Atlantic farmed salmon (Salmo salar) after transfer to sea. Animal Microbiome, 6, 65. (doi: 10.1186/s42523-024-00347-y) (PMID:39516952) (PMCID:PMC11549768)

Keating, Ciara ORCID: https://orcid.org/0000-0001-9199-3068, Kilbride, Elizabeth, Stalham, Mark A., Nellist, Charlotte, Milner, Joel ORCID: https://orcid.org/0000-0003-3702-4295, Humphris, Sonia, Toth, Ian ORCID: https://orcid.org/0000-0002-4966-4727, Mable, Barbara K. ORCID: https://orcid.org/0000-0001-7118-4116 and Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551 (2024) Balancing the scales: assessing the impact of irrigation and pathogen burden on potato blackleg disease and soil microbial communities. Microbiome, 12, 210. (doi: 10.1186/s40168-024-01918-6)

Nichols, B. et al. (2024) Gut microbial signatures in pediatric Crohn's disease vary according to disease activity measures and are influenced by proxies of gastrointestinal transit time: an ImageKids study. Inflammatory Bowel Diseases, (doi: 10.1093/ibd/izae199) (Early Online Publication)

Ashraf, Hajra, Dikarlo, Plamena, Masia, Aurora, Zarbo, Ignazio R., Solla, Paolo, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551 and Sechi, Leonardo A. (2024) Mycobacterium avium subspecies paratuberculosis (MAP) infection, and its impact on gut microbiome of individuals with Multiple Sclerosis. Scientific Reports, 14, 24027. (doi: 10.1038/s41598-024-74975-4)

Cholet, Fabien, Agogué, Hélène, Ijaz, Umer Z. ORCID: https://orcid.org/0000-0001-5780-8551, Lachaussée, Nicolas, Pineau, Philippe and Smith, Cindy J. ORCID: https://orcid.org/0000-0003-4905-0730 (2024) Low-abundant but highly transcriptionally active uncharacterised Nitrosomonas drive ammonia-oxidation in the Brouage mudflat, France. Science of the Total Environment, 946, 174312. (doi: 10.1016/j.scitotenv.2024.174312) (PMID:38936706)

Bibi, Sara, Kerbiriou, Caroline, Uzma, Mckirdy, Shona, Kostrytsia, Anastasiia ORCID: https://orcid.org/0000-0002-2291-7261, Rasheed, Hifza, Eqani, Syed Ali Musstjab Akber Shah, Gerasimidis, Konstantinos ORCID: https://orcid.org/0000-0001-9432-2200, Nurulain, Syed Muhammad and Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551 (2024) Gut microbiome and function are altered for individuals living in high fluoride concentration areas in Pakistan. Ecotoxicology and Environmental Safety, 284, 116959. (doi: 10.1016/j.ecoenv.2024.116959) (PMID:39232295)

Martin, Signe, Smith, Cindy ORCID: https://orcid.org/0000-0003-4905-0730, Stewart, Kelly, Barr, William, Cheslett, Deborah, O'Connor, Ian, Swords, Fiona, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551 and O'Dwyer, Katie (2024) The hepatopancreas microbiome of velvet crab, Necora puber. Environmental Microbiology Reports, 16(5), e70014. (doi: 10.1111/1758-2229.70014) (PMID:39354672)

Shi, X. et al. (2024) Microbial stratification and DOM removal in drinking water biofilters: implications for enhanced performance. Water Research, 262, 122053. (doi: 10.1016/j.watres.2024.122053)

Trego, Anna, O'Sullivan, Sarah, O'Flaherty, Vincent, Collins, Gavin and Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551 (2024) Individual methanogenic granules are whole-ecosystem replicates with reproducible responses to environmental cues. Environmental Microbiome, 19, 68. (doi: 10.1186/s40793-024-00615-z) (PMID:39252061)

Trego, Anna, Palmeiro-Sánchez, Tania, Graham, Alison, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551 and O'Flaherty, Vincent (2024) First evidence for temperature influencing the enrichment, assembly and activity of polyhydroxyalkanoate-synthesizing mixed microbial communities. Frontiers in Systems Biology, 4, 1375472. (doi: 10.3389/fsysb.2024.1375472)

Aqueel, Rhea, Badar, Ayesha, Roy, Nazish, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551 and Malik, Kauser Abdulla (2024) Disease resistance correlates with core microbiome diversity in cotton. Current Microbiology, 81(9), 302. (doi: 10.1007/s00284-024-03827-1) (PMID:39115581)

Ashraf, Hajra, Dikarlo, Plamena, Masia, Aurora, Zarbo, Ignazio R., Solla, Paolo, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551 and Sechi, Leonardo A. (2024) Network analysis of gut microbial communities reveal key genera for a multiple sclerosis cohort with Mycobacterium avium subspecies paratuberculosis infection. Gut Pathogens, 16(1), 37. (doi: 10.1186/s13099-024-00627-7) (PMID:38987816) (PMCID:PMC11238521)

Corbett, Erin, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551, Jackson, Isla and Phoenix, Vernon R. (2024) Stormwater quality and microbial ecology in an urban rain garden system. Frontiers in Water, 6, 1383382. (doi: 10.3389/frwa.2024.1383382)

Koci, Orges, Russell, Richard K., Shaikh, M. Guftar, Edwards, Christine ORCID: https://orcid.org/0000-0003-0406-918X, Gerasimidis, Konstantinos ORCID: https://orcid.org/0000-0001-9432-2200 and Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551 (2024) CViewer: a Java-based statistical framework for integration of shotgun metagenomics with other omics datasets. Microbiome, 12(1), 117. (doi: 10.1186/s40168-024-01834-9) (PMID:38951915) (PMCID:PMC11218139)

Ameer, Aqsa, Saleem, Farrukh, Keating, Ciara ORCID: https://orcid.org/0000-0001-9199-3068, Gundogdu, Ozan, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551 and Javed, Sundus (2024) Dataset of 130 metagenome-assembled genomes of healthy and diseased broiler chicken caeca from Pakistan. Data In Brief, 54, 110487. (doi: 10.1016/j.dib.2024.110487)

Saleem, Farrukh, Ameer, Aqsa, Star-Shirko, Banaz, Keating, Ciara ORCID: https://orcid.org/0000-0001-9199-3068, Gundogdu, Ozan, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551 and Javed, Sundus (2024) Dataset of 569 metagenome-assembled genomes from the caeca of multiple chicken breeds from commercial and backyard farming setups of Pakistan. Data In Brief, 54, 110552. (doi: 10.1016/j.dib.2024.110552)

Nichols, B. et al. (2024) Gut metabolome and microbiota signatures predict response to treatment with exclusive enteral nutrition in a prospective study in children with active Crohn’s disease. American Journal of Clinical Nutrition, 119(4), pp. 885-895. (doi: 10.1016/j.ajcnut.2023.12.027) (PMID:38569785) (PMCID:PMC11007740)

Aqueel, Rhea, Badar, Ayesha, Ijaz, Umer ORCID: https://orcid.org/0000-0001-5780-8551 and Malik, Abdulla Kauser (2024) Microbial influencers and Cotton Leaf Curl Disease (CLCuD) susceptibility: a network perspective. Frontiers in Microbiology, 15, 1381883. (doi: 10.3389/fmicb.2024.1381883)

Gul, Farzana, Herrema, Hilde, Davids, Mark, Keating, Ciara ORCID: https://orcid.org/0000-0001-9199-3068, Nasir, Arshan, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551 and Javed, Sundus (2024) Gut microbial ecology and exposome of a healthy Pakistani cohort. Gut Pathogens, 16, 5. (doi: 10.1186/s13099-024-00596-x)

Aqueel, Rhea, Badar, Ayesha, Roy, Nazish, Mushtaq, Qandeel, Ali, Aimen Fatima, Bashir, Aftab, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551 and Malik, Kauser Abdulla (2023) Cotton microbiome profiling and Cotton Leaf Curl Disease (CLCuD) suppression through microbial consortia associated. npj Biofilms and Microbiomes, 9(1), 100. (doi: 10.1038/s41522-023-00470-9) (PMID:38097579) (PMCID:PMC10721634)

Okonkwo, Valentine, Cholet, Fabien, Ijaz, Umer Z. ORCID: https://orcid.org/0000-0001-5780-8551, Koottatep, Thammarat, Pussayanavin, Tatchai, Polpraset, Chongrak, Sloan, William T. ORCID: https://orcid.org/0000-0002-9450-7384, Connelly, Stephanie ORCID: https://orcid.org/0000-0001-5261-2090 and Smith, Cindy J. ORCID: https://orcid.org/0000-0003-4905-0730 (2023) intI1 gene abundance from septic tanks in Thailand using validated intI1 primers. Applied and Environmental Microbiology, 89(11), e01071-23. (doi: 10.1128/aem.01071-23) (PMID:37874304) (PMCID:PMC10686061)

Craven, Hannah, Erlandsson, Helen, McGuinness, Dagmara ORCID: https://orcid.org/0000-0001-9057-3504, McGuinness, David ORCID: https://orcid.org/0000-0003-2947-2047, Mafra, Denise, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551, Bergman, Peter, Shiels, Paul G. ORCID: https://orcid.org/0000-0002-7577-9843 and Stenvinkel, Peter (2023) A normative microbiome is not restored following kidney transplantation. Clinical Science, 137(20), pp. 1563-1575. (doi: 10.1042/CS20230779) (PMID:37756543)

Vignola, Marta ORCID: https://orcid.org/0000-0002-3457-5748, Lenselink, Jeanine, Quinn, Dominic, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551, Pereira, Ryan, Sloan, William T. ORCID: https://orcid.org/0000-0002-9450-7384, Connelly, Stephanie ORCID: https://orcid.org/0000-0001-5261-2090, Moore, Graeme, Gauchotte-Lindsay, Caroline ORCID: https://orcid.org/0000-0002-4970-5031 and Smith, Cindy J. ORCID: https://orcid.org/0000-0003-4905-0730 (2023) Differential utilisation of dissolved organic matter compound fractions by different biofilter microbial communities. AQUA: Water Infrastructure, Ecosystems and Society, 72(10), pp. 1837-1851. (doi: 10.2166/aqua.2023.036)

Dessì, Paolo, Buenaño, Claribel, Martínez-Sosa, Santiago, Mills, Simon, Trego, Anna, Ijaz, Umer Z. ORCID: https://orcid.org/0000-0001-5780-8551, Pant, Deepak, Puig, Sebastià, O'Flaherty, Vincent and Farràs, Pau (2023) Microbial electrosynthesis of acetate from CO2 in three-chamber cells with gas diffusion biocathode under moderate saline conditions. Environmental Science and Ecotechnology, 16, 100261. (doi: 10.1016/j.ese.2023.100261)

Ameer, Aqsa, Cheng, Youqi, Saleem, Farrukh, Uzma, McKenna, Aaron, Richmond, Anne, Gundogdu, Ozan, Sloan, William T. ORCID: https://orcid.org/0000-0002-9450-7384, Javed, Sundus and Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551 (2023) Temporal stability and community assembly mechanisms in healthy broiler cecum. Frontiers in Microbiology, 14, 1197838. (doi: 10.3389/fmicb.2023.1197838) (PMID:37779716) (PMCID:PMC10534011)

Singh, Suniti, Keating, Ciara ORCID: https://orcid.org/0000-0001-9199-3068, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551 and Hassard, Francis (2023) Molecular insights informing factors affecting low temperature anaerobic applications: diversity, collated core microbiomes and complexity stability relationships in LCFA-fed systems. Science of the Total Environment, 874, 162420. (doi: 10.1016/j.scitotenv.2023.162420) (PMID:36842571)

Aziz, Israr, Noreen, Zobia, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551, Gundogdu, Ozan, Hamid, Muhammad Haroon, Muhammad, Nazir, Khan, Abdullah and Bokhari, Habib (2023) A prospective study on linking diarrheagenic E. coli with stunted childhood growth in relation to gut microbiome. Scientific Reports, 13, 6802. (doi: 10.1038/s41598-023-32491-x)

Bach, Lydia ORCID: https://orcid.org/0000-0002-5483-8891, Ram, Asha, Ijaz, Umer Z. ORCID: https://orcid.org/0000-0001-5780-8551, Evans, Thomas J. ORCID: https://orcid.org/0000-0002-4140-6352, Haydon, Daniel T. ORCID: https://orcid.org/0000-0002-1240-1886 and Lindström, Jan ORCID: https://orcid.org/0000-0001-5630-6680 (2023) The effects of smoking on human pharynx microbiota composition and stability. Microbiology Spectrum, 11(2), e02166-21. (doi: 10.1128/spectrum.02166-21) (PMID:36786634) (PMCID:PMC10101099)

Batool, Maria, Keating, Ciara ORCID: https://orcid.org/0000-0001-9199-3068, Javed, Sundus, Nasir, Arshan, Muddassar, Muhammad and Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551 (2023) A cross-sectional study of potential antimicrobial resistance and ecology in gastrointestinal and oral microbial communities of young normoweight Pakistani individuals. Microorganisms, 11(2), 279. (doi: 10.3390/microorganisms11020279) (PMID:36838244) (PMCID:PMC9965051)

Carboni, Maria F., Mills, Simon, Arriaga, Sonia, Collins, Gavin, Ijaz, Umer Z. ORCID: https://orcid.org/0000-0001-5780-8551 and Lens, Piet N.L. (2022) Autotrophic denitrification of nitrate rich wastewater in fluidized bed reactors using pyrite and elemental sulfur as electron donors. Environmental Technology and Innovation, 28, 102878. (doi: 10.1016/j.eti.2022.102878)

Birlanga, Victor B., McCormack, Grace, Ijaz, Umer Z. ORCID: https://orcid.org/0000-0001-5780-8551, MacCarthy, Eugene, Smith, Cindy ORCID: https://orcid.org/0000-0003-4905-0730 and Collins, Gavin (2022) Dynamic gill and mucus microbiomes during a gill disease episode in farmed Atlantic salmon. Scientific Reports, 12, 16719. (doi: 10.1038/s41598-022-17008-2) (PMID:36202859) (PMCID:PMC9537138)

Trego, Anna, Keating, Ciara ORCID: https://orcid.org/0000-0001-9199-3068, Nzeteu, Corine, Graham, ALison, O'Flaherty, Vincent and Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551 (2022) Beyond basic diversity estimates – analytical tools for mechanistic interpretations of amplicon sequencing data. Microorganisms, 10(10), 1961. (doi: 10.3390/microorganisms10101961) (PMID:36296237) (PMCID:PMC9609705)

Ijaz, U. Z. et al. (2022) Analysis of pit latrine microbiota reveals depth-related variation in composition, and key parameters and taxa associated with latrine fill-up rate. Frontiers in Microbiology, 13, 960747. (doi: 10.3389/fmicb.2022.960747) (PMID:36212864) (PMCID:PMC9539666)

Mills, Simon, Dessì, Paolo, Pant, Deepak, Farràs, Pau, Sloan, William T. ORCID: https://orcid.org/0000-0002-9450-7384, Collins, Gavin and Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551 (2022) A meta-analysis of acetogenic and methanogenic microbiomes in microbial electrosynthesis. npj Biofilms and Microbiomes, 8, 73. (doi: 10.1038/s41522-022-00337-5) (PMID:36138044) (PMCID:PMC9500080)

Bain, K. A., Nichols, B., Kerbiriou, C., Moffat, F., Ijaz, U. Z. ORCID: https://orcid.org/0000-0001-5780-8551, Gerasimidis, K. ORCID: https://orcid.org/0000-0001-9432-2200, McInnes, I. B. ORCID: https://orcid.org/0000-0002-6462-4280, Åstrand, A., Holmes, S. and Milling, S. W. F. ORCID: https://orcid.org/0000-0003-4384-5516 (2022) Stratification of alopecia areata reveals involvement of CD4 T cell populations and altered faecal microbiota. Clinical and Experimental Immunology, 210(2), pp. 175-186. (doi: 10.1093/cei/uxac088) (PMID:36200950) (PMCID:PMC9750826)

Cholet, Fabien, Lisik, Agata, Agogué, Hélène, Ijaz, Umer Z. ORCID: https://orcid.org/0000-0001-5780-8551, Pineau, Philippe, Lachaussée, Nicolas and Smith, Cindy J. ORCID: https://orcid.org/0000-0003-4905-0730 (2022) Ecological observations based on functional gene sequencing are sensitive to the amplicon processing method. mSphere, 7(4), e0032422. (doi: 10.1128/msphere.00324-22) (PMID:35938727) (PMCID:PMC9429940)

Yin, Jianan, Chen, Xiuzhao, Li, Xiaobo, Kang, Guangbo, Wang, Ping, Song, Yanqing ORCID: https://orcid.org/0000-0002-8338-4016, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551, Yin, Huabing ORCID: https://orcid.org/0000-0001-7693-377X and Huang, He (2022) A droplet-based microfluidic approach to isolating functional bacteria from gut microbiota. Frontiers in Cellular and Infection Microbiology, 12, 920986. (doi: 10.3389/fcimb.2022.920986)

Kazlauskaite, R. et al. (2022) Deploying an in vitro gut model to assay the impact of the mannan-oligosaccharide prebiotic bio-mos on the Atlantic Salmon (Salmo salar) gut microbiome. Microbiology Spectrum, 10(3), e0195321. (doi: 10.1128/spectrum.01953-21) (PMID:35532227) (PMCID:PMC9241627)

Logan, Michael ORCID: https://orcid.org/0000-0003-3967-6123, Mackinder, Mary, Clark, Clare Martha, Kountouri, Aikaterini, Jere, Mwansa, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551, Hansen, Richard, McGrogan, Paraic, Russell, Richard K. and Gerasimidis, Konstantinos ORCID: https://orcid.org/0000-0001-9432-2200 (2022) Intestinal fatty acid binding protein is a disease biomarker in paediatric coeliac disease and Crohn’s disease. BMC Gastroenterology, 22, 260. (doi: 10.1186/s12876-022-02334-6) (PMID:35606704) (PMCID:PMC9125891)

Keating, C. ORCID: https://orcid.org/0000-0001-9199-3068, Bolton-Warberg, M., Hinchcliffe, J., Davies, R., Whelan, S., Wan, A.H.L., Fitzgerald, R.D., Davies, S.J., Smith, C.J. ORCID: https://orcid.org/0000-0003-4905-0730 and Ijaz, U.Z. ORCID: https://orcid.org/0000-0001-5780-8551 (2022) Drivers of ecological assembly in the hindgut of Atlantic Cod fed a macroalgal supplemented diet. npj Biofilms and Microbiomes, 8, 36. (doi: 10.1038/s41522-022-00296-x) (PMID:35508464) (PMCID:PMC9068720)

Thom, Claire, Smith, Cindy J. ORCID: https://orcid.org/0000-0003-4905-0730, Moore, Graeme, Weir, Paul and Ijaz, Umer Z. ORCID: https://orcid.org/0000-0001-5780-8551 (2022) Microbiomes in drinking water treatment and distribution: a meta-analysis from source to tap. Water Research, 212, 118106. (doi: 10.1016/j.watres.2022.118106) (PMID:35091225)

Khan, Alam, Akbar, Sedrah, Okonkwo, Valentine, Smith, Cindy ORCID: https://orcid.org/0000-0003-4905-0730, Khan, Samiullah, Shah, Aamer Ali, Adnan, Fazal, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551, Ahmed, Safia and Badshah, Malik (2022) Enrichment of the hydrogenotrophic methanogens for, in-situ biogas up-gradation by recirculation of gases and supply of hydrogen in methanogenic reactor. Bioresource Technology, 345, 126219. (doi: 10.1016/j.biortech.2021.126219) (PMID:34813923)

Tatti, Enrico, Duff, Aoife, Kostrysia, Anastasiia, Cholet, Fabien, Ijaz, Umer ORCID: https://orcid.org/0000-0001-5780-8551 and Smith, Cindy ORCID: https://orcid.org/0000-0003-4905-0730 (2022) Potential nitrification activity reflects ammonia oxidising bacteria but not archaea activity across a soil-sediment gradient. Estuarine, Coastal and Shelf Science, 264, 107666. (doi: 10.1016/j.ecss.2021.107666)

Kostrytsia, Anastasiia, Papirio, Stefano, Khodzhaev, Murod, Morrison, Liam, Collins, Gavin, Lens, Piet N.L., Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551 and Esposito, Giovanni (2022) Biofilm carrier type affects biogenic sulfur-driven denitrification performance and microbial community dynamics in moving-bed biofilm reactors. Chemosphere, 287(Part 1), 131975. (doi: 10.1016/j.chemosphere.2021.131975)

Rashid, Aneeba, Mirza, Safdar A., Keating, Ciara ORCID: https://orcid.org/0000-0001-9199-3068, Ijaz, Umer Z. ORCID: https://orcid.org/0000-0001-5780-8551, Ali, Sikander and Campos, Luiza C. (2022) Machine learning approach to predict quality parameters for bacterial consortium-treated hospital wastewater and phytotoxicity assessment on radish, cauliflower, hot pepper, rice and wheat crops. Water, 14(1), 116. (doi: 10.3390/w14010116)

Singh, Suniti, Rinta-Kanto, Johanna M., Lens, Piet N. L., Kokko, Marika, Rintala, Jukka, O’Flaherty, Vincent, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551 and Collins, Gavin (2022) Microbial community assembly and dynamics in granular, fixed-biofilm and planktonic microbiomes valorizing long-chain fatty acids at 20ºC. Bioresource Technology, 343, 126098. (doi: 10.1016/j.biortech.2021.126098) (PMID:34626764)

Gkikas, K. et al. (2021) Dietary triggers of gut inflammation following exclusive enteral nutrition in children with Crohn’s disease: a pilot study. BMC Gastroenterology, 21, 454. (doi: 10.1186/s12876-021-02029-4) (PMID:34861829)

Trego, Anna Christine, Conall Holohan, B., Keating, Ciara ORCID: https://orcid.org/0000-0001-9199-3068, Graham, Alison, O'Connor, Sandra, Gerardo, Michael, Hughes, Dermot, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551 and O'Flaherty, Vincent (2021) First proof of concept for full-scale, direct, low-temperature anaerobic treatment of municipal wastewater. Bioresource Technology, 341, 125786. (doi: 10.1016/j.biortech.2021.125786) (PMID:34523560)

Oulas, Anastasis, Zachariou, Margarita, Chasapis, Christos T., Tomazou, Marios, Ijaz, Umer Z. ORCID: https://orcid.org/0000-0001-5780-8551, Schmartz, Georges Pierre, Spyrou, George M. and Vlamis-Gardikas, Alexios (2021) Putative antimicrobial peptides within bacterial proteomes affect bacterial predominance: a network analysis perspective. Frontiers in Microbiology, 12, 752674. (doi: 10.3389/fmicb.2021.752674)

Wright, P. B. et al. (2021) The mannose receptor (CD206) identifies a population of colonic macrophages in health and inflammatory bowel disease. Scientific Reports, 11, 19616. (doi: 10.1038/s41598-021-98611-7) (PMID:34608184) (PMCID:PMC8490356)

Kemp, Julie Ann, Paiva, Bruna Regis, dos Santos, Henrique Fragoso, Jesus, Hugo Emiliano, Craven, Hannah, Ijaz, Umer Z. ORCID: https://orcid.org/0000-0001-5780-8551, Borges, Natalia Alvarenga, Shiels, Paul G. ORCID: https://orcid.org/0000-0002-7577-9843 and Mafra, Denise (2021) The impact of enriched resistant starch type‐2 cookies on the gut microbiome in hemodialysis patients: a randomized controlled trial. Molecular Nutrition and Food Research, 65(19), 2100374. (doi: 10.1002/mnfr.202100374) (PMID:34390604)

Nikolova, Christina, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551 and Gutierrez, Tony (2021) Exploration of marine bacterioplankton community assembly mechanisms during chemical dispersant and surfactant‐assisted oil biodegradation. Ecology and Evolution, 11(20), pp. 13862-13874. (doi: 10.1002/ece3.8091) (PMCID:PMC8525123)

Nikolova, Christina N., Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551, Magill, Clayton, Kleindienst, Sara, Joye, Samantha B. and Gutierrez, Tony (2021) Response and oil degradation activities of a northeast Atlantic bacterial community to biogenic and synthetic surfactants. Microbiome, 9(1), 191. (doi: 10.1186/s40168-021-01143-5) (PMID:34548108) (PMCID:PMC8456599)

Cheaib, B. et al. (2021) Genome erosion and evidence for an intracellular niche – exploring the biology of mycoplasmas in Atlantic salmon. Aquaculture, 541, 736772. (doi: 10.1016/j.aquaculture.2021.736772) (PMID:34471330) (PMCID:PMC8192413)

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Jukes, Caitlin, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551, Buckley, Anthony, Spencer, Janice, Irvine, June, Li, Jia V., Marchesi, Julian R., Candlish, Denise and Douce, Gillian ORCID: https://orcid.org/0000-0002-6654-7346 (2020) Bile salt metabolism is not the only factor contributing to Clostridioides (Clostridium) difficile disease severity in the murine model of disease. Gut Microbes, 11(3), pp. 481-496. (doi: 10.1080/19490976.2019.1678996) (PMID:31793403) (PMCID:PMC7524298)

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Gauchotte-Lindsay, Caroline ORCID: https://orcid.org/0000-0002-4970-5031, Aspray, Thomas J., Knapp, Mara and Ijaz, Umer Z. ORCID: https://orcid.org/0000-0001-5780-8551 (2019) Systems biology approach to elucidation of contaminants biodegradation in complex samples- integration of high-resolution analytical and molecular tools. Faraday Discussions, 218, pp. 481-504. (doi: 10.1039/C9FD00020H) (PMID:31140531)

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Calus, Szymon T., Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551 and Pinto, Ameet (2018) NanoAmpli-Seq: a workflow for amplicon sequencing for mixed microbial communities on the nanopore sequencing platform. GigaScience, 7(12), giy140. (doi: 10.1093/gigascience/giy140) (PMID:30476081) (PMCID:PMC6298384)

Kostrytsia, Anastasiia, Papirio, Stefano, Morrison, Liam, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551, Collins, Gavin, Lens, Piet N.L. and Esposito, Giovanni (2018) Biokinetics Of microbial consortia using biogenic sulfur as a novel electron donor for sustainable denitrification. Bioresource Technology, 270, pp. 359-367. (doi: 10.1016/j.biortech.2018.09.044) (PMID:30243243)

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Reich, Inga, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551, Gormally, Mike and Smith, Cindy J. ORCID: https://orcid.org/0000-0003-4905-0730 (2018) 16S rRNA sequencing reveals likely beneficial core microbes within faecal samples of the EU protected slug Geomalacus maculosus. Scientific Reports, 8, 10402. (doi: 10.1038/s41598-018-28720-3) (PMID:29991804) (PMCID:PMC6039444)

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Joyce, Aoife, Ijaz, Umer Z. ORCID: https://orcid.org/0000-0001-5780-8551, Nzeteu, Corine, Vaughan, Aoife, Shirran, Sally L., Botting, Catherine H., Quince, Christopher, O'Flaherty, Vincent and Abram, Florence (2018) Linking microbial community structure and function during the acidified anaerobic digestion of grass. Frontiers in Microbiology, 9, 540. (doi: 10.3389/fmicb.2018.00540) (PMID:29619022) (PMCID:PMC5871674)

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Logan, M. ORCID: https://orcid.org/0000-0003-3967-6123, Ijaz, U.Z. ORCID: https://orcid.org/0000-0001-5780-8551, Hansen, R., Gerasimidis, K. ORCID: https://orcid.org/0000-0001-9432-2200 and Russell, R.K. (2017) Letter: reproducible evidence shows that exclusive enteral nutrition significantly reduces faecal calprotectin concentrations in children with active Crohn's Disease. Alimentary Pharmacology and Therapeutics, 46(11-12), pp. 1119-1120. (doi: 10.1111/apt.14351) (PMID:29105140)

Parsons, B. N. et al. (2017) Comparison of the human gastric microbiota in hypochlorhydric states arising as a result of Helicobacter pylori-induced atrophic gastritis, autoimmune atrophic gastritis and proton pump inhibitor use. PLoS Pathogens, 13(11), e1006653. (doi: 10.1371/journal.ppat.1006653) (PMID:29095917) (PMCID:PMC5667734)

Ritchie, Neil D., Ijaz, Umer Z. ORCID: https://orcid.org/0000-0001-5780-8551 and Evans, Tom J. ORCID: https://orcid.org/0000-0002-4140-6352 (2017) IL-17 signalling restructures the nasal microbiome and drives dynamic changes following Streptococcus pneumoniae colonization. BMC Genomics, 18, 807. (doi: 10.1186/s12864-017-4215-3) (PMID:29058583) (PMCID:PMC5651609)

Ijaz, Ali Z., Jeffries, Thomas C., Ijaz, Umer Z. ORCID: https://orcid.org/0000-0001-5780-8551, Hamonts, Kelly and SinghIjaz, Brajesh K. (2017) Extending Seqenv: a taxa-centric approach to environmental annotations of 16S rDNA sequences. PeerJ, 5, e3827. (doi: 10.7717/peerj.3827) (PMID:29038749) (PMCID:PMC5639872)

Cho, Si-Kyung, Jung, Kyung-Won, Kim, Dong-Hoon, Kwon, Joong-Chun, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551 and Shin, Seung Gu (2017) Bacterial community analysis in upflow multilayer anaerobic reactor (UMAR) treating high-solids organic wastes. Biotechnology Progress, 33(5), pp. 1226-1234. (doi: 10.1002/btpr.2540) (PMID:28840641) (PMCID:PMC6585729)

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D’Amore, Rosalinda, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551, Schirmer, Melanie, Kenny, John G., Gregory, Richard, Darby, Alistair C., Shakya, Migun, Podar, Mircea, Quince, Christopher and Hall, Neil (2016) A comprehensive benchmarking study of protocols and sequencing platforms for 16S rRNA community profiling. BMC Genomics, 17, 55. (doi: 10.1186/s12864-015-2194-9) (PMID:26763898) (PMCID:PMC4712552)

Bautista-de los Santos, Quyen Melina, Schroeder, Joanna, Sevillano-Rivera, Maria Catalina, Sungthong, Rungroch ORCID: https://orcid.org/0000-0002-5052-2611, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551, Sloan, William Taylor ORCID: https://orcid.org/0000-0002-9450-7384 and Pinto, Ameet J. (2016) Emerging investigators series: Microbial communities in full-scale drinking water distribution systems – A meta-analysis. Environmental Science: Water Research and Technology, 2(4), pp. 631-644. (doi: 10.1039/C6EW00030D)

Gerasimidis, Konstantinos ORCID: https://orcid.org/0000-0001-9432-2200, Bertz, Martin, Quince, Christopher, Brunner, Katja, Bruce, Alanna, Combet, Emilie ORCID: https://orcid.org/0000-0002-9302-8971, Calus, Szymon, Loman, Nick and Ijaz, Umer ORCID: https://orcid.org/0000-0001-5780-8551 (2016) The effect of DNA extraction methodology on gut microbiota research applications. BMC Research Notes, 9, 365. (doi: 10.1186/s13104-016-2171-7) (PMID:27456340) (PMCID:PMC4960752)

Pinto, Ameet J., Marcus, Daniel N., Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551, Bautista-de lose Santos, Quyen Melina, Dick, Gregory J. and Raskin, Lutgarde (2015) Metagenomic evidence for the Presence of Comammox Nitrospira-Like Bacteria in a Drinking Water System. mSphere, 1(1), e00054-15. (doi: 10.1128/mSphere.00054-15)

Quince, C. et al. (2015) Extensive modulation of the fecal metagenome in children with Crohn’s Disease during exclusive enteral nutrition. American Journal of Gastroenterology, 110, pp. 1718-1729. (doi: 10.1038/ajg.2015.357) (PMID:26526081)

Savio, D. et al. (2015) Bacterial diversity along a 2600 km river continuum. Environmental Microbiology, 17(12), pp. 4994-5007. (doi: 10.1111/1462-2920.12886) (PMID:25922985)

Couto, Jillian M., Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551, Phoenix, Vernon R. ORCID: https://orcid.org/0000-0002-8682-5200, Schirmer, Melanie and Sloan, William T. ORCID: https://orcid.org/0000-0002-9450-7384 (2015) Metagenomic sequencing unravels gene fragments with phylogenetic signatures of O2-tolerant NiFe membrane-bound hydrogenases in lacustrine sediment. Current Microbiology, 71(2), pp. 296-302. (doi: 10.1007/s00284-015-0846-2) (PMID:26044993) (PMCID:PMC4486115)

Schirmer, Melanie, Ijaz, Umer Z. ORCID: https://orcid.org/0000-0001-5780-8551, D'Amore, Rosalinda, Hall, Neil, Sloan, William T. ORCID: https://orcid.org/0000-0002-9450-7384 and Quince, Christopher (2015) Insight into biases and sequencing errors for amplicon sequencing with the Illumina MiSeq platform. Nucleic Acids Research, 43(6), e37. (doi: 10.1093/nar/gku1341) (PMID:25586220) (PMCID:PMC4381044)

Alneberg, Johannes, Bjarnason, Brynjar Smári, de Bruijn, Ino, Schirmer, Melanie, Quick, Joshua, Ijaz, Umer Z. ORCID: https://orcid.org/0000-0001-5780-8551, Lahti, Leo, Loman, Nicholas J., Andersson, Anders F. and Quince, Christopher (2014) Binning metagenomic contigs by coverage and composition. Nature Methods, 11(11), pp. 1144-1146. (doi: 10.1038/NMETH.3103) (PMID:25218180)

Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551, Housden, R. James, Treece, Graham M., Prager, Richard W. and Gee, Andrew H. (2013) Multidirectional scattering models for 3-dimensional ultrasound imaging. Journal of Ultrasound in Medicine, 32(4), pp. 699-714. (doi: 10.7863/ultra.32.4.699) (PMID:23525397)

Dyer, E., Ijaz, U. ORCID: https://orcid.org/0000-0001-5780-8551, Housden, R., Prager, R., Gee, A. and Treece, G. (2012) A clinical system for three-dimensional extended-field-of-view ultrasound. British Journal of Radiology, 85(1018), e919-e924. (doi: 10.1259/bjr/46007369) (PMID:22972979) (PMCID:PMC3474010)

Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551, Prager, Richard W., Gee, Andrew H. and Treece, Graham M. (2010) Optimization strategies for ultrasound volume registration. Measurement Science and Technology, 21(8), 085803. (doi: 10.1088/0957-0233/21/8/085803)

Khambampati, Anil Kumar, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551, Lee, Jeong Seong, Kim, Sin and Kim, Kyung Youn (2010) Phase boundary estimation in electrical impedance tomography using the Hooke and Jeeves pattern search method. Measurement Science and Technology, 21(3), 035501. (doi: 10.1088/0957-0233/21/3/035501)

Prager, R.W., Ijaz, U.Z. ORCID: https://orcid.org/0000-0001-5780-8551, Treece, G.M. and Gee, A.H. (2010) Three-dimensional ultrasound imaging. Proceedings of the Institution of Mechanical Engineers Part H: Journal of Engineering in Medicine, 224(2), pp. 193-223. (doi: 10.1243/09544119JEIM586) (PMID:20349815)

Kim, Ji Hoon, Choi, Bong Yeol, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551, Kim, Bong Seok, Kim, Sin and Kim, Kyung Youn (2009) Directional algebraic reconstruction technique for electrical impedance tomography. Journal of the Korean Physical Society, 54(4), pp. 1439-1447. (doi: 10.3938/jkps.54.1439)

Khambampati, A.K., Rashid, A., Ijaz, U.Z. ORCID: https://orcid.org/0000-0001-5780-8551, Kim, S., Soleimani, M. and Kim, K.Y. (2009) Unscented Kalman filter approach to tracking a moving interfacial boundary in sedimentation processes using three-dimensional electrical impedance tomography. Philosophical Transactions of the Royal Society A: Mathematical, Physical and Engineering Sciences, 367(1900), pp. 3095-3120. (doi: 10.1098/rsta.2009.0081) (PMID:19581257)

Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551, Khambampati, Anil Kumar, Lee, Jeong Seong, Kim, Sin and Kim, Kyung Youn (2008) Nonstationary phase boundary estimation in electrical impedance tomography using unscented Kalman filter. Journal of Computational Physics, 227(15), pp. 7089-7112. (doi: 10.1016/j.jcp.2007.12.025)

Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551, Chung, Soon Il, Khambampati, Anil Kumar, Kim, Kyung Youn and Kim, Sin (2008) Electrical resistance imaging of a time-varying interface in stratified flows using an unscented Kalman filter. Measurement Science and Technology, 19(6), 065501. (doi: 10.1088/0957-0233/19/6/065501)

Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551, Khambampati, Anil Kumar, Kim, Min-Chan, Kim, Sin and Kim, Kyung-Youn (2007) Estimation of time-dependent heat flux and measurement bias in two-dimensional inverse heat conduction problems. International Journal of Heat and Mass Transfer, 50(21-22), pp. 4117-4130. (doi: 10.1016/j.ijheatmasstransfer.2007.02.037)

Kim, Yong Song, Lee, Seong Hun, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551, Kim, Kyung Youn and Choi, Bong Yeol (2007) Sensitivity map generation in electrical capacitance tomography using mixed normalization models. Measurement Science and Technology, 18(7), pp. 2092-2102. (doi: 10.1088/0957-0233/18/7/040)

Kim, Sin, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551, Khambampati, Anil Kumar, Kim, Kyung Youn, Kim, Min Chan and Chung, Soon Il (2007) Moving interfacial boundary estimation in stratified flow of two immiscible liquids using electrical resistance tomography. Measurement Science and Technology, 18(5), pp. 1257-1269. (doi: 10.1088/0957-0233/18/5/012)

Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551, Kim, Jeong-Hoon, Khambampati, Anil Kumar, Kim, Min-Chan, Kim, Sin and Kim, Kyung-Youn (2007) Concentration distribution estimation of fluid through electrical impedance tomography based on interacting multiple model scheme. Flow Measurement and Instrumentation, 18(1), pp. 47-56. (doi: 10.1016/j.flowmeasinst.2006.12.005)

Kim, Bong Seok, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551, Kim, Jeong Hoon, Kim, Min Chan, Kim, Sin and Kim, Kyung Youn (2007) Nonstationary phase boundary estimation in electrical impedance tomography based on the interacting multiple model scheme. Measurement Science and Technology, 18(1), pp. 62-70. (doi: 10.1088/0957-0233/18/1/008)

Ijaz, U.Z. ORCID: https://orcid.org/0000-0001-5780-8551, Kim, J.H., Kim, M.C., Kim, Sin, Park, J.W. and Kim, K.Y. (2006) Nondestructive dynamic process monitoring using electrical capacitance tomography. Key Engineering Materials, 321-32, pp. 1671-1674. (doi: 10.4028/www.scientific.net/KEM.321-323.1671)

Kim, Jae Hyoung, Kang, Byoung Chae, Lee, Seong Hun, Choi, Bong Yeol, Kim, Min Chan, Kim, Bong Seok, Ijaz, Umer Zeeshan ORCID: https://orcid.org/0000-0001-5780-8551, Kim, Kyung Youn and Kim, Sin (2006) Phase boundary estimation in electrical resistance tomography with weighted multi-layered neural networks and front point approach. Measurement Science and Technology, 17(10), pp. 2731-2739. (doi: 10.1088/0957-0233/17/10/027)

Book Sections

Ijaz, U.Z. ORCID: https://orcid.org/0000-0001-5780-8551, Prager, R.W., Gee, A.H. and Treece, G.M. (2011) Particle swarm optimization for in vivo 3D ultrasound volume registration. In: André, M.P., Jones, J.P. and Lee, H. (eds.) Acoustical Imaging. Series: Acoustical Imaging (30). Springer Netherlands: Dordrecht, pp. 345-354. ISBN 9789048132553 (doi: 10.1007/978-90-481-3255-3_39)

Ijaz, U.Z. ORCID: https://orcid.org/0000-0001-5780-8551, Prager, R.W., Gee, A.H. and Treece, G.M. (2011) A study of similarity measures for in vivo 3D ultrasound volume registration. In: André, M.P., Jones, J.P. and Lee, H. (eds.) Acoustical Imaging. Series: Acoustical Imaging (30). Springer: Dordrecht, pp. 315-323. ISBN 9789048132553 (doi: 10.1007/978-90-481-3255-3_36)

Conference or Workshop Item

Keating, Ciara ORCID: https://orcid.org/0000-0001-9199-3068, Hinchcliff, James, Davies, Robert ORCID: https://orcid.org/0000-0002-6342-2222, Wan, Alexander, Davies, Simon, Fitzgerald, Richard, Ijaz, Umer ORCID: https://orcid.org/0000-0001-5780-8551, Smith, Cindy ORCID: https://orcid.org/0000-0003-4905-0730 and Bolton, Majbritt (2019) Effects of Supplementing a Fishmeal Diet with Algae on the Hindgut Microbiome of Farmed Atlantic Cod (Gadus Morhua) [Poster]. 8th Congress of European Microbiologists, Glasgow, UK, 07-11 Jul 2019.

Svolos, V. et al. (2017) Dietary Manipulation of the Healthy Human and Colitic Murine Gut Microbiome by CD-TREAT Diet and Exclusive Enteral Nutrition; A Proof of Concept Studyy. 12th Congress of ECCO, Barcelona, Spain, 15-18 Feb 2017. S29-S30. (doi: 10.1093/ecco-jcc/jjx002.045)

Pedersen, C. et al. (2016) Galacto-Oligosaccharide has no Effect on Glucose Tolerance, inflammatory Markers or Intestinal Permeability in Well-controlled Type 2 Diabetes. Nutrition Society Summer Meeting: New Technology in Nutrition Research and Practice, Dublin, Ireland, 11-14 July 2016. (doi: 10.1017/S0029665116001191)

Svolos, V., Hansen, R., Hughes, K., Ijaz, U.Z. ORCID: https://orcid.org/0000-0001-5780-8551, Quince, C., Gaya, D., Russell, R. and Gerasimidis, K. ORCID: https://orcid.org/0000-0001-9432-2200 (2016) The Impact of ‘Crohn’s Disease-TReatment-with-EATing’ Diet (CD-TREAT Diet) and Exclusive Enteral Nutrition on Healthy Gut Bacteria Metabolism. 11th Congress of the European Crohn's and Colitis Organisation, Amsterdam, The Netherlands, 16-19 March 2016. S14-S15. (doi: 10.1093/ecco-jcc/jjw019.017)

Castelino, M., Eyre, S., Tutino, M., Moat, J., Martin, P., Ijaz, U. ORCID: https://orcid.org/0000-0001-5780-8551, Quince, C., Ho, P., Upton, M. and Barton, A. (2015) Bacterial Skin Microbiome in Psoriatic Arthritis: Pilot Data from Psoriatic Plaques on Dry Skin Sites from Patients with Psoriasis (PsC) and Psoriatic Arthritis (PsA). ACR/ARHP Annual Meeting, San Francisco, CA, USA, 6-11 Nov 2015. pp. 1-4046. (doi: 10.1002/art.39448)