2021

Steketee, P. C., Giordani, F. , Vincent, I. M. , Crouch, K. , Achcar, F. , Dickens, N. J. , Morrison, L. J., MacLeod, A. and Barrett, M. P. (2021) Transcriptional differentiation of Trypanosoma brucei during in vitro acquisition of resistance to acoziborole. PLoS Neglected Tropical Diseases, 15(11), e0009939. (doi: 10.1371/journal.pntd.0009939) (PMID:34752454) (PMCID:PMC8648117)

Meibalan, E. et al. (2021) Plasmodium falciparum gametocyte density and infectivity in peripheral blood and skin tissue of naturally infected parasite carriers in Burkina Faso. Journal of Infectious Diseases, 223(10), pp. 1822-1830. (doi: 10.1093/infdis/jiz680) (PMID:31875909) (PMCID:PMC8161640)

2020

Blackburn, G. et al. (2020) Running on empty: a metabolomics approach to investigating changing energy metabolism during fasted exercise and rest. Metabolites, 10(10), 399. (doi: 10.3390/metabo10100399) (PMID:33050077) (PMCID:PMC7600507)

Zoltner, M. et al. (2020) Suramin exposure alters cellular metabolism and mitochondrial energy production in African trypanosomes. Journal of Biological Chemistry, 295(24), pp. 8331-8347. (doi: 10.1074/jbc.ra120.012355) (PMID:32354742) (PMCID:PMC7294092)

2019

Ngotho, P., Blancke Soares, A., Hentzschel, F., Achcar, F. , Bertuccini, L. and Marti, M. (2019) Revisiting gametocyte biology in malaria parasites. FEMS Microbiology Reviews, 43(4), pp. 401-414. (doi: 10.1093/femsre/fuz010) (PMID:31220244) (PMCID:PMC6606849)

Johnston, K., Kim, D.-H., Kerkhoven, E. J., Burchmore, R. , Barrett, M. P. and Achcar, F. (2019) Mapping the metabolism of five amino acids in bloodstream form Trypanosoma brucei using U-13C-labelled substrates and LC-MS. Bioscience Reports, 39(5), BSR2018160. (doi: 10.1042/BSR20181601) (PMID:31028136) (PMCID:PMC6522824)

2018

Steketee, P. C. et al. (2018) Benzoxaborole treatment perturbs S-adenosyl-L-methionine metabolism in Trypanosoma brucei. PLoS Neglected Tropical Diseases, 12(5), e0006450. (doi: 10.1371/journal.pntd.0006450) (PMID:29758036) (PMCID:PMC5976210)

Kovarova, J., Pountain, A. W. , Wildridge, D., Weidt, S., Bringaud, F., Burchmore, R. J.S. , Achcar, F. and Barrett, M. P. (2018) Deletion of transketolase triggers a stringent metabolic response in promastigotes and loss of virulence in amastigotes of Leishmania mexicana. PLoS Pathogens, 14(3), e1006953. (doi: 10.1371/journal.ppat.1006953) (PMID:29554142) (PMCID:PMC5882173)

Rattigan, K. M., Pountain, A. W. , Regnault, C., Achcar, F. , Vincent, I. M. , Goodyear, C. S. and Barrett, M. P. (2018) Metabolomic profiling of macrophages determines the discrete metabolomic signature and metabolomic interactome triggered by polarising immune stimuli. PLoS ONE, 13(3), e0194126. (doi: 10.1371/journal.pone.0194126) (PMID:29538444) (PMCID:PMC5851634)

2015

Kim, D.-H., Achcar, F. , Breitling, R. , Burgess, K. E. and Barrett, M. P. (2015) LC–MS-based absolute metabolite quantification: application to metabolic flux measurement in trypanosomes. Metabolomics, 11(6), pp. 1721-1732. (doi: 10.1007/s11306-015-0827-2) (PMID:26491423) (PMCID:PMC4605981)

Creek, D. J. et al. (2015) Probing the metabolic network in bloodstream-form Trypanosoma brucei using untargeted metabolomics with stable isotope labelled glucose. PLoS Pathogens, 11(3), e1004689. (doi: 10.1371/journal.ppat.1004689) (PMID:25775470) (PMCID:PMC4361558)

Shameer, S. et al. (2015) TrypanoCyc: a community-led biochemical pathways database for Trypanosoma brucei. Nucleic Acids Research, 43(D1), D637-D644. (doi: 10.1093/nar/gku944) (PMID:25300491) (PMCID:PMC4384016)

2014

Achcar, F. , Kerkhoven, E. J. and Barrett, M. P. (2014) Trypanosoma brucei: meet the system. Current Opinion in Microbiology, 20, pp. 162-169. (doi: 10.1016/j.mib.2014.06.007)

Achcar, F. et al. (2014) The silicon trypanosome: a test case of iterative model extension in systems biology. Advances in Microbial Physiology, 64, pp. 115-143. (doi: 10.1016/B978-0-12-800143-1.00003-8) (PMID:24797926) (PMCID:PMC4773886)

2013

Kerkhoven, E. J. et al. (2013) Handling uncertainty in dynamic models: the pentose phosphate pathway in trypanosoma brucei. PLoS Computational Biology, 9(12), e1003371. (doi: 10.1371/journal.pcbi.1003371) (PMID:24339766) (PMCID:PMC3854711)

Achcar, F. , Barrett, M.P. and Breitling, R. (2013) Explicit consideration of topological and parameter uncertainty gives new insights into a well-established model of glycolysis. FEBS Journal, 280(18), pp. 4640-4651. (doi: 10.1111/febs.12436) (PMID:23865459) (PMCID:PMC4768353)

Breitling, R. , Achcar, F. and Takano, E. (2013) Modeling challenges in the synthetic biology of secondary metabolism. ACS Synthetic Biology, 2(7), pp. 373-378. (doi: 10.1021/sb4000228)

Chokkathukalam, A., Jankevics, A., Creek, D.J., Achcar, F., Barrett, M.P. and Breitling, R. (2013) mzMatch-ISO: an R tool for the annotation and relative quantification of isotope-labelled mass spectrometry data. Bioinformatics, 29(2), pp. 281-283. (doi: 10.1093/bioinformatics/bts674) (PMID:23162054) (PMCID:PMC3546800)

2012

Achcar, F., Kerkhoven, E.J., SilicoTryp Consortium, , Bakker, B.M., Barrett, M.P. and Breitling, R. (2012) Dynamic modelling under uncertainty: the case of Trypanosoma brucei energy metabolism. PLoS Computational Biology, 8(1), e1002352. (doi: 10.1371/journal.pcbi.1002352) (PMID:22379410) (PMCID:PMC3269904)

2011

Achcar, F. , Camadro, J.-M. and Mestivier, D. (2011) A Boolean probabilistic model of metabolic adaptation to oxygen in relation to iron homeostasis and oxidative stress. BMC Systems Biology, 5, 51. (doi: 10.1186/1752-0509-5-51) (PMID:26050742) (PMCID:PMC4464606)

2009

Achcar, F. , Camadro, J.-M. and Mestivier, D. (2009) AutoClass@IJM: a powerful tool for Bayesian classification of heterogeneous data in biology. Nucleic Acids Research, 37(Sup 2), W63-W67. (doi: 10.1093/nar/gkp430) (PMID:19474346) (PMCID:PMC2703914)

Articles

Steketee, P. C., Giordani, F. , Vincent, I. M. , Crouch, K. , Achcar, F. , Dickens, N. J. , Morrison, L. J., MacLeod, A. and Barrett, M. P. (2021) Transcriptional differentiation of Trypanosoma brucei during in vitro acquisition of resistance to acoziborole. PLoS Neglected Tropical Diseases, 15(11), e0009939. (doi: 10.1371/journal.pntd.0009939) (PMID:34752454) (PMCID:PMC8648117)

Meibalan, E. et al. (2021) Plasmodium falciparum gametocyte density and infectivity in peripheral blood and skin tissue of naturally infected parasite carriers in Burkina Faso. Journal of Infectious Diseases, 223(10), pp. 1822-1830. (doi: 10.1093/infdis/jiz680) (PMID:31875909) (PMCID:PMC8161640)

Blackburn, G. et al. (2020) Running on empty: a metabolomics approach to investigating changing energy metabolism during fasted exercise and rest. Metabolites, 10(10), 399. (doi: 10.3390/metabo10100399) (PMID:33050077) (PMCID:PMC7600507)

Zoltner, M. et al. (2020) Suramin exposure alters cellular metabolism and mitochondrial energy production in African trypanosomes. Journal of Biological Chemistry, 295(24), pp. 8331-8347. (doi: 10.1074/jbc.ra120.012355) (PMID:32354742) (PMCID:PMC7294092)

Ngotho, P., Blancke Soares, A., Hentzschel, F., Achcar, F. , Bertuccini, L. and Marti, M. (2019) Revisiting gametocyte biology in malaria parasites. FEMS Microbiology Reviews, 43(4), pp. 401-414. (doi: 10.1093/femsre/fuz010) (PMID:31220244) (PMCID:PMC6606849)

Johnston, K., Kim, D.-H., Kerkhoven, E. J., Burchmore, R. , Barrett, M. P. and Achcar, F. (2019) Mapping the metabolism of five amino acids in bloodstream form Trypanosoma brucei using U-13C-labelled substrates and LC-MS. Bioscience Reports, 39(5), BSR2018160. (doi: 10.1042/BSR20181601) (PMID:31028136) (PMCID:PMC6522824)

Steketee, P. C. et al. (2018) Benzoxaborole treatment perturbs S-adenosyl-L-methionine metabolism in Trypanosoma brucei. PLoS Neglected Tropical Diseases, 12(5), e0006450. (doi: 10.1371/journal.pntd.0006450) (PMID:29758036) (PMCID:PMC5976210)

Kovarova, J., Pountain, A. W. , Wildridge, D., Weidt, S., Bringaud, F., Burchmore, R. J.S. , Achcar, F. and Barrett, M. P. (2018) Deletion of transketolase triggers a stringent metabolic response in promastigotes and loss of virulence in amastigotes of Leishmania mexicana. PLoS Pathogens, 14(3), e1006953. (doi: 10.1371/journal.ppat.1006953) (PMID:29554142) (PMCID:PMC5882173)

Rattigan, K. M., Pountain, A. W. , Regnault, C., Achcar, F. , Vincent, I. M. , Goodyear, C. S. and Barrett, M. P. (2018) Metabolomic profiling of macrophages determines the discrete metabolomic signature and metabolomic interactome triggered by polarising immune stimuli. PLoS ONE, 13(3), e0194126. (doi: 10.1371/journal.pone.0194126) (PMID:29538444) (PMCID:PMC5851634)

Kim, D.-H., Achcar, F. , Breitling, R. , Burgess, K. E. and Barrett, M. P. (2015) LC–MS-based absolute metabolite quantification: application to metabolic flux measurement in trypanosomes. Metabolomics, 11(6), pp. 1721-1732. (doi: 10.1007/s11306-015-0827-2) (PMID:26491423) (PMCID:PMC4605981)

Creek, D. J. et al. (2015) Probing the metabolic network in bloodstream-form Trypanosoma brucei using untargeted metabolomics with stable isotope labelled glucose. PLoS Pathogens, 11(3), e1004689. (doi: 10.1371/journal.ppat.1004689) (PMID:25775470) (PMCID:PMC4361558)

Shameer, S. et al. (2015) TrypanoCyc: a community-led biochemical pathways database for Trypanosoma brucei. Nucleic Acids Research, 43(D1), D637-D644. (doi: 10.1093/nar/gku944) (PMID:25300491) (PMCID:PMC4384016)

Achcar, F. , Kerkhoven, E. J. and Barrett, M. P. (2014) Trypanosoma brucei: meet the system. Current Opinion in Microbiology, 20, pp. 162-169. (doi: 10.1016/j.mib.2014.06.007)

Achcar, F. et al. (2014) The silicon trypanosome: a test case of iterative model extension in systems biology. Advances in Microbial Physiology, 64, pp. 115-143. (doi: 10.1016/B978-0-12-800143-1.00003-8) (PMID:24797926) (PMCID:PMC4773886)

Kerkhoven, E. J. et al. (2013) Handling uncertainty in dynamic models: the pentose phosphate pathway in trypanosoma brucei. PLoS Computational Biology, 9(12), e1003371. (doi: 10.1371/journal.pcbi.1003371) (PMID:24339766) (PMCID:PMC3854711)

Achcar, F. , Barrett, M.P. and Breitling, R. (2013) Explicit consideration of topological and parameter uncertainty gives new insights into a well-established model of glycolysis. FEBS Journal, 280(18), pp. 4640-4651. (doi: 10.1111/febs.12436) (PMID:23865459) (PMCID:PMC4768353)

Breitling, R. , Achcar, F. and Takano, E. (2013) Modeling challenges in the synthetic biology of secondary metabolism. ACS Synthetic Biology, 2(7), pp. 373-378. (doi: 10.1021/sb4000228)

Chokkathukalam, A., Jankevics, A., Creek, D.J., Achcar, F., Barrett, M.P. and Breitling, R. (2013) mzMatch-ISO: an R tool for the annotation and relative quantification of isotope-labelled mass spectrometry data. Bioinformatics, 29(2), pp. 281-283. (doi: 10.1093/bioinformatics/bts674) (PMID:23162054) (PMCID:PMC3546800)

Achcar, F., Kerkhoven, E.J., SilicoTryp Consortium, , Bakker, B.M., Barrett, M.P. and Breitling, R. (2012) Dynamic modelling under uncertainty: the case of Trypanosoma brucei energy metabolism. PLoS Computational Biology, 8(1), e1002352. (doi: 10.1371/journal.pcbi.1002352) (PMID:22379410) (PMCID:PMC3269904)

Achcar, F. , Camadro, J.-M. and Mestivier, D. (2011) A Boolean probabilistic model of metabolic adaptation to oxygen in relation to iron homeostasis and oxidative stress. BMC Systems Biology, 5, 51. (doi: 10.1186/1752-0509-5-51) (PMID:26050742) (PMCID:PMC4464606)

Achcar, F. , Camadro, J.-M. and Mestivier, D. (2009) AutoClass@IJM: a powerful tool for Bayesian classification of heterogeneous data in biology. Nucleic Acids Research, 37(Sup 2), W63-W67. (doi: 10.1093/nar/gkp430) (PMID:19474346) (PMCID:PMC2703914)