2024

Attenborough, T., Rawlinson, K. A., Diaz Soria, C. L., Ambridge, K., Sankaranarayanan, G., Graham, J., Cotton, J. A. , Doyle, S. R., Rinaldi, G. and Berriman, M. (2024) A single-cell atlas of the miracidium larva of the human blood fluke Schistosoma mansoni: cell types, developmental pathways and tissue architecture. eLife, 13, RP95628. (doi: 10.7554/eLife.95628) (PMID:39190022) (PMCID:PMC11349301)

Diaz Soria, C. L. et al. (2024) Single-cell transcriptomics of the human parasite Schistosoma mansoni first intra-molluscan stage reveals tentative tegumental and stem-cell regulators. Scientific Reports, 14(1), 5974. (doi: 10.1038/s41598-024-55790-3) (PMID:38472267) (PMCID:PMC10933418)

Chevalier, F. D., Le Clec'h, W., Berriman, M. and Anderson, T. J.C. (2024) A single locus determines praziquantel response in Schistosoma mansoni. Antimicrobial Agents and Chemotherapy, 68(3), e01432-23. (doi: 10.1128/aac.01432-23) (PMID:38289079) (PMCID:PMC10916369)

Brann, T., Beltramini, A., Chaparro, C., Berriman, M., Doyle, S.R. and Protasio, A.V. (2024) Subtelomeric plasticity contributes to gene family expansion in the human parasitic flatworm Schistosoma mansoni. BMC Genomics, 25(1), 217. (doi: 10.1186/s12864-024-10032-8) (PMID:38413905) (PMCID:PMC10900676)

Herz, M. et al. (2024) Genome-wide transcriptome analysis of Echinococcus multilocularis larvae and germinative cell cultures reveals genes involved in parasite stem cell function. Frontiers in Cellular and Infection Microbiology, 14, 1335946. (doi: 10.3389/fcimb.2024.1335946) (PMID:38333034) (PMCID:PMC10850878)

2023

Padalino, G., Coghlan, A., Pagliuca, G., Forde-Thomas, J. E., Berriman, M. and Hoffmann, K. F. (2023) Using ChEMBL to complement schistosome drug discovery. Pharmaceutics, 15(5), 1359. (doi: 10.3390/pharmaceutics15051359) (PMID:37242601) (PMCID:PMC10220823)

2022

Rinaldi, G., Attenborough, T., Rawlinson, K. A. and Berriman, M. (2022) Schistosomes go single cell. Nature Reviews Microbiology, 20, p. 705. (doi: 10.1038/s41579-022-00810-0) (PMID:36229520)

Hoshizaki, J., Adjalley, S. H., Thathy, V., Judge, K., Berriman, M., Reid, A. J. and Lee, M. C. S. (2022) A manually curated annotation characterises genomic features of P. falciparum lncRNAs. BMC Genomics, 23, 780. (doi: 10.1186/s12864-022-09017-2) (PMID:36451097) (PMCID:PMC9710153)

Cortés, A. et al. (2022) The gut microbial metabolic capacity of microbiome-humanized vs. wild type rodents reveals a likely dual role of intestinal bacteria in hepato-intestinal schistosomiasis. PLoS Neglected Tropical Diseases, 16(10), e0010878. (doi: 10.1371/journal.pntd.0010878) (PMID:36279280) (PMCID:PMC9633004)

Vianney, T. J. et al. (2022) Genome-wide analysis of Schistosoma mansoni reveals limited population structure and possible praziquantel drug selection pressure within Ugandan hot-spot communities. PLoS Neglected Tropical Diseases, 16(8), e0010188. (doi: 10.1371/journal.pntd.0010188) (PMID:35981002) (PMCID:PMC9426917)

Coghlan, A., Padalino, G., O'Boyle, N. M., Hoffmann, K. F. and Berriman, M. (2022) Identification of anti-schistosomal, anthelmintic and anti-parasitic compounds curated and text-mined from the scientific literature. Wellcome Open Research, 7, 193. (doi: 10.12688/wellcomeopenres.17987.1) (PMID:36003342) (PMCID:PMC9363976)

Costain, A. H. et al. (2022) Dynamics of host immune response development during Schistosoma mansoni infection. Frontiers in Immunology, 13, 906338. (doi: 10.3389/fimmu.2022.906338) (PMID:35958580) (PMCID:PMC9362740)

Aunin, E., Berriman, M. and Reid, A. J. (2022) Characterising genome architectures using genome decomposition analysis. BMC Genomics, 23, 398. (doi: 10.1186/s12864-022-08616-3) (PMID:35610562) (PMCID:PMC9131526)

2020

Imamura, H., Monsieurs, P., Jara, M., Sanders, M., Maes, I., Vanaerschot, M., Berriman, M., Cotton, J. A. , Dujardin, J.-C. and Domagalska, M. A. (2020) Evaluation of whole genome amplification and bioinformatic methods for the characterization of Leishmania genomes at a single cell level. Scientific Reports, 10, 15043. (doi: 10.1038/s41598-020-71882-2) (PMID:32929126) (PMCID:PMC7490275)

2019

Sallé, G., Doyle, S.R., Cortet, J., Cabaret, J., Berriman, M., Holroyd, N. and Cotton, J.A. (2019) The global diversity of Haemonchus contortus is shaped by human intervention and climate. Nature Communications, 10, 4811. (doi: 10.1038/s41467-019-12695-4) (PMID:31641125) (PMCID:PMC6805936)

2018

Cotton, J. A. , Berriman, M., Dalén, L. and Barnes, I. (2018) Eradication genomics-lessons for parasite control. Science, 361(6398), pp. 130-131. (doi: 10.1126/science.aar6609) (PMID:30002241)

Sargison, N. D., Redman, E., Morrison, A. A., Bartley, D. J., Jackson, F., Naghra-van Gijzel, H., Holroyd, N., Berriman, M., Cotton, J. A. and Gilleard, J. S. (2018) A method for single pair mating in an obligate parasitic nematode. International Journal for Parasitology, 48(2), pp. 159-165. (doi: 10.1016/j.ijpara.2017.08.010) (PMID:29111440)

2017

Iantorno, S. A. et al. (2017) Gene expression in Leishmania is regulated predominantly by gene dosage. mBio, 8(5), e01393-17. (doi: 10.1128/mBio.01393-17) (PMID:28900023) (PMCID:PMC5596349)

Dumetz, F. et al. (2017) Modulation of aneuploidy in leishmania donovani during adaptation to different in vitro and in vivo environments and its impact on gene expression. mBio, 8(3), e00599-17. (doi: 10.1128/mBio.00599-17) (PMID:28536289) (PMCID:PMC5442457)

2016

Bennuru, S. et al. (2016) Stage-specific transcriptome and proteome analyses of the filarial parasite Onchocerca volvulus and its Wolbachia endosymbiont. mBio, 7(6), e02028-16. (doi: 10.1128/mBio.02028-16) (PMID:27881553) (PMCID:PMC5137501)

Cotton, J. A. et al. (2016) The genome of Onchocerca volvulus, agent of river blindness. Nature Microbiology, 2, 16216. (doi: 10.1038/nmicrobiol.2016.216) (PMID:27869790) (PMCID:PMC5310847)

Hunt, V. L. et al. (2016) The genomic basis of parasitism in the Strongyloides clade of nematodes. Nature Genetics, 48(3), pp. 299-307. (doi: 10.1038/ng.3495) (PMID:26829753) (PMCID:PMC4948059)

Crellen, T. et al. (2016) Whole genome resequencing of the human parasite Schistosoma mansoni reveals population history and effects of selection. Scientific Reports, 6, 20954. (doi: 10.1038/srep20954) (PMID:26879532) (PMCID:PMC4754680)

2014

Foth, B. J. et al. (2014) Whipworm genome and dual-species transcriptome analyses provide molecular insights into an intimate host-parasite interaction. Nature Genetics, 46(7), pp. 693-700. (doi: 10.1038/ng.3010) (PMID:24929830) (PMCID:PMC5012510)

Attardo, G. M. et al. (2014) Genome sequence of the Tsetse fly (Glossina morsitans): vector of African trypanosomiasis. Science, 344(6182), pp. 380-386. (doi: 10.1126/science.1249656) (PMID:24763584) (PMCID:PMC4077534)

Cotton, J. A. et al. (2014) The genome and life-stage specific transcriptomes of Globodera pallida elucidate key aspects of plant parasitism by a cyst nematode. Genome Biology, 15(3), R43. (doi: 10.1186/gb-2014-15-3-r43) (PMID:24580726) (PMCID:PMC4054857)

Rogers, M. B., Downing, T., Smith, B. A., Imamura, H., Sanders, M., Svobodova, M., Volf, P., Berriman, M., Cotton, J. A. and Smith, D. F. (2014) Genomic confirmation of hybridisation and recent inbreeding in a vector-isolated Leishmania population. PLoS Genetics, 10(1), e1004092. (doi: 10.1371/journal.pgen.1004092) (PMID:24453988) (PMCID:PMC3894156)

2013

Saunders, G. I., Wasmuth, J. D., Beech, R., Laing, R. , Hunt, M., Naghra, H., Cotton, J. A. , Berriman, M., Britton, C. and Gilleard, J. S. (2013) Characterization and comparative analysis of the complete Haemonchus contortus β-tubulin gene family and implications for benzimidazole resistance in strongylid nematodes. International Journal for Parasitology, 43(6), pp. 465-475. (doi: 10.1016/j.ijpara.2012.12.011) (PMID:23416426)

2012

Reid, A. J. et al. (2012) Comparative genomics of the apicomplexan parasites Toxoplasma gondii and neospora caninum: Coccidia differing in host range and transmission strategy. PLoS Pathogens, 8(3), e1002567. (doi: 10.1371/journal.ppat.1002567) (PMID:22457617) (PMCID:PMC3310773)

Articles

Attenborough, T., Rawlinson, K. A., Diaz Soria, C. L., Ambridge, K., Sankaranarayanan, G., Graham, J., Cotton, J. A. , Doyle, S. R., Rinaldi, G. and Berriman, M. (2024) A single-cell atlas of the miracidium larva of the human blood fluke Schistosoma mansoni: cell types, developmental pathways and tissue architecture. eLife, 13, RP95628. (doi: 10.7554/eLife.95628) (PMID:39190022) (PMCID:PMC11349301)

Diaz Soria, C. L. et al. (2024) Single-cell transcriptomics of the human parasite Schistosoma mansoni first intra-molluscan stage reveals tentative tegumental and stem-cell regulators. Scientific Reports, 14(1), 5974. (doi: 10.1038/s41598-024-55790-3) (PMID:38472267) (PMCID:PMC10933418)

Chevalier, F. D., Le Clec'h, W., Berriman, M. and Anderson, T. J.C. (2024) A single locus determines praziquantel response in Schistosoma mansoni. Antimicrobial Agents and Chemotherapy, 68(3), e01432-23. (doi: 10.1128/aac.01432-23) (PMID:38289079) (PMCID:PMC10916369)

Brann, T., Beltramini, A., Chaparro, C., Berriman, M., Doyle, S.R. and Protasio, A.V. (2024) Subtelomeric plasticity contributes to gene family expansion in the human parasitic flatworm Schistosoma mansoni. BMC Genomics, 25(1), 217. (doi: 10.1186/s12864-024-10032-8) (PMID:38413905) (PMCID:PMC10900676)

Herz, M. et al. (2024) Genome-wide transcriptome analysis of Echinococcus multilocularis larvae and germinative cell cultures reveals genes involved in parasite stem cell function. Frontiers in Cellular and Infection Microbiology, 14, 1335946. (doi: 10.3389/fcimb.2024.1335946) (PMID:38333034) (PMCID:PMC10850878)

Padalino, G., Coghlan, A., Pagliuca, G., Forde-Thomas, J. E., Berriman, M. and Hoffmann, K. F. (2023) Using ChEMBL to complement schistosome drug discovery. Pharmaceutics, 15(5), 1359. (doi: 10.3390/pharmaceutics15051359) (PMID:37242601) (PMCID:PMC10220823)

Rinaldi, G., Attenborough, T., Rawlinson, K. A. and Berriman, M. (2022) Schistosomes go single cell. Nature Reviews Microbiology, 20, p. 705. (doi: 10.1038/s41579-022-00810-0) (PMID:36229520)

Hoshizaki, J., Adjalley, S. H., Thathy, V., Judge, K., Berriman, M., Reid, A. J. and Lee, M. C. S. (2022) A manually curated annotation characterises genomic features of P. falciparum lncRNAs. BMC Genomics, 23, 780. (doi: 10.1186/s12864-022-09017-2) (PMID:36451097) (PMCID:PMC9710153)

Cortés, A. et al. (2022) The gut microbial metabolic capacity of microbiome-humanized vs. wild type rodents reveals a likely dual role of intestinal bacteria in hepato-intestinal schistosomiasis. PLoS Neglected Tropical Diseases, 16(10), e0010878. (doi: 10.1371/journal.pntd.0010878) (PMID:36279280) (PMCID:PMC9633004)

Vianney, T. J. et al. (2022) Genome-wide analysis of Schistosoma mansoni reveals limited population structure and possible praziquantel drug selection pressure within Ugandan hot-spot communities. PLoS Neglected Tropical Diseases, 16(8), e0010188. (doi: 10.1371/journal.pntd.0010188) (PMID:35981002) (PMCID:PMC9426917)

Coghlan, A., Padalino, G., O'Boyle, N. M., Hoffmann, K. F. and Berriman, M. (2022) Identification of anti-schistosomal, anthelmintic and anti-parasitic compounds curated and text-mined from the scientific literature. Wellcome Open Research, 7, 193. (doi: 10.12688/wellcomeopenres.17987.1) (PMID:36003342) (PMCID:PMC9363976)

Costain, A. H. et al. (2022) Dynamics of host immune response development during Schistosoma mansoni infection. Frontiers in Immunology, 13, 906338. (doi: 10.3389/fimmu.2022.906338) (PMID:35958580) (PMCID:PMC9362740)

Aunin, E., Berriman, M. and Reid, A. J. (2022) Characterising genome architectures using genome decomposition analysis. BMC Genomics, 23, 398. (doi: 10.1186/s12864-022-08616-3) (PMID:35610562) (PMCID:PMC9131526)

Imamura, H., Monsieurs, P., Jara, M., Sanders, M., Maes, I., Vanaerschot, M., Berriman, M., Cotton, J. A. , Dujardin, J.-C. and Domagalska, M. A. (2020) Evaluation of whole genome amplification and bioinformatic methods for the characterization of Leishmania genomes at a single cell level. Scientific Reports, 10, 15043. (doi: 10.1038/s41598-020-71882-2) (PMID:32929126) (PMCID:PMC7490275)

Sallé, G., Doyle, S.R., Cortet, J., Cabaret, J., Berriman, M., Holroyd, N. and Cotton, J.A. (2019) The global diversity of Haemonchus contortus is shaped by human intervention and climate. Nature Communications, 10, 4811. (doi: 10.1038/s41467-019-12695-4) (PMID:31641125) (PMCID:PMC6805936)

Cotton, J. A. , Berriman, M., Dalén, L. and Barnes, I. (2018) Eradication genomics-lessons for parasite control. Science, 361(6398), pp. 130-131. (doi: 10.1126/science.aar6609) (PMID:30002241)

Sargison, N. D., Redman, E., Morrison, A. A., Bartley, D. J., Jackson, F., Naghra-van Gijzel, H., Holroyd, N., Berriman, M., Cotton, J. A. and Gilleard, J. S. (2018) A method for single pair mating in an obligate parasitic nematode. International Journal for Parasitology, 48(2), pp. 159-165. (doi: 10.1016/j.ijpara.2017.08.010) (PMID:29111440)

Iantorno, S. A. et al. (2017) Gene expression in Leishmania is regulated predominantly by gene dosage. mBio, 8(5), e01393-17. (doi: 10.1128/mBio.01393-17) (PMID:28900023) (PMCID:PMC5596349)

Dumetz, F. et al. (2017) Modulation of aneuploidy in leishmania donovani during adaptation to different in vitro and in vivo environments and its impact on gene expression. mBio, 8(3), e00599-17. (doi: 10.1128/mBio.00599-17) (PMID:28536289) (PMCID:PMC5442457)

Bennuru, S. et al. (2016) Stage-specific transcriptome and proteome analyses of the filarial parasite Onchocerca volvulus and its Wolbachia endosymbiont. mBio, 7(6), e02028-16. (doi: 10.1128/mBio.02028-16) (PMID:27881553) (PMCID:PMC5137501)

Cotton, J. A. et al. (2016) The genome of Onchocerca volvulus, agent of river blindness. Nature Microbiology, 2, 16216. (doi: 10.1038/nmicrobiol.2016.216) (PMID:27869790) (PMCID:PMC5310847)

Hunt, V. L. et al. (2016) The genomic basis of parasitism in the Strongyloides clade of nematodes. Nature Genetics, 48(3), pp. 299-307. (doi: 10.1038/ng.3495) (PMID:26829753) (PMCID:PMC4948059)

Crellen, T. et al. (2016) Whole genome resequencing of the human parasite Schistosoma mansoni reveals population history and effects of selection. Scientific Reports, 6, 20954. (doi: 10.1038/srep20954) (PMID:26879532) (PMCID:PMC4754680)

Foth, B. J. et al. (2014) Whipworm genome and dual-species transcriptome analyses provide molecular insights into an intimate host-parasite interaction. Nature Genetics, 46(7), pp. 693-700. (doi: 10.1038/ng.3010) (PMID:24929830) (PMCID:PMC5012510)

Attardo, G. M. et al. (2014) Genome sequence of the Tsetse fly (Glossina morsitans): vector of African trypanosomiasis. Science, 344(6182), pp. 380-386. (doi: 10.1126/science.1249656) (PMID:24763584) (PMCID:PMC4077534)

Cotton, J. A. et al. (2014) The genome and life-stage specific transcriptomes of Globodera pallida elucidate key aspects of plant parasitism by a cyst nematode. Genome Biology, 15(3), R43. (doi: 10.1186/gb-2014-15-3-r43) (PMID:24580726) (PMCID:PMC4054857)

Rogers, M. B., Downing, T., Smith, B. A., Imamura, H., Sanders, M., Svobodova, M., Volf, P., Berriman, M., Cotton, J. A. and Smith, D. F. (2014) Genomic confirmation of hybridisation and recent inbreeding in a vector-isolated Leishmania population. PLoS Genetics, 10(1), e1004092. (doi: 10.1371/journal.pgen.1004092) (PMID:24453988) (PMCID:PMC3894156)

Saunders, G. I., Wasmuth, J. D., Beech, R., Laing, R. , Hunt, M., Naghra, H., Cotton, J. A. , Berriman, M., Britton, C. and Gilleard, J. S. (2013) Characterization and comparative analysis of the complete Haemonchus contortus β-tubulin gene family and implications for benzimidazole resistance in strongylid nematodes. International Journal for Parasitology, 43(6), pp. 465-475. (doi: 10.1016/j.ijpara.2012.12.011) (PMID:23416426)

Reid, A. J. et al. (2012) Comparative genomics of the apicomplexan parasites Toxoplasma gondii and neospora caninum: Coccidia differing in host range and transmission strategy. PLoS Pathogens, 8(3), e1002567. (doi: 10.1371/journal.ppat.1002567) (PMID:22457617) (PMCID:PMC3310773)