Publications

Google Scholar publication list
Pubmed publication list
bioRxiv/medRxiv publication list
(Lists for Guillaume. For other lab members, please refer to their respective pages).

Recent publications in:



An asterisk denotes joint authorship in the list below. The list includes some preprints currently under peer-review and in preparation.

2024

  • Maukonen M, Koponen KK, Havulinna AS, Kaartinen NE, Niiranen T, Meric G, Pajari A-M, Knight R, Salomaa V, Männistö S. (2024) Associations of plant-based foods, red and processed meat, and dairy with gut microbiome in Finnish adults. European Journal of Nutrition (accepted)
  • Liu Y, Ritchie SC, Teo SM, Ruuskanen MO, Kambur O, Zhu Q, Sanders J, Vazquez-Baeza Y, Verspoor KM, Jousilahti P, Lahti L, Niiranen T, Salomaa V, Havulinna A, Knight R, Méric G, Inouye M. (2024) Integration of polygenic and gut metagenomic risk prediction for common diseases. Nature Aging (in press) [OA, publisher, altmetrics]
  • Kitamura N, Kajihara T, Volpiano CG, Naung M, Méric G, Hirabayashi A, Yano H, Yamamoto M, Yoshida F, Kobayashi T, Yamanashi S, Kawamura T, Matsunaga N, Okochi J, Sugai M, Yahara K. (2024) Exploring the effects of antimicrobial treatment on the gut and oral microbiomes and resistomes from elderly long-term care facility residents via shotgun DNA sequencing. Microbial Genomics 10(2) [OA, publisher, altmetrics]
  • Liu Y, Fachrul M, Inouye M, Méric G (2024) Harnessing human microbiomes for disease prediction. Trends in Microbiology (in press) [$, publisher, altmetrics]
  • Koponen K, Kambur O, Joseph B, Ruuskanen MO, Jousilahti P, Salido R, Sanders K, Brennan C, Humphrey G, Sanders J, Jain M, Méric G, Inouye M, Lahti L, Niiranen T, Havulinna AS, Knight R, Salomaa V. (2024) The role of gut microbiota in statin-associated new-onset diabetes mellitus – a cross-sectional and prospective analysis of the FINRISK 2002 cohort. Arteriosclerosis, Thrombosis, and Vascular Biology 44(2):477-487 [OA, publisher, editorial commentary, altmetrics]

2023

  • Muralitharan R*, Snelson M*, Méric G, Coughlan MT, Marques FZ (2023) Guidelines for microbiome studies in renal physiology. American Journal of Physiology-Renal Physiology 325(3):F345-F362 [OA, publisher, altmetrics]
  • O’Donnell JA, Zheng T, Méric G, Marques FZ (2023) The gut microbiome and hypertension. Nature Reviews Nephrology 19:153-167 [OA, publisher, altmetrics]
  • Liu Y, Teo SM, Méric G, Tang HHF, Zhu Q, Sanders JG, Vazquez-Baeza Y, Verspoor K, Vartiainen VA, Jousilahti P, Lahti L, Niiranen T, Havulinna AS, Knight R, Salomaa V, Inouye M (2023). The gut microbiome is a significant risk factor for future chronic lung disease. Journal of Allergy and Clinical Immunology 151(4):943-952 [OA, publisher, medRxiv preprint, altmetrics]

2022

  • Fachrul M, Méric G, Inouye M, Pamp SJ, Salim A. (2022) Assessing and removing the effect of unwanted technical variations in microbiome data. Scientific Reports 12:22236 [OA, publisher, 2021 preprint, Twitter thread, altmetrics]
  • Tucker K, Mageiros L, Carstens A, Bröcker L, Archer E, Smith K, Mourkas E, Pascoe B, Nel D, Méric G, Sheppard SK, Kasprzyk-Hordern B, Botes M, Feil EJ, and Wolfaardt G (2022) Spatiotemporal investigation of antibiotic resistance in the urban water cycle influenced by environmental and anthropogenic activity. Microbiology Spectrum 10(5):e0247322 [OA, publisher, altmetrics]
  • Kittiwan N, Calland JK, Mourkas E, Hitchings MD, Murray S, Tadee P, Tadee P, Duangsonk K, Méric G, Sheppard SK, Patchanee P, Pascoe B (2022) Genetic diversity and variation in antimicrobial-resistance determinants of non-serotype 2 Streptococcus suis isolates from healthy pigs. Microbial Genomics 8(11) [OA, publisher, 2021 preprint, altmetrics]
  • Liu Y, Méric G, Havulinna AS, Teo SM, Ruuskanen M, Sanders J, Zhu Q, Tripathi A, Verspoor K, Cheng S, Jain M, Jousilahti P, Vazquez-Baeza Y, Loomba R, Lahti L, Niiranen T, Salomaa V, Knight R, Inouye M (2022) Early prediction of liver disease using conventional risk factors and gut microbiome-augmented gradient boosting. Cell Metabolism 34(5):719-730.e4 [OA, publisher, medRxiv 2020 preprint, altmetrics]
  • Mourkas E, Yahara K, Bayliss SC, Calland JK, Johansson H, Mageiros L, Munoz-Ramirez Y, Futcher G, Méric G, Hitchings MD, Sandoval-Motta S, Torres J, Jolley KA, Maiden MCJ, Ellstrom P, Waldenstrom J, Pascoe B, Sheppard SK (2022) Host ecology regulates interspecies recombination in bacteria of the genus Campylobacter. eLife 11:e73552 [OA, publisher, 2021 preprint, altmetrics]
  • Qin Y, Havulinna AS, Liu Y, Jousilahti P, Ritchie SC, Tokolyi A, Sanders JG, Valsta L, Brozynska M, Zhu Q, Tripathi A, Vazquez-Baeza Y, Loomba R, Cheng S, Jain M, Niiranen T, Lahti L, Knight R, Salomaa V, Inouye M*, Méric G* (2022) Combined effects of host genetics and diet on human gut microbiota and incident disease in a single population cohort. Nature Genetics 54:134–142 [publisher, GWAS Catalog, medRxiv 2019 preprint, altmetrics, press release, press coverage 1, 2 (in french), 3 (in german), 4, 5 (in french), 6 (in finnish)]
  • Zhu Q, Huang S, Gonzalez A, McGrath I, McDonald D, Haiminen N, Armstrong G, Vázquez-Baeza Y, Yu J, Kuczynski J, Sepich-Poore GD, Swafford AD, Das P, Shaffer JP, Lejzerowicz F, Balda-Ferre P, Havulinna AS, Méric G, Niiranen T, Lahti L, Salomaa V, Kim HC, Jain M, Inouye M, Gilbert JA, Knight R. (2022) Phylogeny-Aware Analysis of Metagenome Community Ecology Based on Matched Reference Genomes while Bypassing Taxonomy. mSystems e0016722 [OA, publisher, press coverage, Twitter thread, bioRxiv preprint, altmetrics]
  • Grealey JG*, Lannelongue L*, Saw W-Y, Marten J, Méric G, Ruiz-Carmona S, Inouye M. (2022) The carbon footprint of bioinformatics. Molecular Biology and Evolution, msac034 [OA, publisher, Twitter thread, altmetrics, Green Algorithms website]
  • Ruuskanen MO, Erawijantari PP, Havulinna AS, Liu Y, Méric G, Tuomilehto J, Inouye M, Jousilahti P, Salomaa V, Jain M, Knight R, Lahti L, Niiranen TJ (2022) Gut microbiome composition is predictive of incident type 2 diabetes in a population cohort of 5,572 Finnish adults. Diabetes Care, dc212358 [$, publisher, medRxiv 2021 preprint]

2021

  • Mäklin T, Kallonen T, David S, Boinett CJ, Pascoe B, Méric G, Aanensen DM, Feil EJ,  Baker S, Parkhill J, Sheppard SK, Corander J, Honkela A. (2021) High-resolution sweep metagenomics using fast probabilistic inference [version 2; peer review: 1 approved, 1 approved with reservations]. Wellcome Open Res 5:14 [OA, link] + bioRxiv 332544. [OA, link, altmetrics, github]
  • Wick RR, Judd LM, Cerdeira LT, Hawkey J, Méric G, Vezina B, Wyres KL, Holt KE (2021) Trycycler: consensus long-read assemblies for bacterial genomes. Genome Biology 22:266 [OA, publisher, github, Twitter thread, altmetrics]
  • Armstrong GW, Cantrell K, Huang S, McDonald D, Haiminen N, Carrieri AP, Zhu Q, Gonzalez A, McGrath I, Beck K, Hakim D, Havulinna AS, Méric G, Niiranen T, Lahti L, Salomaa V, Jain M, Inouye M, Swafford AD, Kim HC, Parida L, Vàzquez-Baeza Y, Knight R (2021) Efficient computation of Faith’s phylogenetic diversity with applications in characterizing microbiomes. Genome Research gr.275777.121. [publisher, altmetrics]
  • Salosensaari A*, Laitinen V*, Havulinna AS, Méric G, Cheng S, Perola M, Valsta L, Alfthan G, Inouye M, Watrous JD, Long T, Salido R, Sanders K, Brennan C, Humphrey GC, Sanders JG, Jain M, Jousilahti P, Salomaa V, Knight R, Lahti L*, Niiranen T*. (2021) Taxonomic signatures of long-term mortality risk in human gut microbiota. Nature Communications 12:2671 [OA, publisher, medRxiv preprint, media coverage, EGA repository, altmetrics]
  • Ruuskanen MO, Åberg F, Männistö V, Havulinna AS, Méric G, Liu Y, Loomba R, Vázquez-Baeza Y, Tripathi A, Valsta LM, Inouye M, Jousilahti P, Salomaa V, Jain M, Knight R, Lahti L, Niiranen TJ (2021) Links between gut microbiome composition and fatty liver disease in large population sample. Gut Microbes 13(1) [OA, publisher, preprint medRxiv, Twitter thread, altmetrics]
  • Koponen K, Salosensaari A, Ruuskanen M, Havulinna AS, Männistö S, Jousilahti P, Palmu J, Salido R, Sanders K, Brennan C, Humphrey G, Sanders J, Méric G, Cheng S, Inouye M, Jain M, Niiranen T, Valsta L, Knight R, Salomaa V. (2021) Associations of healthy food choices with gut microbiome profiles. The American Journal of Clinical Nutrition, nqab077. [publisher, AJCN editorial, altmetrics].
  • Mageiros L, Méric G, Bayliss SC, Pensar J, Pascoe B, Mourkas E, Calland JK, Yahara K, Murray S, Hitchings MD, Elvidge J, Kemmett K, Feil E, Jolley KA, Williams NJ, Corander J, Sheppard SK (2021) Population genomics and evolution of avian pathogenic Escherichia coli. Nature Communications 12:765 [OA, publisher, Twitter thread, NCBI Bioproject, Figshare, altmetrics]

2020

  • Pascoe B, Schiaffino F, Murray S, Méric G, Bayliss SC, Hitchings MD, Mourkas E, Calland JK, Burga R, Yori PP, Jolley KA, Cooper K, Parker CT, Olortegui MP, Kosek MN, Sheppard SK (2020) Genomic epidemiology of Campylobacter jejuni associated with asymptomatic paediatric infection in the Peruvian Amazon. PLoS Neglected Tropical Diseases 14(8): e0008533 [OA, publisher, medRxiv preprint, altmetrics]
  • Qin Y, Méric G, Long T, Watrous JD, Burgess S, Havulinna AS, Ritchie SC, Brozynska M, Jousilahti P, Perola M, Lahti L, Niiranen T, Cheng S, Salomaa V, Jain M, Inouye M (2020) Genome-wide association and Mendelian randomisation analysis prioritises bioactive metabolites with putative causal effects on common diseases. medRxiv [OA, preprint, altmetrics]
  • Mourkas E, Taylor AJ, Méric G, Bayliss SC, Pascoe B, Mageiros L, Calland JK, Hitchings MD, Ridley A, Vidal A, Forbes KJ, Strachan NJC, Parker CT, Parkhill J, Jolley KA, Cody AJ, Maiden MCJ, Kelly DJ*, Sheppard SK* (2020) Agricultural intensification and the evolution of host specialism in the enteric pathogen Campylobacter jejuni. PNAS 117(20):11018-11028 [OA, link, NCBI BioProjet, figshare, altmetrics, press release, video, media coverage 1, 2, 3 ,4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14]

2019

  • Méric G*, Wick RR*, Watts SC, Holt KE, Inouye M. (2019) Correcting index databases improves metagenomic studies. bioRxiv 712166 [OA, preprint, altmetrics, git-hub, figshare, Twitter thread]
  • Espadinha D, Sobral R, Mendes C, Méric G, Sheppard SK, Carrico J, de Lencastre H, Miragaia M. (2019) Distinct phenotypic and genomic signatures underlie contrasting pathogenic potential of Staphylococcus epidermidis clonal lineages. Frontiers in Microbiology 10:1971 [OA, link, altmetrics, NCBI BioProject, BIGSdb].
  • Mourkas E*, Florez-Cuadrado D*, Pascoe B, Calland JK, Bayliss SC, Mageiros L, Méric G, Hitchings MD, Ugarte-Ruiz M, Dominguez L, Sheppard SK. (2019) Gene pool transmission of multidrug resistance among Campylobacter from livestock, sewage and human disease. Environmental Microbiology 21(12):4597-4613 [OA, link, altmetrics, NCBI BioProject].
  • Pascoe B*, Williams LK*, Calland JK, Méric G, Hitchings MD, Dyer M, Ryder J, Allan E, Vidal A, Fearnley C, Everest P, Linton D, Pachebat JA, Cogan TA, Stevens MP, Wilkinson TS, Humphrey TJ, Cody AJ, Colles FM, Jolley KA, Maiden MCJ, Forbes K, Strachan N, Pearson BM, Wren BW, Parkhill J, Kelly DJ, van Vliet AH, Sheppard SK. (2019) Domestication of Campylobacter jejuni NCTC 11168. Microbial Genomics 5(7) [OA, link, altmetrics, NCBI BioProject, Figshare suppl. data, MicroReact tree, ENA]

2018

  • Méric G*, Mageiros L*, Pensar J, Laabei M, Yahara K, Pascoe B, Kittiwan N, Tadee P, Post V, Lamble S, Bowden R, Bray JE, Morgenstern M, Jolley KA, Maiden MCJ, Feil EJ, Didelot X, Miragaia M, de Lencastre H, Moriarty TF, Rohde H, Massey R, Mack D, Corander J, Sheppard SK. (2018) Disease-associated genotypes of the commensal skin bacterium Staphylococcus epidermidis. Nature Communications 9:5034 [OA, link, readcube, altmetrics, youtube, press release, media coverage 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26] + [assembled genomes BIGSdb, NCBI BioProject, scripts]
  • Berthenet E, Yahara K, Thorell K, Pascoe B, Méric G, Mikhail J, Engstrand L, Enroth H, Burette A, Megraud F, Atherton J, Smith S, Wilkinson TS, Hitchings MD, Falush D, Sheppard SK. (2018) A GWAS on Helicobacter pylori strains points to genetic variants associated with gastric cancer risk. BMC Biology 16:84. [OA, link, altmetrics] + [assembled genomes, NCBI BioProject].
  • Yokohama M, Laabei M, Stevens E, Bacon L, Heesom K, Bayliss S, Ooi N, O’Neill AJ, Murray E, Williams P, Lubben A, Reeksting S, Méric G, Pascoe B, Sheppard SK, Recker M, Hurst LD, Massey RC. (2018) Epistasis analysis uncovers hidden antibiotic resistance-associated fitness costs hampering the evolution of MRSA. Genome Biology 19:94. [OA, link, altmetrics] + [assembled genomes, NCBI BioProject] +[pre-print version]
  • Thépault A, Rose V, Quesne S, Poezevara T, Béven V, Hirchaud E, Touzain F, Lucas P, Méric G, Mageiros L, Sheppard SK, Chemaly M, Rivoal K. (2018) Ruminant and chicken: important sources of campylobacteriosis in France despite a variation of source attribution in 2009 and 2015. Scientific Reports 8:9305 [OA, link, altmetrics]
  • Atterby C*, Mourkas E*, Méric G, Pascoe B, Waldenstrom J, Sheppard SK, Olsen B, Jarhult JD, Ellstrom P. (2018) The potential of isolation source to predict colonization in avian hosts: a case study in Campylobacter jejuni strains from three bird species. Frontiers in Microbiology 9:591. [OA, link, altmetrics]
  • Méric G, Mageiros L, Pascoe B, Mourkas E, Lamble S, Bowden R, Jolley KA, Raymond B, Sheppard SK. (2018) Lineage-specific plasmid acquisition and the evolution of specialized pathogens in Bacillus thuringiensis and the Bacillus cereus group. Molecular Ecology 27(7):1524-40. [OA, link, altmetrics] + [NCBI BioProject]
  • Méric G, McNally A, Pessia A, Mourkas E, Pascoe B, Mageiros L, Vehkala M, Corander J, Sheppard SK. (2018) Convergent amino acid signatures in paraphyletic Campylobacter jejuni sub-populations suggest human niche tropism. Genome Biology and Evolution 10(3):763-774. [OA, link, altmetrics]
  • Kirk KF, Méric G, Nielsen HL, Pascoe B, Sheppard SK, Thorlacius-Ussing O, Nielsen H. (2018) Molecular epidemiology and comparative genomics and typing of Campylobacter concisus strains from saliva, faeces and gut mucosal biopsies in inflammatory bowel disease. Scientific Reports 8:1902. [OA, link, altmetrics] + [NCBI BioProject]
  • Rossi G, Silva HO, Aguilar EG, Pascoe B, Méric G, Mourkas E, Hitchings MD, Mathias LA, Ruiz VLA, Fukumasu H, Sheppard SK, Vical AMC. (2018) Comparative genomic survey of Bacillus cereus sensu stricto isolates from the dairy production chain in Brazil. FEMS Microbiology Letters 365(3). [$, link, altmetrics]

2017

  • Yahara K*, Méric G*, Taylor AJ, de Vries SP, Murray S, Pascoe B, Mageiros L, Torralbo A, Vidal A, Ridley A, Komukai S, Wimalarathna H, Cody AJ, Colles FM, McCarthy N, Harris D, Bray JE, Jolley KA, Maiden MC, Bentley SD, Parkhill J, Bayliss CD, Grant A, Maskell D, Didelot X, Kelly DJ, Sheppard SK. (2017) Genome-wide association of functional traits linked with Campylobacter jejuni survival from farm to fork. Environmental Microbiology 19(1):361-380. [OA, link, altmetrics]
  • Woodcock DJ, Krusche P, Strachan NJC, Forbes KJ, Cohan FM, Méric G, Sheppard SK. (2017) Genomic plasticity and rapid host switching can promote the evolution of generalism: a case study in the zoonotic pathogen Campylobacter. Scientific Reports 7:9650. [OA, link, altmetrics] + [pre-print version]
  • Post V, Morgenstern M, Harris L, Mageiros L, Hitchings MD, Méric G, Pascoe B, Sheppard SK, Richards G, Moriarty F. (2017) Phenotypic and genotypic characterisation of Staphylococcus epidermidis from orthopaedic device-related infections correlated with patient outcome. The Bone & Joint Journal (Supp. 22) 65. [Proceedings, link]
  • Florez-Cuadrado D, Ugarte-Ruiz M, Méric G, Quesada A, Porrero MC, Pascoe B, Sáez-Llorente JL, Orozco GL, Domínguez L, Sheppard SK. (2017) Genome comparison of erythromycin resistant Campylobacter from turkey identifies hosts and pathways for horizontal spread of erm(B) genes. Frontiers in Microbiology 8:2240. [OA, link, altmetrics]
  • Post V, Harris LG, Morgenstern M, Mageiros L, Hitchings MD, Méric G, Pascoe B, Sheppard SK, Richards RG, Moriarty TF. (2017) A comparative genomics study of Staphylococcus epidermidis from orthopedic device-related infections correlated with patient outcome. Journal of Clinical Microbiology 55(10):3089-103. [OA, link, altmetrics]
  • Pascoe B, Méric G, Yahara K, Wimalarathna H, Murray S, Hitchings MD, Sproston EL, Carrillo CD, Taboada EN, Cooper KK, Huynh S, Cody AJ, Jolley KA, Maiden MCJ, McCarthy ND, Didelot X, Parker C, Sheppard SK (2017) Local genes for local bacteria: evidence of allopatry in the genomes of transatlantic Campylobacter populations. Molecular Ecology 26(17):4497-4508. [OA, link, altmetrics]
  • Murray S*, Pascoe B*, Méric G, Mageiros L, Yahara K, Hitchings MD, Friedmann Y, Wilkinson TS, Gormley FJ, Mack D, Bray JE, Lamble S, Bowden R, Jolley KA, Maiden MCJ, Wendlandt S, Schwarz S, Corander J, Fitzgerald JR, Sheppard SK. (2017) Recombination-mediated host-adaptation by avian Staphylococcus aureus. Genome Biology and Evolution 9(4):830-842. [OA, link, altmetrics]
  • Esson D, Gupta S, Bailey D, Wigley P, Wedley A, Mather AE, Méric G, Mastroeni P, Sheppard SK, Thomson NR, Parkhill J, Maskell DJ, Christie G, Grant AJ. (2017) Identification and initial characterisation of a protein involved in Campylobacter jejuni cell shape. Microbial Pathogenesis 104:202–211. [OA, link, altmetrics]
  • Thepault A, Méric G, Rivoal K, Pascoe B, Mageiros L, Touzain F, Rose V, Béven V, Chemaly M, Sheppard SK. (2017) Genome-wide identification of host-segregating epidemiological markers for source attribution in Campylobacter jejuni. Applied and Environmental Microbiology 83(7). [OA, link, altmetrics]

2016

  • Méric G, Hitchings MD, Pascoe B, Sheppard SK. (2016) From Escherich to the Escherichia coli genome. The Lancet Infectious Diseases 16(6):634–636. [$, link, altmetrics, suppl. online material, press]
  • Esson D, Mather AE, Scanlan E, Gupta S, de Vries SP, Bailey D, Harris SR, McKinley TJ, Méric G, Berry SK, Mastroeni P, Sheppard SK, Christie G, Thomson NR, Parkhill J, Maskell D, Grant AJ. (2016) Genomic variations leading to alterations in cell morphology of Campylobacter spp. Scientific Reports 6:38303. [OA, link, altmetrics]
  • Monteil CL, Yahara K, Studholme DJ, Mageiros L, Méric G, Swingle B, Morris CE, Vinatzer BA, Sheppard SK. (2016) Population-genomic insights into emergence, crop-adaptation, and dissemination of Pseudomonas syringae pathogens. Microbial Genomics 2(10). [OA, link, altmetrics]
  • Sankar A, Malone B, Bayliss S, Pascoe B, Méric G, Hitchings MD, Sheppard SK, Feil EJ, Corander J, Honkela A. (2016) Bayesian identification of bacterial strains from sequencing data. Microbial Genomics 2(8). [OA, link, altmetrics]
  • Gilbert MJ, Miller WG, Yee E, Zomer A, van der Graaf-van Bloois L, Fitzgerald C, Forbes KJ, Méric G, Sheppard SK, Wagenaar JA, Duim B. (2016) Comparative genomics of Campylobacter fetus from reptiles and mammals reveals divergent evolution in host-associated lineages. Genome Biology and Evolution 8(6):2006-19. [OA, link, altmetrics]
  • Harris LG, Murray S, Pascoe B, Méric G, Mageiros L, Wilkinson TS, Jeeves R, Rohde H, Schwarz S, de Lencastre H, Miragaia M, Rolo J, Bowden R, Jolley KA, Maiden MC, Mack D, Sheppard SK. (2016) Biofilm morphotypes and population structure among Staphylococcus epidermidis from commensal and clinical samples. PLoS One 11(3):e0151240. [OA, link, altmetrics]

2012-2015

  • Méric G, Miragaia M, de Been M, Yahara K, Pascoe B, Mageiros L, Mikhail J, Harris LG, Wilkinson TS, Rolo J, Lamble S, Bray JE, Jolley KA, Hanage WP, Bowden R, Maiden MC, Mack D, de Lencastre H, Feil EJ, Corander J, Sheppard SK (2015) Ecological overlap and horizontal gene transfer in Staphylococcus aureus and Staphylococcus epidermidis. Genome Biology and Evolution 7(5):1313-1328. [OA, link, altmetrics]
  • Searle, LJ*, Méric G*, Porcelli I, Sheppard SK, Lucchini S. (2015) Variation in siderophore biosynthetic gene distribution and production across environmental and faecal populations of Escherichia coli. PLoS One 10(3):e0117906. [OA, link, altmetrics]
  • Numminen E, Gutmann MU, Shubin M, Marttinen P, Méric G, van Schaik W, Coque TM, Baquero F, Willems RJ, Sheppard SK, Feil EJ, Hanage WP, Corander J. (2015) The impact of host metapopulation structure on the population genetics of colonizing bacteria. Journal of Theoretical Biology 396:53-62. [$, link, altmetrics] + [pre-print version]
  • Pascoe B, Méric G, Murray S, Yahara K, Mageiros L, Bowen R, Jones NH, Jeeves RE, Lappin-Scott HM, Asakura H, Sheppard SK. (2015) Enhanced biofilm formation evolves from divergent genetic backgrounds in host generalist Campylobacter jejuni. Environmental Microbiology 17(11):4779-89. [OA, link, altmetrics]
  • Facey PD, Méric G, Hitchings MD, Pachebat JA, Hegarty MJ, Chen X, Morgan LV, Hoeppner JE, Whitten MM, Kirk WD, Dyson PJ, Sheppard SK, Del Sol R. (2015) Draft genomes, phylogenetic reconstruction and comparative genomics of two novel cohabiting bacterial symbionts isolated from Frankliniella occidentalis. Genome Biology and Evolution 7(8):2188-2202. [OA, link, altmetrics]
  • Baily JL, Méric G, Bayliss S, Foster G, Moss SE, Watson E, Pascoe B, Mikhail J, Pizzi R, Goldstone RJ, Smith DG, Willoughby K, Hall AJ, Sheppard SK*, Dagleish MP* (2015) Evidence of land-sea transfer of the zoonotic pathogen Campylobacter to a wildlife marine sentinel species. Molecular Ecology 24(1):208-221. [$, link, altmetrics, press release, media coverage 1, 2, 3, 4, 5, live radio interview]
  • Dearlove B, Cody A, Pascoe B, Méric G, Wilson D, Sheppard SK. (2015) Rapid host switching in generalist Campylobacter strains erodes the signal for tracing human infections. The ISME Journal 10(3):721-9. [OA, link, altmetrics]
  • Morley L, McNally A, Paszkiewicz K, Corander J, Méric G, Sheppard SK, Blom J, Manning G. (2015) Gene loss and lineage specific restriction-modification systems associated with niche differentiation in the Campylobacter jejuni Sequence Type 403 clonal complex. Applied and Environmental Microbiology 81(11):3641-7. [OA, link, altmetrics]
  • Torralbo A, Borge C, Garcia-Bocanegra I, Méric G, Perea A, Carbonero A (2015) Higher resistance of Campylobacter coli compared to Campylobacter jejuni at chicken slaughterhouse. Comparative Immunology, Microbiology and Infectious Diseases 39:47-52. [$, link, altmetrics]
  • Méric G, Yahara K, Mageiros L, Pascoe B, Maiden MCJ, Jolley KA, Sheppard SK (2014) A reference pan-genome approach to comparative bacterial genomics: identification of novel epidemiological markers in pathogenic Campylobacter. PLoS One 9(3):e92798. [OA, link, altmetrics]
  • Sheppard SK, Cheng L, Méric G, de Haan CP, Llarena AK, Marttinen P, Vidal A, Ridley A, Clifton-Hadley F, Connor TR, Strachan NJ, Forbes K, Colles FM, Jolley KA, Bentley SD, Maiden MC, Hänninen ML, Parkhill J, Hanage WP, Corander J (2014) Cryptic ecology among host generalist Campylobacter jejuni in domestic animals. Molecular Ecology. 23(10):2442-51. [OA, link, altmetrics]
  • Méric G, Kemsley EK, Falush D, Saggers EJ, Lucchini S (2013) Phylogenetic distribution of traits associated with plant colonization in Escherichia coli. Environmental Microbiology 15(2):487-501. [$, link, altmetrics, press release, media coverage 1, 2, 3]
  • Sheppard SK, Didelot X, Méric G, Torralbo A, Jolley KA, Kelly DJ, Bentley SD, Maiden MCJ, Parkhill J, Falush D (2013) Genome-wide association study identifies vitamin B5 biosynthesis as a host specificity factor in Campylobacter. PNAS 110(29):11923-7. [OA, link, altmetrics]
  • Sheppard SK, Didelot X, Jolley KA, Darling AE, Pascoe B, Méric G, Kelly DJ, Cody A, Colles FM, Strachan NJ, Ogden ID, Forbes K, French NP, Carter P, Miller WG, McCarthy ND, Owen R, Litrup E, Egholm M, Affourtit JP, Bentley SD, Parkhill J, Maiden MC, Falush D (2013) Progressive genome-wide introgression in agricultural Campylobacter coli. Molecular Ecology. 22(4):1051-64. [OA, link, altmetrics]
  • Didelot X, Méric G, Falush D, Darling AE (2012) Impact of homologous and non-homologous recombination in the genomic evolution of Escherichia coli. BMC Genomics 19;13:256. [OA, link, altmetrics]
  • Huang Z, Méric G, Liu Z, Ma R, Tang Z, Lejeune P (2009) luxS-based quorum-sensing signaling affects Biofilm formation in Streptococcus mutans. Journal of Molecular Microbiology and Biotechnology 17(1):12-9. [$, link]

Book edited

Sheppard SK, Méric G. (eds.) Campylobacter Ecology and Evolution, Caister Academic Press, April 2014, c.350 pages; ISBN: 978-1-908230-36-2. [publisher link, PDF information, amazon UK, press release]