Population genomics of bacterial host adaptation
Sheppard, Samuel K., Guttman, David S., Fitzgerald, J. Ross
Published in Nature reviews. Genetics (01.09.2018)
Published in Nature reviews. Genetics (01.09.2018)
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Journal Article
Combined Analysis of Variation in Core, Accessory and Regulatory Genome Regions Provides a Super-Resolution View into the Evolution of Bacterial Populations
McNally, Alan, Oren, Yaara, Kelly, Darren, Pascoe, Ben, Dunn, Steven, Sreecharan, Tristan, Vehkala, Minna, Välimäki, Niko, Prentice, Michael B, Ashour, Amgad, Avram, Oren, Pupko, Tal, Dobrindt, Ulrich, Literak, Ivan, Guenther, Sebastian, Schaufler, Katharina, Wieler, Lothar H, Zhiyong, Zong, Sheppard, Samuel K, McInerney, James O, Corander, Jukka
Published in PLoS genetics (12.09.2016)
Published in PLoS genetics (12.09.2016)
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Machine learning to predict the source of campylobacteriosis using whole genome data
Arning, Nicolas, Sheppard, Samuel K, Bayliss, Sion, Clifton, David A, Wilson, Daniel J
Published in PLoS genetics (18.10.2021)
Published in PLoS genetics (18.10.2021)
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A reference pan-genome approach to comparative bacterial genomics: identification of novel epidemiological markers in pathogenic Campylobacter
Méric, Guillaume, Yahara, Koji, Mageiros, Leonardos, Pascoe, Ben, Maiden, Martin C J, Jolley, Keith A, Sheppard, Samuel K
Published in PloS one (27.03.2014)
Published in PloS one (27.03.2014)
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Rapid evolution of distinct Helicobacter pylori subpopulations in the Americas
Thorell, Kaisa, Yahara, Koji, Berthenet, Elvire, Lawson, Daniel J, Mikhail, Jane, Kato, Ikuko, Mendez, Alfonso, Rizzato, Cosmeri, Bravo, María Mercedes, Suzuki, Rumiko, Yamaoka, Yoshio, Torres, Javier, Sheppard, Samuel K, Falush, Daniel
Published in PLoS genetics (23.02.2017)
Published in PLoS genetics (23.02.2017)
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Journal Article
The evolution of Campylobacter jejuni and Campylobacter coli
Sheppard, Samuel K, Maiden, Martin C J
Published in Cold Spring Harbor perspectives in biology (01.08.2015)
Published in Cold Spring Harbor perspectives in biology (01.08.2015)
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Journal Article
Core genome sequence analysis to characterize Salmonella enterica serovar Rissen ST469 from a swine production chain
Prasertsee, Teerarat, Chuammitri, Phongsakorn, Deeudom, Manu, Chokesajjawatee, Nipa, Santiyanont, Pannita, Tadee, Pakpoom, Nuangmek, Aniroot, Tadee, Phacharaporn, Sheppard, Samuel K., Pascoe, Ben, Patchanee, Prapas
Published in International journal of food microbiology (02.09.2019)
Published in International journal of food microbiology (02.09.2019)
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Journal Article
Genome-wide association study identifies vitamin B₅ biosynthesis as a host specificity factor in Campylobacter
Sheppard, Samuel K., Didelot, Xavier, Meric, Guillaume, Torralbo, Alicia, Jolley, Keith A., Kelly, David J., Bentley, Stephen D., Maiden, Martin C. J., Parkhill, Julian, Falush, Daniel
Published in Proceedings of the National Academy of Sciences - PNAS (16.07.2013)
Published in Proceedings of the National Academy of Sciences - PNAS (16.07.2013)
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PIRATE: A fast and scalable pangenomics toolbox for clustering diverged orthologues in bacteria
Bayliss, Sion C, Thorpe, Harry A, Coyle, Nicola M, Sheppard, Samuel K, Feil, Edward J
Published in Gigascience (01.10.2019)
Published in Gigascience (01.10.2019)
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Journal Article
Genome evolution and the emergence of pathogenicity in avian Escherichia coli
Mageiros, Leonardos, Méric, Guillaume, Bayliss, Sion C., Pensar, Johan, Pascoe, Ben, Mourkas, Evangelos, Calland, Jessica K., Yahara, Koji, Murray, Susan, Wilkinson, Thomas S., Williams, Lisa K., Hitchings, Matthew D., Porter, Jonathan, Kemmett, Kirsty, Feil, Edward J., Jolley, Keith A., Williams, Nicola J., Corander, Jukka, Sheppard, Samuel K.
Published in Nature communications (03.02.2021)
Published in Nature communications (03.02.2021)
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Journal Article
Disease-associated genotypes of the commensal skin bacterium Staphylococcus epidermidis
Méric, Guillaume, Mageiros, Leonardos, Pensar, Johan, Laabei, Maisem, Yahara, Koji, Pascoe, Ben, Kittiwan, Nattinee, Tadee, Phacharaporn, Post, Virginia, Lamble, Sarah, Bowden, Rory, Bray, James E., Morgenstern, Mario, Jolley, Keith A., Maiden, Martin C. J., Feil, Edward J., Didelot, Xavier, Miragaia, Maria, de Lencastre, Herminia, Moriarty, T. Fintan, Rohde, Holger, Massey, Ruth, Mack, Dietrich, Corander, Jukka, Sheppard, Samuel K.
Published in Nature communications (28.11.2018)
Published in Nature communications (28.11.2018)
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Journal Article
Quantifying bacterial evolution in the wild: A birthday problem for Campylobacter lineages
Calland, Jessica K, Pascoe, Ben, Bayliss, Sion C, Mourkas, Evangelos, Berthenet, Elvire, Thorpe, Harry A, Hitchings, Matthew D, Feil, Edward J, Corander, Jukka, Blaser, Martin J, Falush, Daniel, Sheppard, Samuel K
Published in PLoS genetics (28.09.2021)
Published in PLoS genetics (28.09.2021)
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Journal Article
Genome-Wide Identification of Host-Segregating Epidemiological Markers for Source Attribution in Campylobacter jejuni
Thépault, Amandine, Méric, Guillaume, Rivoal, Katell, Pascoe, Ben, Mageiros, Leonardos, Touzain, Fabrice, Rose, Valérie, Béven, Véronique, Chemaly, Marianne, Sheppard, Samuel K
Published in Applied and environmental microbiology (01.04.2017)
Published in Applied and environmental microbiology (01.04.2017)
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Journal Article
Trends in fluoroquinolone resistance in Campylobacter
Sproston, Emma L, Wimalarathna, Helen M L, Sheppard, Samuel K
Published in Microbial genomics (01.08.2018)
Published in Microbial genomics (01.08.2018)
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