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Jayaraman, Siddharth, Harris, Claire, Paxton, Edith, Donachie, Anne-Marie, Vaikkinen, Heli, McCulloch, Richard, Hall, James PJ ORCID: 0000-0002-4896-4592, Kenny, John, Lenzi, Luca, Hertz-Fowler, Christiane ORCID: 0000-0002-0729-6479 et al (show 4 more authors) , Cobbold, Christina, Reeve, Richard, Michoel, Tom and Morrison, Liam (2019) Application of long read sequencing to determine expressed antigen diversity in Trypanosoma brucei infections. PLoS Neglected Tropical Diseases.

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Jayaraman, Siddharth, Harris, Claire, Paxton, Edith, Donachie, Anne-Marie, Vaikkinen, Heli, McCulloch, Richard, Hall, James PJ ORCID: 0000-0002-4896-4592, Kenny, John, Lenzi, Luca ORCID: 0000-0003-2697-691X, Hertz-Fowler, Christiane ORCID: 0000-0002-0729-6479 et al (show 4 more authors) , Cobbold, Christina, Reeve, Richard, Michoel, Tom and Morrison, Liam (2019) Application of long read sequencing to determine expressed antigen diversity in Trypanosoma brucei infections. PLoS Neglected Tropical Diseases, 13 (4). e0007262-.

Bird, Susannah M, Ford, Samuel, Thompson, Catriona MA, Little, Richard, Hall, James PJ ORCID: 0000-0002-4896-4592, Jackson, Robert W, Malone, Jacob, Harrison, Ellie and Brockhurst, Michael A (2023) Compensatory mutations reducing the fitness cost of plasmid carriage occur in plant rhizosphere communities. FEMS MICROBIOLOGY ECOLOGY, 99 (4). fiad027-.

Hall, James PJ ORCID: 0000-0002-4896-4592, Harrison, Ellie and Brockhurst, Michael (2018) Competitive species interactions constrain abiotic adaptation in a bacterial soil community. Evolution Letters, 2 (6). pp. 580-589.

Harrison, Ellie, Hall, James PJ ORCID: 0000-0002-4896-4592, Paterson, Steve ORCID: 0000-0002-1307-2981, Spiers, Andrew J and Brockhurst, Michael A (2017) Conflicting selection alters the trajectory of molecular evolution in a tripartite bacteria-plasmid-phage interaction. MOLECULAR ECOLOGY, 26 (10). pp. 2757-2764.

Brockhurst, Michael A, Harrison, Ellie, Hall, James PJ ORCID: 0000-0002-4896-4592, Richards, Thomas, McNally, Alan and MacLean, Craig (2019) The Ecology and Evolution of Pangenomes. Current biology : CB, 29 (20). R1094-R1103.

Hall, James PJ ORCID: 0000-0002-4896-4592, Harrison, Ellie, Lilley, Andrew K, Paterson, Steve ORCID: 0000-0002-1307-2981, Spiers, Andrew J and Brockhurst, Michael A (2015) Environmentally co‐occurring mercury resistance plasmids are genetically and phenotypically diverse and confer variable context‐dependent fitness effects. Environmental Microbiology, 17 (12). pp. 5008-5022.

Stevenson, Cagla, Hall, James PJ ORCID: 0000-0002-4896-4592, Harrison, Ellie, Wood, A Jamie and Brockhurst, Michael A (2017) Gene mobility promotes the spread of resistance in bacterial populations. ISME JOURNAL, 11 (8). pp. 1930-1932.

Coyte, Katharine Z, Stevenson, Cagla, Knight, Christopher G, Harrison, Ellie, Hall, James PJ ORCID: 0000-0002-4896-4592 and Brockhurst, Michael A (2022) Horizontal gene transfer and ecological interactions jointly control microbiome stability. PLoS biology, 20 (11). e3001847-e3001847.

Horne, Tanya, Orr, Victoria T and Hall, James PJ ORCID: 0000-0002-4896-4592 (2023) How do interactions between mobile genetic elements affect horizontal gene transfer? CURRENT OPINION IN MICROBIOLOGY, 73. 102282-.

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Camargo, Antonio Pedro ORCID: 0000-0003-3913-2484, Call, Lee ORCID: 0000-0002-2857-1337, Roux, Simon ORCID: 0000-0002-5831-5895, Nayfach, Stephen ORCID: 0000-0003-4625-4164, Huntemann, Marcel ORCID: 0000-0002-1284-3748, Palaniappan, Krishnaveni ORCID: 0000-0003-4484-7505, Ratner, Anna ORCID: 0000-0001-8877-2002, Chu, Ken ORCID: 0000-0002-9602-1433, Mukherjeep, Supratim ORCID: 0000-0002-6322-2271, Reddy, TBK ORCID: 0000-0002-0871-5567 et al (show 14 more authors) , Chen, I-Min A ORCID: 0000-0003-2026-9798, Ivanova, Natalia N ORCID: 0000-0002-5802-9485, Eloe-Fadrosh, Emiley A ORCID: 0000-0002-8162-1276, Woyke, Tanja ORCID: 0000-0002-9485-5637, Baltrus, David A ORCID: 0000-0002-5166-9551, Castañeda-Barba, Salvador ORCID: 0009-0005-7444-2658, de la Cruz, Fernando ORCID: 0000-0003-3329-0203, Funnell, Barbara E ORCID: 0000-0002-1828-6567, Hall, James PJ ORCID: 0000-0002-4896-4592, Mukhopadhyay, Aindrila ORCID: 0000-0002-6513-7425, Rocha, Eduardo PC ORCID: 0000-0001-7704-822X, Stalder, Thibault ORCID: 0000-0002-8368-1889, Top, Eva ORCID: 0000-0002-6380-8782 and Kyrpides, Nikos C ORCID: 0000-0002-6131-0462 (2024) IMG/PR: a database of plasmids from genomes and metagenomes with rich annotations and metadata. Nucleic acids research, 52 (D1). D164-D173.

Harvey, William T, Benton, Donald J, Gregory, Victoria, Hall, James PJ ORCID: 0000-0002-4896-4592, Daniels, Rodney S, Bedford, Trevor, Haydon, Daniel T, Hay, Alan J, McCauley, John W and Reeve, Richard (2016) Identification of Low- and High-Impact Hemagglutinin Amino Acid Substitutions That Drive Antigenic Drift of Influenza A(H1N1) Viruses. PLoS Pathogens, 12 (4). e1005526-.

Hall, James PJ ORCID: 0000-0002-4896-4592, Harrison, Ellie, Parnanen, Katariina, Virta, Marko and Brockhurst, Michael A (2020) The Impact of Mercury Selection and Conjugative Genetic Elements on Community Structure and Resistance Gene Transfer. FRONTIERS IN MICROBIOLOGY, 11. 1846-.

Hall, James PJ ORCID: 0000-0002-4896-4592, Harrison, Ellie and Baltrus, David A (2022) Introduction: the secret lives of microbial mobile genetic elements. PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES, 377 (1842). 20200460-.

Hall, James PJ ORCID: 0000-0002-4896-4592 (2021) Is the bacterial chromosome a mobile genetic element? NATURE COMMUNICATIONS, 12 (1). 6400-.

Hall, James PJ ORCID: 0000-0002-4896-4592 (2023) Microbial Musings: Spring 2023. MICROBIOLOGY-SGM, 169 (7).

Harrison, Ellie, Hall, James PJ ORCID: 0000-0002-4896-4592 and Brockhurst, Michael A (2018) Migration promotes plasmid stability under spatially heterogeneous positive selection. Proceedings of the Royal Society B: Biological Sciences, 285 (1879). p. 20180324.

Zwanzig, Martin, Harrison, Ellie, Brockhurst, Michael A, Hall, James PJ ORCID: 0000-0002-4896-4592, Berendonk, Thomas U and Berger, Uta (2019) Mobile Compensatory Mutations Promote Plasmid Survival. MSYSTEMS, 4 (1). e00186-e00118.

Hall, James PJ ORCID: 0000-0002-4896-4592, Wang, Huanhuan and Barry, J David (2013) Mosaic <i>VSGs</i> and the Scale of <i>Trypanosoma brucei</i> Antigenic Variation. PLOS PATHOGENS, 9 (7). e1003502-.

Kottara, Anastasia ORCID: 0000-0002-7068-1388, Hall, James PJ ORCID: 0000-0002-4896-4592, Harrison, Ellie and Brockhurst, Michael A (2016) Multi-host environments select for hostgeneralist conjugative plasmids. BMC EVOLUTIONARY BIOLOGY, 16 (1). 70-.

Hall, James PJ ORCID: 0000-0002-4896-4592, Wright, Rosanna CT, Harrison, Ellie, Muddiman, Katie J, Wood, A Jamie, Paterson, Steve ORCID: 0000-0002-1307-2981 and Brockhurst, Michael A (2021) Plasmid fitness costs are caused by specific genetic conflicts enabling resolution by compensatory mutation. PLOS Biology, 19 (10). e3001225-e3001225.

Stevenson, Cagla, Hall, James PJ ORCID: 0000-0002-4896-4592, Brockhurst, Michael A and Harrison, Ellie (2018) Plasmid stability is enhanced by higher-frequency pulses of positive selection. PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES, 285 (1870). 20172497-.

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Thompson, Catriona MA, Hall, James PJ ORCID: 0000-0002-4896-4592, Chandra, Govind, Martins, Carlo, Saalbach, Gerhard, Panturat, Supakan, Bird, Susannah M, Ford, Samuel, Little, Richard H, Piazza, Ainelen et al (show 4 more authors) , Harrison, Ellie, Jackson, Robert W, Brockhurst, Michael A and Malone, Jacob G (2023) Plasmids manipulate bacterial behaviour through translational regulatory crosstalk. PLoS Biol, 21 (2). e3001988-e3001988.

Carrilero, Laura, Kottara, Anastasia ORCID: 0000-0002-7068-1388, Guymer, David, Harrison, Ellie, Hall, James PJ ORCID: 0000-0002-4896-4592 and Brockhurst, Michael A (2021) Positive Selection Inhibits Plasmid Coexistence in Bacterial Genomes. MBIO, 12 (3). e00558-e00521.

Harrison, Ellie, Dytham, Calvin, Hall, James PJ ORCID: 0000-0002-4896-4592, Guymer, David, Spiers, Andrew J ORCID: 0000-0003-0463-8629, Paterson, Steve ORCID: 0000-0002-1307-2981 and Brockhurst, Michael A ORCID: 0000-0003-0362-820X (2016) Rapid compensatory evolution promotes the survival of conjugative plasmids. Mobile genetic elements, 6 (3). e1179074-.

Hall, James PJ ORCID: 0000-0002-4896-4592 and Harrison, Ellie (2016) Resistance is a numbers game. NATURE MICROBIOLOGY, 1 (12). 16235-.

Hall, James PJ ORCID: 0000-0002-4896-4592, Brockhurst, Michael A and Harrison, Ellie (2017) Sampling the mobile gene pool: innovation via horizontal gene transfer in bacteria. PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES, 372 (1735). 20160424-.

Hall, James PJ ORCID: 0000-0002-4896-4592, Wood, A Jamie, Harrison, Ellie and Brockhurst, Michael A (2016) Source–sink plasmid transfer dynamics maintain gene mobility in soil bacterial communities. Proceedings of the National Academy of Sciences of the United States of America, 113 (29). pp. 8260-8265.

Kottara, Anastasia ORCID: 0000-0002-7068-1388, Hall, James PJ ORCID: 0000-0002-4896-4592, Harrison, Ellie and Brockhurst, Michael A (2018) Variable plasmid fitness effects and mobile genetic element dynamics across <i>Pseudomonas</i> species. FEMS MICROBIOLOGY ECOLOGY, 94 (1). fix172-.

Hall, James PJ ORCID: 0000-0002-4896-4592, Botelho, Joao, Cazares, Adrian and Baltrus, David A (2022) What makes a megaplasmid? PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES, 377 (1842). 20200472-.

Kottara, Anastasia ORCID: 0000-0002-7068-1388, Carrilero, Laura, Harrison, Ellie, Hall, James PJ ORCID: 0000-0002-4896-4592 and Brockhurst, Michael A ORCID: 0000-0003-0362-820X (2021) The dilution effect limits plasmid horizontal transmission in multispecies bacterial communities. Microbiology (Reading, England), 167 (9). 001086-.

Hall, James PJ ORCID: 0000-0002-4896-4592, Brockhurst, Michael A, Dytham, Calvin and Harrison, Ellie (2017) The evolution of plasmid stability: Are infectious transmission and compensatory evolution competing evolutionary trajectories? PLASMID, 91. pp. 90-95.

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Cazares, Adrian, Moore, Matthew P, Hall, James PJ ORCID: 0000-0002-4896-4592, Wright, Laura L, Grimes, Macauley, Emond-Rhéault, Jean-Guillaume, Pongchaikul, Pisut ORCID: 0000-0001-8757-3554, Santanirand, Pitak, Levesque, Roger C, Fothergill, Joanne L ORCID: 0000-0002-7012-1508 et al (show 1 more authors) and Winstanley, Craig ORCID: 0000-0002-2662-8053 (2020) A megaplasmid family driving dissemination of multidrug resistance in Pseudomonas. Nature communications, 11 (1). 1370-.

Kottara, Anastasia ORCID: 0000-0002-7068-1388, Hall, James PJ ORCID: 0000-0002-4896-4592 and Brockhurst, Michael Α (2021) The proficiency of the original host species determines community-level plasmid dynamics. FEMS Microbiology Ecology, 97 (4). fiab026-.

Malaka De Silva, P, Stenhouse, George E, Blackwell, Grace A, Bengtsson, Rebecca J, Jenkins, Claire, Hall, James PJ ORCID: 0000-0002-4896-4592 and Baker, Kate S ORCID: 0000-0001-5850-1949 (2022) A tale of two plasmids: contributions of plasmid associated phenotypes to epidemiological success among Shigella. Proceedings. Biological sciences, 289 (1980). p. 20220581.