Effects of Host, Sample, and in vitro Culture on Genomic Diversity of Pathogenic Mycobacteria
Abigail C. Shockey, Jesse Dabney, and Caitlin S Pepperell
Front. Genet., 04 June 2019 Frontiers
Global expansion of Mycobacterium tuberculosis lineage 4 shaped by colonial migration and local adaptation
Ola B. Brynildsrud, Caitlin S. Pepperell, et al.
Science Advances 17 Oct 2018: Vol. 4, no. 10 ScienceAdvances
Lineage specific histories of Mycobacterium tuberculosis dispersal in Africa and Eurasia
Mary B O’Neill, Andrew Kitchen, Alex Zarley, William Aylward, Vegard Eldholm, Caitlin S Pepperell
Molecular Ecology 07 May 2019 PubMed
Adaptation of Staphylococcus saprophyticus at the host-pathogen
Tatum D. Mortimer, Douglas S. Annis, Mary B. O’Neill, Lindsey L. Bohr, Tracy M. Smith, Hendrik N. Poinar, Deane F. Mosher, Caitlin S. Pepperell
mSphere doi: 10.1128/mSphere.00511-17 bioRxiv
Multiple exposures, reinfection and risk of progression to active tuberculosis
Sarah F Ackley, Robyn S Lee, Lee Worden, Erin Zwick, Travis C Porco, Marcel A Behr, Caitlin S Pepperell
R Soc Open Sci. 2019 Mar 20;6(3):180999. PubMed
Dispersal of Mycobacterium tuberculosis to indigenous populations driven by historical European trade in the South Pacific
Claire V Mulholland, Abigail C Shockey, Htin L Aung, Ray T Cursons, Ronan F O’toole, Sanjay S Gautam, Daniela Brites, Sebastien Gagneux, Sally A Roberts, Noel Karalus, Gregory M Cook, Caitlin S Pepperell, Vickery L Arcus bioRxiv
China’s tuberculosis epidemic stems from historical expansion of four strains of Mycobacterium tuberculosis
Qingyun Liu, Aijing Ma, Lanhai Wei, Yu Pang, Beibei Wu, Tao Luo, Yang Zhou, Hong-Xiang Zheng, Qi Jiang, Mingyu Gan, Tianyu Zuo, Mei Liu, Chongguang Yang, Li Jin, Iñaki Comas, Sebastien Gagneux, Yanlin Zhao, Caitlin S Pepperell, Qian Gao
Nat Ecol Evol. 2018 Dec;2(12):1982-1992. PubMed
Epidemiological and genomic determinants of tuberculosis outbreaks in First Nations communities in Canada
Alexander Doroshenko, Caitlin S Pepperell, Courtney Heffernan, Mary Lou Egedahl, Tatum D Mortimer, Tracy M Smith, Hailey E Bussan, Gregory J Tyrrell, Richard Long
BMC Med. 2018 Aug 8;16(1):128. PubMed
Signatures of selection at drug resistance loci in Mycobacterium tuberculosis
Tatum D Mortimer, Alexandra M Weber, Caitlin S Pepperell
mSystems. 2018 Jan 30;3(1). pii: e00108-17. PubMed
Adaptation in a fibronectin binding autolysin of Staphylococcus saprophyticus
Tatum D Mortimer, Douglas S Annis, Mary B O’Neill, Lindsey L Bohr, Tracy M Smith, Hendrik N Poinar, Deane F Mosher, Caitlin S Pepperell
mSphere. 2017 Nov 29;2(6). pii: e00511-17. PubMed
Evolutionary thrift: mycobacteria repurpose plasmid diversity during adaptation of type VII secretion systems
Tatum D Mortimer, Alexandra M Weber, Caitlin S Pepperell.
Genome Biol Evol. 2017 Mar 1;9(3):398-413. PubMed
A molecular portrait of maternal sepsis from Byzantine Troy
Alison M Devault, Tatum D Mortimer, Andrew Kitchen, Henrike Kiesewetter, Jacob M Enk, G Brian Golding, John Southon, Melanie Kuch, Ana T Duggan, William Aylward, Shea N Gardner, Jonathan E Allen, Andrew M King, Gerard Wright, Makoto Kuroda, Kengo Kato, Derek EG Briggs, Gino Fornaciari, Edward C Holmes, Hendrik N Poinar, Caitlin S Pepperell.
eLife. 2017; 6: e20983. PubMed
Armed conflict and population displacement as drivers of the evolution and dispersal of Mycobacterium tuberculosis
Vegard Eldholm, John H-O Pettersson, Ola B Brynildsrud, Andrew Kitchen, Erik Michael Rasmussen, Troels Lillebaek, Janne O Rønning, Valeriu Crudu, Anne Torunn Mengshoel, Nadia Debech, Kristian Alfsnes, Jon Bohlin, Caitlin S Pepperell, Francois Balloux.
Proc Natl Acad Sci U S A. 2016 Nov 29;113(48):13881-13886. PubMed
Estimation of Gene Insertion/Deletion Rates with Missing Data
Utkarsh J Dang, Alison M Devault, Tatum D Mortimer, Caitlin S Pepperell, Hendrik N Poinar, G Brian Golding.
Genetics. 2016 Oct;204(2):513-529. PubMed
Diversity of Mycobacterium tuberculosis across evolutionary scale
O'Neill, Mary B., Tatum D. Mortimer, and Caitlin S. Pepperell.
PLoS Pathog. 2015 Nov;11(11):e1005257. PubMed
Modeling historical tuberculosis epidemics among Canadian First Nations: effects of malnutrition and genetic variation
Ackley, Sarah F., Fengchen Liu, Travis C. Porco, and Caitlin S. Pepperell.
PeerJ. 2015 Sep;3:e1237. PubMed
Genomic Signatures of Distributive Conjugal Transfer among Mycobacteria
Mortimer, Tatum D and Caitlin S Pepperell.
Genome Biology and Evolution, 2014;6(9):2489-2500. PubMed
Genetic research with Hmong-ancestry populations: Lessons from the literature and a pilot study
Xiong, Donny, Jennifer K. Meece, and Caitlin S. Pepperell.
Hmong Studies Journal, 2013;14:1-28. ProQuest
The Role of Selection in Shaping Diversity of Natural M. tuberculosis Populations
Pepperell CS, Casto AM, Kitchen A, Granka JM, Cornejo OE, Holmes EC, Birren B, Galagan J, Feldman MW.
PLoS Pathog. 2013 Aug;9(8):e1003543. PubMed
Local epidemic history as a predictor of tuberculosis incidence is Saskatchewan Aboriginal communities
Pepperell C, Chang AH, Wobeser W, Parsonnet J, Hoeppner VH.
Int J Tuberc Lung Dis. 2011 Jul;15(7):899-905. PubMed
Dispersal of Mycobacterium tuberculosis via the Canadian fur trade
Pepperell CS, Granka JM, Alexander DC, Behr MA, Chui L, Gordon J, Guthrie JL, Jamieson FB, Langlois-Klassen D, Long R, Nguyen D, Wobeser W, Feldman MW.
Proc Natl Acad Sci U S A. 2011 Apr 19;108(16):6526-31. PubMed
Bacterial genetic signatures of human social phenomena among M. tuberculosis from an Aboriginal Canadian population
Pepperell C, Hoeppner VH, Lipatov M, Wobeser W, Schoolnik GK, Feldman MW.
Mol Biol Evol. 2010 Feb;27(2):427-40. PubMed
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