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Page 1
Evolutionary dynamics of the accessory genome of Listeria monocytogenes.
den Bakker HC, Desjardins CA, Griggs AD, Peters JE, Zeng Q, Young SK, Kodira CD, Yandava C, Hepburn TA, Haas BJ, Birren BW, Wiedmann M. den Bakker HC, et al. Among authors: kodira cd. PLoS One. 2013 Jun 25;8(6):e67511. doi: 10.1371/journal.pone.0067511. Print 2013. PLoS One. 2013. PMID: 23825666 Free PMC article.
Analysis of high-throughput sequencing and annotation strategies for phage genomes.
Henn MR, Sullivan MB, Stange-Thomann N, Osburne MS, Berlin AM, Kelly L, Yandava C, Kodira C, Zeng Q, Weiand M, Sparrow T, Saif S, Giannoukos G, Young SK, Nusbaum C, Birren BW, Chisholm SW. Henn MR, et al. PLoS One. 2010 Feb 5;5(2):e9083. doi: 10.1371/journal.pone.0009083. PLoS One. 2010. PMID: 20140207 Free PMC article.
Comparative and functional genomics of Rhodococcus opacus PD630 for biofuels development.
Holder JW, Ulrich JC, DeBono AC, Godfrey PA, Desjardins CA, Zucker J, Zeng Q, Leach AL, Ghiviriga I, Dancel C, Abeel T, Gevers D, Kodira CD, Desany B, Affourtit JP, Birren BW, Sinskey AJ. Holder JW, et al. Among authors: kodira cd. PLoS Genet. 2011 Sep;7(9):e1002219. doi: 10.1371/journal.pgen.1002219. Epub 2011 Sep 8. PLoS Genet. 2011. PMID: 21931557 Free PMC article.
Dynamics of Pseudomonas aeruginosa genome evolution.
Mathee K, Narasimhan G, Valdes C, Qiu X, Matewish JM, Koehrsen M, Rokas A, Yandava CN, Engels R, Zeng E, Olavarietta R, Doud M, Smith RS, Montgomery P, White JR, Godfrey PA, Kodira C, Birren B, Galagan JE, Lory S. Mathee K, et al. Proc Natl Acad Sci U S A. 2008 Feb 26;105(8):3100-5. doi: 10.1073/pnas.0711982105. Epub 2008 Feb 19. Proc Natl Acad Sci U S A. 2008. PMID: 18287045 Free PMC article.
Comparative genomic analysis of human fungal pathogens causing paracoccidioidomycosis.
Desjardins CA, Champion MD, Holder JW, Muszewska A, Goldberg J, Bailão AM, Brigido MM, Ferreira ME, Garcia AM, Grynberg M, Gujja S, Heiman DI, Henn MR, Kodira CD, León-Narváez H, Longo LV, Ma LJ, Malavazi I, Matsuo AL, Morais FV, Pereira M, Rodríguez-Brito S, Sakthikumar S, Salem-Izacc SM, Sykes SM, Teixeira MM, Vallejo MC, Walter ME, Yandava C, Young S, Zeng Q, Zucker J, Felipe MS, Goldman GH, Haas BJ, McEwen JG, Nino-Vega G, Puccia R, San-Blas G, Soares CM, Birren BW, Cuomo CA. Desjardins CA, et al. Among authors: kodira cd. PLoS Genet. 2011 Oct;7(10):e1002345. doi: 10.1371/journal.pgen.1002345. Epub 2011 Oct 27. PLoS Genet. 2011. PMID: 22046142 Free PMC article.
Genomic analysis of the basal lineage fungus Rhizopus oryzae reveals a whole-genome duplication.
Ma LJ, Ibrahim AS, Skory C, Grabherr MG, Burger G, Butler M, Elias M, Idnurm A, Lang BF, Sone T, Abe A, Calvo SE, Corrochano LM, Engels R, Fu J, Hansberg W, Kim JM, Kodira CD, Koehrsen MJ, Liu B, Miranda-Saavedra D, O'Leary S, Ortiz-Castellanos L, Poulter R, Rodriguez-Romero J, Ruiz-Herrera J, Shen YQ, Zeng Q, Galagan J, Birren BW, Cuomo CA, Wickes BL. Ma LJ, et al. Among authors: kodira cd. PLoS Genet. 2009 Jul;5(7):e1000549. doi: 10.1371/journal.pgen.1000549. Epub 2009 Jul 3. PLoS Genet. 2009. PMID: 19578406 Free PMC article.
Comparative genomics of a plant-pathogenic fungus, Pyrenophora tritici-repentis, reveals transduplication and the impact of repeat elements on pathogenicity and population divergence.
Manning VA, Pandelova I, Dhillon B, Wilhelm LJ, Goodwin SB, Berlin AM, Figueroa M, Freitag M, Hane JK, Henrissat B, Holman WH, Kodira CD, Martin J, Oliver RP, Robbertse B, Schackwitz W, Schwartz DC, Spatafora JW, Turgeon BG, Yandava C, Young S, Zhou S, Zeng Q, Grigoriev IV, Ma LJ, Ciuffetti LM. Manning VA, et al. Among authors: kodira cd. G3 (Bethesda). 2013 Jan;3(1):41-63. doi: 10.1534/g3.112.004044. Epub 2013 Jan 1. G3 (Bethesda). 2013. PMID: 23316438 Free PMC article.
A catalog of reference genomes from the human microbiome.
Human Microbiome Jumpstart Reference Strains Consortium; Nelson KE, Weinstock GM, Highlander SK, Worley KC, Creasy HH, Wortman JR, Rusch DB, Mitreva M, Sodergren E, Chinwalla AT, Feldgarden M, Gevers D, Haas BJ, Madupu R, Ward DV, Birren BW, Gibbs RA, Methe B, Petrosino JF, Strausberg RL, Sutton GG, White OR, Wilson RK, Durkin S, Giglio MG, Gujja S, Howarth C, Kodira CD, Kyrpides N, Mehta T, Muzny DM, Pearson M, Pepin K, Pati A, Qin X, Yandava C, Zeng Q, Zhang L, Berlin AM, Chen L, Hepburn TA, Johnson J, McCorrison J, Miller J, Minx P, Nusbaum C, Russ C, Sykes SM, Tomlinson CM, Young S, Warren WC, Badger J, Crabtree J, Markowitz VM, Orvis J, Cree A, Ferriera S, Fulton LL, Fulton RS, Gillis M, Hemphill LD, Joshi V, Kovar C, Torralba M, Wetterstrand KA, Abouellleil A, Wollam AM, Buhay CJ, Ding Y, Dugan S, FitzGerald MG, Holder M, Hostetler J, Clifton SW, Allen-Vercoe E, Earl AM, Farmer CN, Liolios K, Surette MG, Xu Q, Pohl C, Wilczek-Boney K, Zhu D. Human Microbiome Jumpstart Reference Strains Consortium, et al. Among authors: kodira cd. Science. 2010 May 21;328(5981):994-9. doi: 10.1126/science.1183605. Science. 2010. PMID: 20489017 Free PMC article.
Analysis of the DNA sequence and duplication history of human chromosome 15.
Zody MC, Garber M, Sharpe T, Young SK, Rowen L, O'Neill K, Whittaker CA, Kamal M, Chang JL, Cuomo CA, Dewar K, FitzGerald MG, Kodira CD, Madan A, Qin S, Yang X, Abbasi N, Abouelleil A, Arachchi HM, Baradarani L, Birditt B, Bloom S, Bloom T, Borowsky ML, Burke J, Butler J, Cook A, DeArellano K, DeCaprio D, Dorris L 3rd, Dors M, Eichler EE, Engels R, Fahey J, Fleetwood P, Friedman C, Gearin G, Hall JL, Hensley G, Johnson E, Jones C, Kamat A, Kaur A, Locke DP, Madan A, Munson G, Jaffe DB, Lui A, Macdonald P, Mauceli E, Naylor JW, Nesbitt R, Nicol R, O'Leary SB, Ratcliffe A, Rounsley S, She X, Sneddon KM, Stewart S, Sougnez C, Stone SM, Topham K, Vincent D, Wang S, Zimmer AR, Birren BW, Hood L, Lander ES, Nusbaum C. Zody MC, et al. Among authors: kodira cd. Nature. 2006 Mar 30;440(7084):671-5. doi: 10.1038/nature04601. Nature. 2006. PMID: 16572171
Comparative genomic characterization of Francisella tularensis strains belonging to low and high virulence subspecies.
Champion MD, Zeng Q, Nix EB, Nano FE, Keim P, Kodira CD, Borowsky M, Young S, Koehrsen M, Engels R, Pearson M, Howarth C, Larson L, White J, Alvarado L, Forsman M, Bearden SW, Sjöstedt A, Titball R, Michell SL, Birren B, Galagan J. Champion MD, et al. Among authors: kodira cd. PLoS Pathog. 2009 May;5(5):e1000459. doi: 10.1371/journal.ppat.1000459. Epub 2009 May 29. PLoS Pathog. 2009. PMID: 19478886 Free PMC article.
43 results