1. Expanding the diversity of mycobacteriophages: insights into genome architecture and evolution
- Author
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Chris R. Gissendanner, Jasper Van Kirk Thompson, Cynthia M. Bauerle, Kobie C. Gordon, Stephanie E. Trapani, Sarah C. R. Elgin, Ching-Chung Ko, Asma Latif, Caitlin E. Peirce, Jeremy S. Harmson, Elvis Nguyen, Jillian M. Walton, Siping He, Lauren L. Rodriguez, Jazmyn J. McCloud, Catherine J. Harmon, Angelica N. Willis, Melissa J. Fritz, Jessica A. Ruby, Michael P. Tokarz, Lisa Deng, Samantha T. Alford, Kathryn M. Sinclair, Victoria G. Hohenstein, Lauren Forbes, Erika F. Simms, Jessica M. Simmons, David A. Zaidins, Anthony T. Tubbs, Tyler M. Fox, Erica J. Puopolo, Garrett V. Hagopian, Hilary M. Whelan, Tina Q. Lu, Rachel Miller, Brandy M. Simpson, Emilie G. Weisser, Theresa W. Wong, Luke J. Peterson, Andrew C. Rose, Chelsea L. Cockburn, Tuajuanda C. Jordan, Daniel A. Russell, Yetta M. Robinson, Justin Z. Knutter, Tin-Yun Tang, Daryl Khaw, Ian Winsten Campbell, Stephen B. Taylor, Arrykka S. Jackson, Zein Al-Atrache, Amanda R. Schott, Samantha C. Wendler, John R. Warner, Sequoia I. Leuba, Steven G. Cresawn, J. Bradley Segal, Hannah S. Wirtshafter, Margaret S. Saha, Christine A. Boyer, Melina Y. Zúniga, Lucia P. Barker, Tamsen Polley, Marcella L. Erb, Anjali Menon, Victoria A. Bradley, Amanda J. Barber, Charles A. Bowman, Kaitlin E. Healy, Molly J. McDonough, Kaylee M. Nicholson, A. Javier Lopez, Andrew A. S. Ang, Erica M. Shepard, Leila Haghighat, Matthew B. Alfano, Manuel Ares, Kathryn Sheldon, Murray A. Katelyn, Alexander G. Anderson, Jeffrey D. Rubin, Larisa A. Kerrigan, Lisa Alexander, Krysta R. Guiney-Olsen, Deborah Jacobs-Sera, Junghee Kim, Rebecca Goldstein, Clark L. Straub, Lianne B. Cohen, Anne Georges, Erin N. Hildebrandt, Angela E. Engelsen, Bridget G. Guiza, Russell D. Green, Paul G. Jasinto, Allison M. Perz, Turi A. Alcoser, Laura Z. Filliger, H. S. Rabinowitz, Christopher D. Shaffer, Kathleen Weston-Hafer, William D. Barshop, Blaire C. Spaulding, Andrew J. Medenbach, Joseph Stukey, Michael J. Resiss, Samuel E. Harvey, Aaron A. Best, Nichols E. Amy, Kevin J. He, Erica C. Jansen, Danielle H. Wang, Katrina Nguyen, Katherine Belfield, Christine E. Schnitzler, Seegren V. Philip, Ian M. Bayles, Belle E. V. English, Graham F. Hatfull, Victor Mac, Barbara J. Taylor, Kathryn E. Loesser-Casey, Ingrid J. Slette, Nathan A. Holz, Rachel E. Pferdehirt, Emilie T. Nguyen, Nicholas Lowery, Agustin Borjon, Bo Zhang, Gail V. Larkin, Lynn O. Lewis, Ellen R. Higinbotham, Kevin W. Bradley, Patrick Ng, Brandon C. Yee, Kurt E. Williamson, Anne M. Campbell, Welkin H. Pope, Roger W. Hendrix, Craig L. Peebles, Jonathan M. Barrett, Brandon K. Morgan, Ericka L. Hufford, Ann M. Findley, Kayla N. Busby, Jonathan W. Shepardson, Breyon R. Dixon, Joe Pogliano, Stephanie Guerra, Robert Sjoholm, Dale J. Schipper, Phillip Wu, Steven M. Caruso, Larissa K. Temple, Yun jeong Yang, Jason H. Ho, Kohana D. Leuba, Judith Savitskaya, Alyssa Carey, Peter M. Hynes, Jonathan W. Jarvik, Jonathan Tsay, Corwin N. Rhyan, Marie D. Anderson, Lyons M. Tatyana, Rebekah D. Chew, Jennifer R. Laroche, Jessica S. Kelsey, Jeffrey Corajod, Keshav Budwal, James Sandoz, Tomas Kasza, Alexander P. Troum, Lindsay A. Parnell, Crystal Estrada, Sahrish Ekram, Shannon Goff, Hannah Wang, Mark H. Forsyth, Lauren N. Broadway, Madav K. Shroff, Zindzi D. George, Dee R. Denver, Grant A. Hartzog, Kimberly R. Davis, Kit Pogliano, Isaac R. Masters, Trevor Sughrue, Courtney A. Long, Vincent J. Huang, Gina M. Hogan, and Roberto Puertas Garcia
- Subjects
Genome evolution ,Science Policy ,Mycobacteriophage ,Population ,lcsh:Medicine ,Genome, Viral ,Biology ,Microbiology ,Genome ,03 medical and health sciences ,Virology ,education ,lcsh:Science ,Genome Evolution ,030304 developmental biology ,Genetics ,Comparative genomics ,0303 health sciences ,education.field_of_study ,Multidisciplinary ,Base Sequence ,Geography ,Mycobacteriophages ,030306 microbiology ,lcsh:R ,Genetic Variation ,Sequence Analysis, DNA ,Genomics ,Comparative Genomics ,Biological Evolution ,United States ,3. Good health ,Science Education ,Evolutionary biology ,Viral evolution ,DNA, Viral ,lcsh:Q ,Mobile genetic elements ,Research Article - Abstract
Mycobacteriophages are viruses that infect mycobacterial hosts such as Mycobacterium smegmatis and Mycobacterium tuberculosis. All mycobacteriophages characterized to date are dsDNA tailed phages, and have either siphoviral or myoviral morphotypes. However, their genetic diversity is considerable, and although sixty-two genomes have been sequenced and comparatively analyzed, these likely represent only a small portion of the diversity of the mycobacteriophage population at large. Here we report the isolation, sequencing and comparative genomic analysis of 18 new mycobacteriophages isolated from geographically distinct locations within the United States. Although no clear correlation between location and genome type can be discerned, these genomes expand our knowledge of mycobacteriophage diversity and enhance our understanding of the roles of mobile elements in viral evolution. Expansion of the number of mycobacteriophages grouped within Cluster A provides insights into the basis of immune specificity in these temperate phages, and we also describe a novel example of apparent immunity theft. The isolation and genomic analysis of bacteriophages by freshman college students provides an example of an authentic research experience for novice scientists.
- Published
- 2011