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The official website of the HHMI Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science program.

SEA-PHAGES Publications

Below is a list of publications that are based on data generated by participants in the SEA-PHAGES program and are authored by SEA-PHAGES students or faculty.

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Lee, Puglisi, et alMartin Lee, Kayla M. Puglisi, UMBC STEM-BUILD Cohort 1, Ivan Erill, Steven M. Caruso 2018 Genome Announcements Complete Genome Sequences of HonestAbe, Anthony, and Taffo16, Three Cluster C Bacillus cereus Group Bacteriophages Yes
Christopher James Pattona, Hari Kotturia Christopher James Pattona, Hari Kotturia 2018 Genome Announcements Genomic Sequence of Mycobacteriophage OKCentral2016 Yes
Doyle et al.Doyle EL, Fillman CL, Reyna NS, Tobiason DM, Westholm DE, Askins JL, Backus BP, Baker AC, Ballard HS, Bisesi PJ, Bond L, Byrnes D, Carlstedt H, Dodson KS, Fallert MJ, Foster KJ, Games DN, Grams TR, Guild NA, Hurd A, Iwata N, Kepler CR, Krenzke LR, Luekens K, Lewis J, McEntee C, McGee JC, Nalley N3, Plymale RC, Prochaska J, Rogers RG, Schipper JB, Snyder K, Uhrich K, Vermillion CD, Vickers SK, Wenta MD, Yates TZ, Young CF, Stoner TH, Pope WH, Jacobs-Sera D, Garlena RA, Russell DA, Cresawn SG, Hatfull GF. 2018 Genome Announcements Genome Sequences of Four Cluster P Mycobacteriophages 33
Erill, Caruso, et alIvan Erill, Steven M. Caruso, on behalf of the 2016 UMBC Phage Hunters 2018 Genome Announcements Complete Genome Sequence of Streptomyces Bacteriophage Abt2graduatex2 Yes
Dedrick et al.Dedrick, R. M., Jacobs-Sera, D., Guerrero Bustamante, C. A., Garlena, R. A., Mavrich, T. N., Pope, W. H. , Reyes, J. C., Russell, D. A., Adair, T., Alvey, R., Bonilla, J. A., Bricker, J. S., Brown, B. R., Byrnes, D., Cresawn, S. G., Davis, W. B., Dickson, L. A., Edgington, N. P., Findley, A. M., Golebiewska, U., Grose, J. H., Hayes, C. F., Hughes, L. E., Hutchison, K. W., Isern, S., Johnson, A. A., Kenna, M. A., Klyczek, K. K, Mageeney, C. M., Michael, S. F., Molloy, S. D., Montgomery, M. T., Neitzel, J., Page, S. T., Pizzorno, M. C., Poxleitner, M. K., Rinehart, C. A., Robinson, C. J., Rubin, M. R., Teyim, J. N., Vazquez, E., Ware, V. C., Washington, J., and Hatfull, G. F. 2017 Nature Microbiology Prophage-mediated defence against viral attack and viral counter-defence. No
Erill, Caruso, et alIvan Erill, Steven M. Caruso, on behalf of the 2016 UMBC Phage Hunters 2017 Genome Announcements Complete Genome Sequences of Three phi29-Like Bacillus cereus Group Podoviridae Yes
Donegan-Quick et alRichard Donegan-Quick, Zane A. Gibbs, Patricia O. Amaku, Joshua T. Bernal, Dana A. M. Boyd, Angela R. Burr, Rainna E. Coelho, Akpedje S. Dossou, Ryan M. Henry, Mai Huynh, Thalia A. Kanani-Hendijani, Guillermina Martinez, Tianeaka O. McClendon-Moss, Sergio Orozco, Johnny M. San Martin, Kaitlyn E. Stoddart, Madison M. Stringer, Rachel L. Villegas, Subhayu Nayek, Nikita Suri, Rebecca A. Garlena, Daniel A. Russell, Lee E. Hughes 2017 Genome Announcements Genome Sequences of Five Streptomyces Bacteriophages Forming Cluster BG Yes
Kirk Anders, Marianne K. PoxlietnerKirk R. Anders, Alex M. Murphy*, William F. Ettinger, Douglas Kempthorne, Charles Kittridge, Alex Kures, Sarah Lundgren, Jacob Masters, Rachel Noyes, Christina Winters, Perry Yazzolino, Kasandra Ziebert, Joseph Haydock, Stephen Hayes, Rebecca A. Garlena, Daniel A. Russell, Marianne K. Poxleitner, Ann-Scott H. Ettinger 2017 Genome Announcements Genome Sequences of Cluster K Mycobacteriophages DrHayes, Urkel, and SamuelLPlaqson Yes
Layton et alLayton SR, Hemenway RM, Munyoki CM, Barnes EB, Barnett SE, Bond AM, Narvaez JM, Sirisakd CD, Smith BR, Swain J, Syed O, Bowman CA, Russell DA, Bhuiyan S, Donegan-Quick R, Benjamin RC, Hughes LE. 2016 Genome Announcements Genome Sequences of Streptomyces Phages Amela and Verse Yes
Erill, Caruso, et alIvan Erill, Steven M. Caruso, on behalf of the 2015 UMBC Phage Hunters 2016 Genome Announcements Genome Sequence of Bacillus cereus Group Phage SalinJah Yes
Sauder et alSauder A.B., Quinn M.R., Brouillette A., Caruso S., Cresawn S., Erill I., Lewis L., Loesser-Casey K., Pate M., Scott C., Stockwell S., Temple L. 2016 Virology Genomic characterization and comparison of seven Myoviridae bacteriophage infecting Bacillus thuringiensis Yes
Abraham, Bousquet, Bruff, et alJ. Abraham, A.-C. Bousquet, E. Bruff, N. Carson, A. Clark, A. Connell, Z. Davis, J. Dums, C. Everington, A. Groth, N. Hawes, N. McArthur, C. McKenney, A. Oufkir, B. Pearce, S. Rampal, H. Rozier, J. Schaff, T. Slehria, S. Carson, E. S. Miller 2016 Genome Announcements Paenibacillus larvae Phage Tripp Genome Has 378-Base-Pair Terminal Repeats Yes
Carson et alCarson S, Bruff E, DeFoor W, Dums J, Groth A, Hatfield T, Iyer A, Joshi K, McAdams S, Miles D, Miller D, Oufkir A, Raynor B, Riley S, Roland S, Rozier H, Talley S, Miller ES. 2015 Genome Announcements Genome Sequences of Six Paenibacillus larvae Siphoviridae Phages Yes
Pope WH et alPope WH, Carbonara ME, Cioffi HM, Cruz T, Dang BQ, Doyle AN, Fan OH, Gallagher M, Gentile GM, German BA, Farrell ME, Gerwig M, Hunter KL, Lefever VE, Marfisi NA, McDonnell JE, Monga JK, Quiroz KG, Pong AC, Rimple PA, Situ M, Sohnen PC, Stockinger AN, Thompson PK, Torchio NM, Toner CL, Ulbrich MC, Vohra NI, Zakir A, Adkins NL, Brown BR, Churilla BM, Kramer ZJ, Lapin JS, Montgomery MT, Prout AK, Grubb SR, Warner MH, Bowman CA, Russell DA, Hatfull GF. 2015 Genome Announcements Genome Sequences of Mycobacteriophages AlanGrant, Baee, Corofin, OrangeOswald, and Vincenzo, New Members of Cluster B. Yes
Erill, Caruso, et alIvan Erill, Steven M. Caruso, on behalf of the 2013 UMBC Phage Hunters 2015 Genome Announcements Genome Sequences of Two Bacillus cereus Group Bacteriophages, Eyuki and AvesoBmore Yes
Erill, Caruso, et alIvan Erill, Steven M. Caruso, on behalf of the 2014 UMBC Phage Hunters 2015 Genome Announcements Complete Genome Sequence of Bacillus cereus Group Phage TsarBomba Yes
Pope, Bowman, Russell, et alPope WH, Bowman CA, Russell DA, Jacobs-Sera D, Asai DJ, Cresawn SG, Jacobs WR, Hendrix RW, Lawrence JG, Hatfull GF; Science Education Alliance Phage Hunters Advancing Genomics and Evolutionary Science; Phage Hunters Integrating Research and Education; Mycobacterial Genetics Course 2015 eLIFE Whole genome comparison of a large collection of mycobacteriophages reveals a continuum of phage genetic diversity Yes
Cresawn SG, Pope WH, Jacobs-Sera D, Bowman CA, et alCresawn SG, Pope WH, Jacobs-Sera D, Bowman CA, Russell DA, Dedrick RM, Adair T, Anders KR, Ball S, Bollivar D, Breitenberger C, Burnett SH, Butela K, Byrnes D, Carzo S, Cornely KA, Cross T, Daniels RL, Dunbar D, Findley AM, Gissendanner CR, Golebiewska UP, Hartzog GA, Hatherill JR, Hughes LE, Jalloh CS, De Los Santos C, Ekanem K, Khambule SL, King RA, King-Smith C, Klyczek K, Krukonis GP, Laing C, Lapin JS, Lopez AJ, Mkhwanazi SM, Molloy SD, Moran D, Munsamy V, Pacey E, Plymale R, Poxleitner M, Reyna N, Schildbach JF, Stukey J, Taylor SE, Ware VC, Wellmann AL, Westholm D, Wodarski D, Zajko M, Zikalala TS, Hendrix RW, Hatfull GF 2015 PLoS One Comparative genomics of Cluster O mycobacteriophages Yes
Grose JH, et alGrose JH, Jensen GL, Burnett SH, Breakwell DP 2014 BMC Genomics Genomic comparison of 93 Bacillus phages reveals 12 clusters, 14 singletons and remarkable diversity No
Grose JH, et alGrose JH, Belnap DM, Jensen JD, Mathis AD, Prince JT, Merrill BD, Burnett SH, Breakwell DP 2014 Journal of Virology The genomes, proteomes, and structures of three novel phages that infect the Bacillus cereus group and carry putative virulence factors No
Gissendanner CR et alGissendanner CR, Wiedemeier AM, Wiedemeier PD, Minton RL, Bhuiyan S, Harmson JS, Findley AM 2014 Journal of Basic Microbiology A web-based restriction endonuclease tool for mycobacteriophage cluster prediction No
Jordan TC et alJordan TC, Burnett SH, Carson S, Caruso SM, Clase K, DeJong RJ, Dennehy JJ, Denver DR, Dunbar D, Elgin SC, Findley AM, Gissendanner CR, Golebiewska UP, Guild N, Hartzog GA, Grillo WH, Hollowell GP, Hughes LE, Johnson A, King RA, Lewis LO, Li W, Rosenzweig F, Rubin MR, Saha MS, Sandoz J, Shaffer CD, Taylor B, Temple L, Vazquez E, Ware VC, Barker LP, Bradley KW, Jacobs-Sera D, Pope WH, Russell DA, Cresawn SG, Lopatto D, Bailey CP, Hatfull GF. 2014 mBio A broadly implementable research course in phage discovery and genomics for first-year undergraduate students No
Pope WH et alPope WH, Anders KR, Baird M, Bowman CA, Boyle MM, Broussard GW, Chow T, Clase KL, Cooper S, Cornely KA, DeJong RJ, Delesalle VA, Deng L, Dunbar D, Edgington NP, Ferreira CM, Weston Hafer K, Hartzog GA, Hatherill JR, Hughes LE, Ipapo K, Krukonis GP, Meier CG, Monti DL, Olm MR, Page ST, Peebles CL, Rinehart CA, Rubin MR, Russell DA, Sanders ER, Schoer M, Shaffer CD, Wherley J, Vazquez E, Yuan H, Zhang D, Cresawn SG, Jacobs-Sera D, Hendrix RW, Hatfull GF. 2014 Journal of Virology Cluster M mycobacteriophages Bongo, PegLeg, and Rey with unusually large repetoires of tRNA isotypes Yes
Breakwell, Barrus, Benedict, et alBreakwell DP1, Barrus EZ, Benedict AB, Brighton AK, Fisher JN, Gardner AV, Kartchner BJ, Ladle KC, Lunt BL, Merrill BD, Morrell JD, Burnett SH, Grose JH. 2013 Genome Announcements Genome sequences of five b1 subcluster mycobacteriophages Yes
Hatfull et alHatfull GF; Science Education Alliance Phage Hunters Advancing Genomics and Evolutionary Science (SEA-PHAGES) Program; KwaZulu-Natal Research Institute for Tuberculosis and HIV (K-RITH) Mycobacterial Genetics Course; University of California—Los Angeles Research Immersion Laboratory in Virology; Phage Hunters Integrating Research and Education (PHIRE) Program 2013 Genome Announcements Complete genome sequences of 63 mycobacteriophages Yes
Lorenz L, et alLorenz L, Lins B, Barrett J, Montgomery A, Trapani S, Schindler A, Christie GE, Cresawn SG, Temple L 2013 Virology Genomic characterization of six novel Bacillus pumilus bacteriophages Yes
Smith KC et alSmith KC, Castro-Nallar E, Fisher JN, Breakwell DP, Grose JH, Burnett SH. 2013 BMC Genomics Phage cluster relationships identified through single gene analysis No
Pope, WH et alPope WH, Jacobs-Sera D, Best AA, Broussard GW, Connerly PL, Dedrick RM, Kremer TA, Offner S, Ogiefo AH, Pizzorno MC, Rockenbach K, Russell DA, Stowe EL, Stukey J, Thibault SA, Conway JF, Hendrix RW, Hatfull GF. 2013 PLoS One Cluster J mycobacteriophages:intron splicing in capsid and tail genes Yes
Hatfull et alHatfull GF; Science Education Alliance Phage Hunters Advancing Genomics and Evolutionary Science Program; KwaZulu-Natal Research Institute for Tuberculosis and HIV Mycobacterial Genetics Course Students; Phage Hunters Integrating Research and Education Program 2012 Journal of Virology Complete genome sequences of 138 mycobacteriophages Yes
Jacobs-Sera, D., et alJacobs-Sera D, Marinelli LJ, Bowman C, Broussard GW, Guerrero Bustamante C, Boyle MM, Petrova ZO, Dedrick RM, Pope WH; Science Education Alliance Phage Hunters Advancing Genomics And Evolutionary Science Sea-Phages Program, Modlin RL, Hendrix RW, Hatfull GF. 2012 Virology On the nature of mycobacteriophage diversity and host preference No
Mageeney C, et al.Mageeney C, Pope WH, Harrison M, Moran D, Cross T, Jacobs-Sera D, Hendrix RW, Dunbar D, Hatfull GF. 2012 Journal of Virology Mycobacteriophage Marvin: a new singleton phage with an unusual genome organization. Yes
Harrison, Dunbar, Ratmansky, et alHarrison M, Dunbar D, Ratmansky L, Boyd K, Lopatto D 2011 CBE Life Sciences Education Classroom-based science research at the introductory level: changes in career choices and attitude No
Cresawn SG, et al.Cresawn SG, Bogel M, Day N, Jacobs-Sera D, Hendrix RW, Hatfu 2011 BMC Bioinformatics Phamerator: a bioinformatic tool for comparative bacteriophage genomics. No
Pope WH, Ferreira CM, Jacobs-Sera D, et alPope WH, Ferreira CM, Jacobs-Sera D, Benjamin RC, Davis AJ, DeJong RJ, Elgin SC, Guilfoile FR, Forsyth MH, Harris AD, Harvey SE, Hughes LE, Hynes PM, Jackson AS, Jalal MD, MacMurray EA, Manley CM, McDonough MJ, Mosier JL, Osterbann LJ, Rabinowitz HS, Rhyan CN, Russell DA, Saha MS, Shaffer CD, Simon SE, Sims EF, Tovar IG, Weisser EG, Wertz JT, Weston-Hafer KA, Williamson KE, Zhang B, Cresawn SG, Jain P, Piuri M, Jacobs WR Jr, Hendrix RW, Hatfull GF. 2011 PLoS One Cluster K mycobacteriophages: insights into the evolutionary origins of mycobacteriophage TM4 Yes
Pope WH et alPope WH, Jacobs-Sera D, Russell DA, Peebles CL, Al-Atrache Z, Alcoser TA, Alexander LM, Alfano MB, Alford ST, Amy NE, Anderson MD, Anderson AG, Ang AA, Ares M Jr, Barber AJ, Barker LP, Barrett JM, Barshop WD, Bauerle CM, Bayles IM, Belfield KL, Best AA, Borjon A Jr, Bowman CA, Boyer CA, Bradley KW, Bradley VA, Broadway LN, Budwal K, Busby KN, Campbell IW, Campbell AM, Carey A, Caruso SM, Chew RD, Cockburn CL, Cohen LB, Corajod JM, Cresawn SG, Davis KR, Deng L, Denver DR, Dixon BR, Ekram S, Elgin SC, Engelsen AE, English BE, Erb ML, Estrada C, Filliger LZ, Findley AM, Forbes L, Forsyth MH, Fox TM, Fritz MJ, Garcia R, George ZD, Georges AE, Gissendanner CR, Goff S, Goldstein R, Gordon KC, Green RD, Guerra SL, Guiney-Olsen KR, Guiza BG, Haghighat L, Hagopian GV, Harmon CJ, Harmson JS, Hartzog GA, Harvey SE, He S, He KJ, Healy KE, Higinbotham ER, Hildebrandt EN, Ho JH, Hogan GM, Hohenstein VG, Holz NA, Huang VJ, Hufford EL, Hynes PM, Jackson AS, Jansen EC, Jarvik J, Jasinto PG, Jordan TC, Kasza T, Katelyn MA, Kelsey JS, Kerrigan LA, Khaw D, Kim J, Knutter JZ, Ko CC, Larkin GV, Laroche JR, Latif A, Leuba KD, Leuba SI, Lewis LO, Loesser-Casey KE, Long CA, Lopez AJ, Lowery N, Lu TQ, Mac V, Masters IR, McCloud JJ, McDonough MJ, Medenbach AJ, Menon A, Miller R, Morgan BK, Ng PC, Nguyen E, Nguyen KT, Nguyen ET, Nicholson KM, Parnell LA, Peirce CE, Perz AM, Peterson LJ, Pferdehirt RE, Philip SV, Pogliano K, Pogliano J, Polley T, Puopolo EJ, Rabinowitz HS, Resiss MJ, Rhyan CN, Robinson YM, Rodriguez LL, Rose AC, Rubin JD, Ruby JA, Saha MS, Sandoz JW, Savitskaya J, Schipper DJ, Schnitzler CE, Schott AR, Segal JB, Shaffer CD, Sheldon KE, Shepard EM, Shepardson JW, Shroff MK, Simmons JM, Simms EF, Simpson BM, Sinclair KM, Sjoholm RL, Slette IJ, Spaulding BC, Straub CL, Stukey J, Sughrue T, Tang TY, Tatyana LM, Taylor SB, Taylor BJ, Temple LM, Thompson JV, Tokarz MP, Trapani SE, Troum AP, Tsay J, Tubbs AT, Walton JM, Wang DH, Wang H, Warner JR, Weisser EG, Wendler SC, Weston-Hafer KA, Whelan HM, Williamson KE, Willis AN, Wirtshafter HS, Wong TW, Wu P, Yang Y, Yee BC, Zaidins DA, Zhang B, Zúniga MY, Hendrix RW, Hatfull GF. 2011 PLoSOne Expanding the diversity of mycobacteriophages: Insights into genome architecture and evolution Yes
Temple L, Cresawn SG, Monroe JD.Temple L, Cresawn SG, Monroe JD. 2010 Biochemistry and Molecular Biology Education Genomics and bioinformatics in undergraduate curricula: Contexts for hybrid laboratory/lecture courses for entering and advanced science students No
Caruso SM1, Sandoz J, Kelsey J.Caruso SM, Sandoz J, Kelsey J. 2009 CBE Life Sciences Education Non-STEM undergraduates become enthusiastic phage-hunters No
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