Classification of myoviridae bacteriophages using protein sequence similarity

BMC Microbiology

Volumn 9, Issue , 2009, Pages

  Lavigne, Rob ^a   Darius, Paul ^a   Summer, Elizabeth J ^b   Seto, Donald ^c   Mahadevan, Padmanabhan ^c   Nilsson, Anders S ^d   Ackermann, Hans W ^e   Kropinski, Andrew M ^f,g  

^a UNIVERSITY OF LEUVEN   (Belgium)

^b TEXAS A AND M UNIVERSITY   (United States)

^c GEORGE MASON UNIVERSITY   (United States)

^d STOCKHOLM UNIVERSITY   (Sweden)

^e UNIVERSITÉ LAVAL   (Canada)

^f PUBLIC HEALTH AGENCY OF CANADA   (Canada)

^g UNIVERSITY OF GUELPH   (Canada)

Author keywords

[No Author keywords available]

Indexed keywords

AMINO ACID SEQUENCE; ARTICLE; BACTERIAL GENOME; BACTERIOPHAGE; COMPARATIVE STUDY; CONTROLLED STUDY; GENE TRANSFER; NONHUMAN; NUCLEOTIDE SEQUENCE; PEDUOVIRINAE; PHYSICAL CHEMISTRY; SPOUNAVIRINAE; TEEQUATROVIRINAE; UNINDEXED SEQUENCE; VIRUS TYPING; BIOLOGY; CLASSIFICATION; CLUSTER ANALYSIS; GENETICS; METHODOLOGY; PHYLOGENY; PROTEOMICS; SEQUENCE ANALYSIS; SEQUENCE HOMOLOGY; VIRUS GENOME;

BURKHOLDERIA CEPACIA PHAGE BCEP781; MYOVIRIDAE; PODOVIRIDAE; STAPHYLOCOCCUS PHAGE TWORT;

VIRUS PROTEIN;

CLUSTER ANALYSIS; COMPUTATIONAL BIOLOGY; GENOME, VIRAL; MYOVIRIDAE; PHYLOGENY; PROTEOMICS; SEQUENCE ANALYSIS, PROTEIN; SEQUENCE HOMOLOGY, AMINO ACID; VIRAL PROTEINS;

EID: 70449380104     PISSN: 14712180     EISSN: 14712180     Source Type: Journal    
DOI: 10.1186/1471-2180-9-224     Document Type: Article

References (107)

1. CoreGenes: a computational tool for identifying and cataloging "core" genes in a set of small genomes. N Zafar R Mazumder D Seto, BMC Bioinformatics 2002 3 12 11972896 10.1186/1471-2105-3-12 (Pubitemid 38751192)
2. Unifying classical and molecular taxonomic classification: analysis of the Podoviridae using BLASTP-based tools. R Lavigne D Seto P Mahadevan H-W Ackermann AM Kropinski, Research in Microbiology 2008 159 406 414 18555669 10.1016/j.resmic.2008.03.005
3. Virus Taxonomy. CM Fauquet MA Mayo J Maniloff U Desselberger A Ball, VIIIth Report of the International Committee on Taxonomy of Viruses New York, NY: Elsevier Academic Press, Fauquet CM, Mayo MA, Maniloff J, Desselberger U, Ball A, 2005 35 85
4. Molecular characterization of T4-type bacteriophages in a rice field. Z Jia R Ishihara Y Nakajima S Asakawa M Kimura, Environmental Microbiology 2007 9 1091 1096 17359280 10.1111/j.1462-2920.2006.01207.x (Pubitemid 46397084)
5. A selective barrier to horizontal gene transfer in the T4-type bacteriophages that has preserved a core genome with the viral replication and structural genes. J Filée E Bapteste E Susko HM Krisch, Molecular Biology & Evolution 2006 23 1688 1696
6. Marine T4-type bacteriophages, a ubiquitous component of the dark matter of the biosphere. J Filée F Tétart CA Suttle HM Krisch, Proceedings of the National Academy of Sciences of the United States of America 2005 102 12471 12476 16116082
7. Abundance of T4-type bacteriophages in municipal wastewater and sewage. V Klausa L Piesiniene J Staniulis R Nivinskas, Ekologija (Vilnius) 2003 1 47 50
8. Genome analysis of phage JS98 defines a fourth major subgroup of T4-like phages in Escherichia coli. S Zuber C Ngom-Bru C Barretto A Bruttin H Brüssow E Denou, Journal of Bacteriology 2007 189 8206 8214 17693496
9. Modular architecture of the T4 phage superfamily: a conserved core genome and a plastic periphery. AM Comeau C Bertrand A Letarov F Tétart HM Krisch, Virology 2007 362 384 396 17289101
10. Genetic diversity among five T4-like bacteriophages. JM Nolan V Petrov C Bertrand HM Krisch JD Karam, Virology Journal 2006 3 30 16716236
11. Plasticity of the gene functions for DNA replication in the T4-like phages. VM Petrov JM Nolan C Bertrand D Levy C Desplats HM Krisch JD Karam, Journal of Molecular Biology 2006 361 46 68 16828113
12. Snapshot of the genome of the pseudo-T-even bacteriophage RB49. C Desplats C Dez F Tétart H Eleaume HM Krisch, Journal of Bacteriology 2002 184 2789 2804 11976309
13. The genome of the pseudo T-even bacteriophages, a diverse group that resembles T4. C Monod F Repoila M Kutateladze F Tétart HM Krisch, Journal of Molecular Biology 1997 267 237 249 9096222
14. Complete genome sequence of the broad-host-range vibriophage KVP40: comparative genomics of a T4-related bacteriophage. ES Miller JF Heidelberg JA Eisen WC Nelson AS Durkin A Ciecko TV Feldblyum O White IT Paulsen WC Nierman J Lee B Szczypinski CM Fraser, Journal of Bacteriology 2003 185 5220 5233 12923095
15. A novel expression system for production of a labile protein in Escherichia coli by infection with cytosin-substituting T4 phage. T Noguchi H Takahashi, Agricultural and Biological Chemistry 1991 55 2507 2513
16. A bacteriophage T4 gene which functions to inhibit Escherichia coli Lon protease. K Skorupski J Tomaschewski W Rüger LD Simon, Journal of Bacteriology 1988 170 3016 3024 2838455
17. ModA and ModB, two ADP-ribosyltransferases encoded by bacteriophage T4: catalytic properties and mutation analysis. B Tiemann R Depping E Gineikiene L Kaliniene R Nivinskas W Ruger, Journal of Bacteriology 2004 186 7262 7272 15489438
18. New control elements of bacteriophage T4 pre-replicative transcription. JF Pulitzer M Colombo M Ciaramella, Journal of Molecular Biology 1985 182 249 263 3999145
19. Electron microscope heteroduplex study of sequence relations of T2, T4, and T6 bacteriophage DNAs. JS Kim N Davidson, Virology 1974 57 93 111 4594471
20. A catalogue of T4-type bacteriophages. H-W Ackermann HM Krisch, Archives of Virology 1997 142 2329 2345 9672598
21. H-W Ackermann MS DuBow, Viruses of Prokaryotes Boca Raton, FL: CRC Press 1987
22. Classification of Vibrio bacteriophages. H-W Ackermann SS Kasatiya T Kawata T Koga JV Lee A Mbiguino FS Newman JF Vieu A Zachary, Intervirology 1984 22 61 71 6480312
23. Phylogeny of the major head and tail genes of the wide-ranging T4-type bacteriophages. F Tétart C Desplats M Kutateladze C Monod H-W Ackermann HM Krisch, Journal of Bacteriology 2001 183 358 366 11114936
24. The diversity and evolution of the T4-type bacteriophages. C Desplats HM Krisch, Research in Microbiology 2003 154 259 267 12798230
25. A conserved genetic module that encodes the major virion components in both the coliphage T4 and the marine cyanophage S-PM2. E Hambly F Tétart C Desplats WH Wilson HM Krisch NH Mann, Proceedings of the National Academy of Sciences of the United States of America 2001 98 11411 11416 11553768
26. Nearly identical bacteriophage structural gene sequences are widely distributed in both marine and freshwater environments. CM Short CA Suttle CM Short CA Suttle, Applied & Environmental Microbiology 2005 71 480 486
27. Viral photosynthetic reaction center genes and transcripts in the marine environment. I Sharon S Tzahor S Williamson M Shmoish D Man-Aharonovich DB Rusch S Yooseph G Zeidner SS Golden SR Mackey N Adir U Weingart D Horn JC Venter Y Mandel-Gutfreund O Beja, ISME Journal 2007 1 492 501 18043651
28. A supervised learning approach for taxonomic classification of core-photosystem-II genes and transcripts in the marine environment. S Tzahor D Man-Aharonovich BC Kirkup T Yogev I Berman-Frank MF Polz O Beja Y Mandel-Gutfreund, BMC Genomics 2009 10 229 19445709
29. The capsid of the T4 phage superfamily: The evolution, diversity, and structure of some of the most prevalent proteins in the biosphere. AM Comeau HM Krisch, Molecular Biology & Evolution 2008 25 1321 1332
30. Discovery and characterization of a thermostable bacteriophage RNA ligase homologous to T4 RNA ligase 1. T Blondal SH Hjorleifsdottir OF Fridjonsson A Aevarsson S Skirnisdottir AG Hermannsdottir GO Hreggvidsson AV Smith JK Kristjansson, Nucleic Acids Research 2003 31 7247 7254 14654700
31. Studies on lysogenesis. I. The mode of phage liberation by lysogenic Escherichia coli. G Bertani, Journal of Bacteriology 1951 62 293 300 14888646
32. Sur les processus de conjugaison et de recombinaison chez Escherichia coli. I. - L'induction par conjugaison ou induction zygotique. F Jacob EL Wollman, Annales de l'Institut Pasteur 1956 91 486 510 13373067
33. Genetics of P2 and related phages. LE Bertani G Bertani, Advances in Genetics 1971 16 199 237 4947104
34. The late-expressed region of the temperate coliphage 186 genome. R Portelli IB Dodd Q Xue JB Egan, Virology 1998 248 117 130 9705261
35. The P2-like bacteriophages. AS Nilsson E Haggård-Ljungquist, The Bacteriophages New York: Oxford University Press, Calendar R, Second 2006 365 390
36. The complete nucleotide sequence of bacteriophage HP1 DNA. D Esposito WP Fitzmaurice RC Benjamin SD Goodman JJ Scocca, Nucleic Acids Research 1996 24 2360 2368 8710508
37. The complete nucleotide sequence of fCTX, a cytotoxin-converting phage of Pseudomonas aeruginosa: implications for phage evolution and horizontal gene transfer via bacteriophages. K Nakayama S Kanaya M Ohnishi Y Terawaki T Hayashi, Molecular Microbiology 1999 31 399 419 10027959
38. Vibrio cholerae phage K139: complete genome sequence and comparative genomics of related phages. D Kapfhammer J Blass S Evers J Reidl, Journal of Bacteriology 2002 184 6592 6601 12426348
39. Isolation and sequencing of a temperate transducing phage for Pasteurella multocida. S Campoy J Aranda G Alvarez J Barbe M Llagostera, Applied & Environmental Microbiology 2006 72 3154 3160
40. Temperate bacteriophage FO18P from an Aeromonas media isolate: characterization and complete genome sequence. F Beilstein B Dreiseikelmann, Virology 2008 373 25 29 18096197
41. Lactobacillus plantarum bacteriophage LP65: a new member of the SPO1-like genus of the family Myoviridae. S Chibani-Chennoufi ML Dillmann L Marvin-Guy S Rami-Shojaei H Brüssow, Journal of Bacteriology 2004 186 7069 7083 15489418
42. Isolation and characterization of a novel Enterococcus faecalis bacteriophage fEF24C as a therapeutic candidate. J Uchiyama M Rashel Y Maeda I Takemura S Sugihara K Akechi A Muraoka H Wakiguchi S Matsuzaki, FEMS Microbiology Letters 2008 278 200 206 18096017
43. In silico and in vivo evaluation of bacteriophage fEF24C, a candidate for treatment of Enterococcus faecalis infections. J Uchiyama M Rashel I Takemura H Wakiguchi S Matsuzaki, Applied & Environmental Microbiology 2008 74 4149 4163
44. The terminally redundant, nonpermuted genome of Listeria bacteriophage A511: a model for the SPO1-like myoviruses of gram-positive bacteria. J Klumpp J Dorscht R Lurz R Bielmann M Wieland M Zimmer R Calendar MJ Loessner, Journal of Bacteriology 2008 190 5753 5765 18567664
45. Characterization of the genome of Pseudomonas aeruginosa bacteriophage phi PLS27 with particular reference to the ends of the DNA. BJ Allan P Davies EB Carstens AM Kropinski, Journal of Virology 1989 63 1587 1594 2494359
46. Mapping the genes in the terminal redundancy of bacteriophage SPO1 with restriction endonucleases. ME Perkus DA Shub, Journal of Virology 1985 56 40 48 3928902
47. Bacteriophage SPO1 structure and morphogenesis. II. Head structure and DNA size. ML Parker EJ Ralston FA Eiserling, Journal of Virology 1983 46 250 259 6402606
48. Bacteriophage SPO1 structure and morphogenesis. I. Tail structure and length regulation. ML Parker FA Eiserling, Journal of Virology 1983 46 239 249 6402605
49. Functional metagenomic profiling of nine biomes. EA Dinsdale RA Edwards D Hall F Angly M Breitbart JM Brulc M Furlan C Desnues M Haynes L Li L McDaniel MA Moran KE Nelson C Nilsson R Olson J Paul BR Brito Y Ruan BK Swan R Stevens DL Valentine RV Thurber L Wegley BA White F Rohwer, Nature 2008 452 629 632 18337718
50. Evolution and the complexity of bacteriophages. P Serwer, Virol J 2007 4 30 17355641
51. Genetic organization of the psbAD region in phages infecting marine Synechococcus strains. A Millard MRJ Clokie DA Shub NH Mann, Proceedings of the National Academy of Sciences of the United States of America 2004 101 27 14691256
52. Transcription of a 'photosynthetic' T4-type phage during infection of a marine cyanobacterium. MR Clokie J Shan S Bailey Y Jia HM Krisch S West NH Mann MRJ Clokie J Shan S Bailey Y Jia HM Krisch S West NH Mann, Environmental Microbiology 2006 8 827 835 16623740
53. th Evergreen International Phage Biology Meeting, Evergreen Olympia, WA, August 12-17. 2007. CR Stewart JE Houtz A Smith M Ford C Peebles SR Casjens, et al.
54. Shared architecture of bacteriophage SPO1 and herpesvirus capsids [erratum appears in Curr Biol. 2006 Feb 21;16(4):440]. RL Duda RW Hendrix WM Huang JF Conway, Current Biology 2006 16 11 R13 16401408
55. The complete genomes and proteomes of 27 Staphylococcus aureus bacteriophages. T Kwan J Liu M DuBow P Gros J Pelletier, Proceedings of the National Academy of Sciences of the United States of America 2005 102 5174 5179 15788529
56. Bacteriophage P100 for control of Listeria monocytogenes in foods: genome sequence, bioinformatic analyses, oral toxicity study, and application. RM Carlton WH Noordman B Biswas ED de Meester MJ Loessner, Regulatory Toxicology & Pharmacology 2005 43 301 312
57. An investigation on the nature of the ultramicroscopic viruses. FW Twort, Lancet 1915 189 1241 1243
58. Burkholderia cenocepacia phage BcepMu and a family of Mu-like phages encoding potential pathogenesis factors. EJ Summer CF Gonzalez T Carlisle LM Mebane AM Cass CG Savva J LiPuma R Young, Journal of Molecular Biology 2004 340 49 65 15184022
59. Complete genomic sequence of bacteriophage B3, a Mu-like phage of Pseudomonas aeruginosa. MD Braid JL Silhavy CL Kitts RJ Cano MM Howe, Journal of Bacteriology 2004 186 6560 6574 15375138
60. Complete sequence and evolutionary genomic analysis of the Pseudomonas aeruginosa transposable bacteriophage D3112. PW Wang L Chu DS Guttman, Journal of Bacteriology 2004 186 400 410 14702309
61. Mutator bacteriophage D108 and its DNA: an electron microscopic characterization. GS Gill RC Hull R Curtiss IIIrd, Journal of Virology 1981 37 420 430 6452532
62. Prophage genomics. C Canchaya C Proux G Fournous A Bruttin H Brüssow, Microbiology & Molecular Biology Reviews 2003 67 238 276
63. Phage-Finder: automated identification and classification of prophage regions in complete bacterial genome sequences. DE Fouts, Nucleic Acids Research 2006 34 5839 5851 17062630
64. Bacteriophage Mu genome sequence: analysis and comparison with Mu-like prophages in Haemophilus, Neisseria and Deinococcus. GJ Morgan GF Hatfull S Casjens RW Hendrix, Journal of Molecular Biology 2002 317 337 359 11922669
65. Insights into the genome of the enteric bacterium Escherichia blattae: cobalamin (B12) biosynthesis, B12-dependent reactions, and inactivation of the gene region encoding B12-dependent glycerol dehydratase by a new mu-like prophage. S Andres A Wiezer H Bendfeldt T Waschkowitz C Toeche-Mittler R Daniel, Journal of Molecular Microbiology & Biotechnology 2004 8 150 168
66. Functional comparison of the transposition core machineries of phage Mu and Haemophilus influenzae Mu-like prophage Hin-Mu reveals interchangeable components. AH Saariaho A Lamberg S Elo H Savilahti, Virology 2005 331 6 19 15582649
67. Genome of bacteriophage P1. MB Lobocka DJ Rose G Plunkett III M Rusin A Samojedny H Lehnherr MB Yarmolinsky FR Blattner, Journal of Bacteriology 2004 186 7032 7068 15489417
68. Divergence and mosaicism among virulent soil phages of the Burkholderia cepacia complex. EJ Summer CF Gonzalez M Bomer T Carlile W Morrison A Embry AM Kucherka J Lee L Mebane WC Morrison L Mark MD King MJ LiPuma AK Vidaver R Young, Journal of Bacteriology 2006 188 255 268 16352842
69. Sequence analysis of the genome of OP2, a lytic bacteriophage of Xanthomonas oryzae pv. oryzae. Y Inoue T Matsuura T Ohara K Azegami, Journal of General Plant Pathology 2006 72 104 110
70. Rz/Rz1 lysis gene equivalents in phages of Gram-negative hosts. EJ Summer J Berry TA Tran L Niu DK Struck R Young, Journal of Molecular Biology 2007 373 1098 1112 17900620
71. The generalized transducing Salmonella bacteriophage ES18: complete genome sequence and DNA packaging strategy. SR Casjens EB Gilcrease DA Winn-Stapley P Schicklmaier H Schmieger ML Pedulla ME Ford JM Houtz GF Hatfull RW Hendrix, Journal of Bacteriology 2005 187 1091 1104 15659686
72. Lysogeny and bacteriophage host range within the Burkholderia cepacia complex. R Langley DT Kenna P Vandamme R Ure JR Govan, Journal of Medical Microbiology 2003 52 483 490 12748267
73. The genome and proteome of a virulent Escherichia coli O157:H7 bacteriophage closely resembling Salmonella phage Felix O1. A Villegas YM She AM Kropinski EJ Lingohr A Mazzocco S Ojha TE Waddell HW Ackermann DM Moyles R Ahmed RP Johnson, Virology Journal 2009 6 41 19379502
74. Complete genome of the broad-host-range Erwinia amylovora phage fEa21-4 and its relationship to Salmonella phage felix O1. SM Lehman AM Kropinski AJ Castle AM Svircev, Applied & Environmental Microbiology 2009 75 2139 2147
75. The temperate marine phage fHAP-1 of Halomonas aquamarina possesses a linear plasmid-like prophage genome. JM Mobberley RN Authement AM Segall JH Paul, J Virol 2008 82 6618 6630 18448537
76. The complete nucleotide sequence of the Vibrio harveyi bacteriophage VHML. HJ Oakey BR Cullen L Owens HJ Oakey BR Cullen L Owens, Journal of Applied Microbiology 2002 93 1089 1098 12452967
77. A new bacteriophage, VHML, isolated from a toxin-producing strain of Vibrio harveyi in tropical Australia. HJ Oakey L Owens HJ Oakey L Owens, Journal of Applied Microbiology 2000 89 702 709 11054176
78. The temperate marine phage FHAP-1 of Halomonas aquamarina possesses a linear plasmid-like prophage genome. JM Mobberley RN Authement AM Segall JH Paul, Journal of Virology 2008 82 6618 6630 18448537
79. 5500 Phages examined in the electron microscope. H-W Ackermann, Archives of Virology 2007 152 227 243 17051420
80. Exploring the mycobacteriophage metaproteome: phage genomics as an educational platform. GF Hatfull ML Pedulla D Jacobs-Sera PM Cichon A Foley ME Ford RM Gonda JM Houtz AJ Hryckowian VA Kelchner S Namburi KV Pajcini MG Popovich DT Schleicher BZ Simanek AL Smith GM Zdanowicz V Kumar CL Peebles WR Jacobs Jr JG Lawrence RW Hendrix, PLoS Genetics 2006 2 92 16789831
81. Origins of highly mosaic mycobacteriophage genomes. ML Pedulla ME Ford JM Houtz T Karthikeyan C Wadsworth JA Lewis D Jacobs-Sera J Falbo J Gross NR Pannunzio W Brucker V Kumar J Kandasamy L Keenan S Bardarov J Kriakov JG Lawrence WR Jacobs Jr RW Hendrix GF Hatfull, Cell 2003 113 171 182 12705866
82. Molecular characterization of a Clostridium difficile bacteriophage and its cloned biologically active endolysin. MJ Mayer A Narbad MJ Gasson, Journal of Bacteriology 2008 190 6734 6740 18708505
83. The complete genome sequence of Clostridium difficile phage fC2 and comparisons to fCD119 and inducible prophages of CD630. S Goh PF Ong KP Song TV Riley BJ Chang, Microbiology 2007 153 676 685 17322187
84. Genomic organization and molecular characterization of Clostridium difficile bacteriophage FCD119. R Govind JA Fralick RD Rolfe, Journal of Bacteriology 2006 188 2568 2577 16547044
85. Isolation and characterization of temperate bacteriophages of Clostridium difficile. S Goh TV Riley BJ Chang, Appl Environ Microbiol 2005 71 1079 1083 15691969
86. Mining protein sequences for motifs. G Narasimhan C Bu Y Gao X Wang N Xu K Mathee, Journal of Computational Biology 2002 9 707 720 12487759
87. The genome of bacteriophage phiKZ of Pseudomonas aeruginosa. VV Mesyanzhinov J Robben B Grymonprez VA Kostyuchenko MV Bourkaltseva NN Sykilinda VN Krylov G Volckaert, Journal of Molecular Biology 2002 317 1 19 11916376
88. Genome comparison of Pseudomonas aeruginosa large phages. K Hertveldt R Lavigne E Pleteneva N Sernova L Kurochkina R Korchevskii J Robben V Mesyanzhinov VN Krylov G Volckaert, Journal of Molecular Biology 2005 354 536 545 16256135
89. "phiKZ-like viruses", a proposed new genus of myovirus bacteriophages. VN Krylov DM Dela Cruz K Hertveldt H-W Ackermann, Archives of Virology 2007 152 1955 1959 17680323
90. Characterization of Pseudomonas chlororaphis myovirus 201varphi2-1 via genomic sequencing, mass spectrometry, and electron microscopy. JA Thomas MR Rolando CA Carroll PS Shen DM Belnap ST Weintraub P Serwer SC Hardies, Virology 2008 376 330 338 18474389
91. Lysogeny in Pseudomonas aeruginosa. BW Holloway JB Egan M Monk, Australian Journal of Experimental Biology 1960 38 321 330
92. DNA homology in species of bacteriophages active on Pseudomonas aeruginosa. VN Krylov TO Tolmachova VZ Akhverdian, Archives of Virology 1993 131 141 151 8328909
93. A new bacteriophage typing set for Pseudomonas aeruginosa I. Selection procedure. T Bergan, Acta Pathologica et Microbiologica Scandinavica B 1972 80 117 180
94. Phage typing of Pseudomonas aeruginosa: clinical and epidemiological considerations. RB Lindberg RL Latta, Journal of Infectious Diseases 1974 130 33 S43 4213792
95. Morphology of Pseudomonas aeruginosa typing phages of the Lindberg set. H-W Ackermann C Cartier S Slopek J-F Vieu, Annales de l'Institut Pasteur/Virologie 1988 139 389 404
96. Bacteriophage enrichment from water and soil. R Van Twest AM Kropinski, Methods in Molecular Biology 2009 501 15 21 19066806
97. Comparative genomic analysis of 18 Pseudomonas aeruginosa bacteriophages. T Kwan J Liu M DuBow P Gros J Pelletier T Kwan J Liu M Dubow P Gros J Pelletier, Journal of Bacteriology 2006 188 1184 1187 16428425
98. Antimicrobial drug discovery through bacteriophage genomics. J Liu M Dehbi G Moeck F Arhin P Bauda D Bergeron M Callejo V Ferretti N Ha T Kwan J McCarty R Srikumar D Williams JJ Wu P Gros J Pelletier M DuBow, Nature Biotechnology 2004 22 185 191 14716317
99. Reticulate representation of evolutionary and functional relationships between phage genomes. G Lima-Mendez HJ van A Toussaint R Leplae, Mol Biol Evol 2008 25 762 777 18234706
100. The Phage Proteomic Tree: a genome-based taxonomy for phage. F Rohwer R Edwards, Journal of Bacteriology 2002 184 4529 4535 12142423
101. Isolation and characterization of a generalized transducing phage for Pseudomonas aeruginosa strains PAO1 and PA14. JM Budzik WA Rosche A Rietsch GA O'Toole, Journal of Bacteriology 2004 186 3270 3273 15126493
102. Bacteriophage G: analysis of a bacterium-sized phage genome. ML Pedulla JA Lewis HL Hendrickson ME Ford JM Houtz CL Peebles JG Lawrence GF Hatfull RW Hendrix, Proceeding of the 103rd Annual Meeting of the American Society for Microbiology, Washington, DC 2003
103. Three Prochlorococcus cyanophage genomes: signature features and ecological interpretations. MB Sullivan ML Coleman P Weigele F Rohwer SW Chisholm MB Sullivan ML Coleman P Weigele F Rohwer SW Chisholm, Plos Biology 2005 3 144 15828858
104. The genome of S-PM2, a "photosynthetic" T4-type bacteriophage that infects marine Synechococcus strains. NH Mann MR Clokie A Millard A Cook WH Wilson PJ Wheatley A Letarov HM Krisch, Journal of Bacteriology 2005 187 3188 3200 15838046
105. The third age of phage. NH Mann, Plos Biology 2005 3 182 15884981
106. Genomic and structural analysis of Syn9, a cyanophage infecting marine Prochlorococcus and Synechococcus. PR Weigele WH Pope ML Pedulla JM Houtz AL Smith JF Conway J King GF Hatfull JG Lawrence RW Hendrix, Environmental Microbiology 2007 9 1675 1695 17564603
107. Unifying classical and molecular taxonomic classification: analysis of the Podoviridae using BLASTP-based tools. R Lavigne D Seto O Mahadevan H-W Ackermann AM Kropinski, Research in Microbiology 2008 159 406 414 18555669