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Volumn 489, Issue , 2016, Pages 243-251

Genomic characterization and comparison of seven Myoviridae bacteriophage infecting Bacillus thuringiensis

Author keywords

Bacillus thuringiensis; Bacteriophages; Bioinformatics; Genomics; Phages; Sequencing

Indexed keywords

DNA DIRECTED DNA POLYMERASE ALPHA; DNA POLYMERASE; ENDONUCLEASE; TRANSFER RNA; VIRUS PROTEIN;

EID: 84954288432     PISSN: 00426822     EISSN: 10960341     Source Type: Journal    
DOI: 10.1016/j.virol.2015.12.012     Document Type: Article
Times cited : (27)

References (43)
  • 2
    • 34948860729 scopus 로고    scopus 로고
    • Causes for the intriguing presence of tRNAs in phages
    • Bailly-Bechet M., Vergassola M., Rocha E. Causes for the intriguing presence of tRNAs in phages. Genome Res. 2007, 17:1486-1495.
    • (2007) Genome Res. , vol.17 , pp. 1486-1495
    • Bailly-Bechet, M.1    Vergassola, M.2    Rocha, E.3
  • 3
    • 0001195758 scopus 로고
    • Host controlled variation in bacterial viruses
    • Bertani G., Weigle J.J. Host controlled variation in bacterial viruses. J. Bacteriol. 1953, 65:113-121.
    • (1953) J. Bacteriol. , vol.65 , pp. 113-121
    • Bertani, G.1    Weigle, J.J.2
  • 4
    • 84857574105 scopus 로고    scopus 로고
    • Gene identification in prokaryotic genomes, phages, metagenomes, and EST sequences with GeneMarkS suite
    • (Unit 4.5.1-17)
    • Borodovsky M., Lomsadze A. Gene identification in prokaryotic genomes, phages, metagenomes, and EST sequences with GeneMarkS suite. Curr. Protoc. Bioinform. 2011, 4. (Unit 4.5.1-17).
    • (2011) Curr. Protoc. Bioinform. , vol.4
    • Borodovsky, M.1    Lomsadze, A.2
  • 5
    • 1042304214 scopus 로고    scopus 로고
    • JDotter: a Java interface to multiple dotplots generated by dotter
    • Brodie R., Roper R.L., Upton C. JDotter: a Java interface to multiple dotplots generated by dotter. Bioinformatics 2004, 20:279-281.
    • (2004) Bioinformatics , vol.20 , pp. 279-281
    • Brodie, R.1    Roper, R.L.2    Upton, C.3
  • 6
    • 84857188863 scopus 로고    scopus 로고
    • Artemis: an integrated platform for visualization and analysis of high-throughput sequence-based experimental data
    • Carver T., Harris S.R., Berriman M., Parkhill J., McQuillan J.A. Artemis: an integrated platform for visualization and analysis of high-throughput sequence-based experimental data. Bioinformatics 2012, 28:464-469.
    • (2012) Bioinformatics , vol.28 , pp. 464-469
    • Carver, T.1    Harris, S.R.2    Berriman, M.3    Parkhill, J.4    McQuillan, J.A.5
  • 8
    • 84884616952 scopus 로고    scopus 로고
    • Bacteriophage lambda repressor mediates the formation of a complex enhancer-like structure
    • Cui L., Murchland I., Dodd I.B., Shearwin K.E. Bacteriophage lambda repressor mediates the formation of a complex enhancer-like structure. Transcription 2013, 4:201-205.
    • (2013) Transcription , vol.4 , pp. 201-205
    • Cui, L.1    Murchland, I.2    Dodd, I.B.3    Shearwin, K.E.4
  • 10
    • 84873349855 scopus 로고    scopus 로고
    • Genome sequence and analysis of a broad-host range lytic bacteriophage that infects the Bacillus cereus group
    • El-Arabi T.F., Griffiths M.W., She Y.-, Villegas A., Lingohr E.J., Kropinski A.M. Genome sequence and analysis of a broad-host range lytic bacteriophage that infects the Bacillus cereus group. Virol. J. 2013, 10.
    • (2013) Virol. J. , vol.10
    • El-Arabi, T.F.1    Griffiths, M.W.2    She, Y.-3    Villegas, A.4    Lingohr, E.J.5    Kropinski, A.M.6
  • 11
    • 7544249301 scopus 로고    scopus 로고
    • Taxonomy of the genus bacillus and related genera: the aerobic endospore-forming bacteria
    • Fritze D. Taxonomy of the genus bacillus and related genera: the aerobic endospore-forming bacteria. Phytopathology 2004, 94:1245-1248.
    • (2004) Phytopathology , vol.94 , pp. 1245-1248
    • Fritze, D.1
  • 12
    • 84890011303 scopus 로고    scopus 로고
    • Consed: a graphical editor for next-generation sequencing
    • Gordon D., Green P. Consed: a graphical editor for next-generation sequencing. Bioinformatics 2013, 29:2936-2937.
    • (2013) Bioinformatics , vol.29 , pp. 2936-2937
    • Gordon, D.1    Green, P.2
  • 13
    • 84908059138 scopus 로고    scopus 로고
    • Correction: genomic comparison of 93 Bacillus phages reveals 12 clusters, 14 singletons and remarkable diversity
    • Grose J.H., Jensen G.L., Burnett S.H., Breakwell D.P. Correction: genomic comparison of 93 Bacillus phages reveals 12 clusters, 14 singletons and remarkable diversity. BMC Genom. 2014, 15:1184-1204.
    • (2014) BMC Genom. , vol.15 , pp. 1184-1204
    • Grose, J.H.1    Jensen, G.L.2    Burnett, S.H.3    Breakwell, D.P.4
  • 14
    • 0002051540 scopus 로고    scopus 로고
    • BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows95/98/NT
    • Hall T. BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows95/98/NT. Nucleic Acids Symp. 1999, 41:95-98.
    • (1999) Nucleic Acids Symp. , vol.41 , pp. 95-98
    • Hall, T.1
  • 15
    • 84903118394 scopus 로고    scopus 로고
    • Gene identification in prokaryotic genomes, phages, metagenomes, and EST sequences with GeneMarkS suite
    • Borodovsky M., Lomsadze A. Gene identification in prokaryotic genomes, phages, metagenomes, and EST sequences with GeneMarkS suite. Curr. Protoc. Microbiol. 2014, 32.
    • (2014) Curr. Protoc. Microbiol. , vol.32
    • Borodovsky, M.1    Lomsadze, A.2
  • 20
    • 0023909946 scopus 로고
    • A persistent untranslated sequence within bacteriophage T4 DNA topoisomerase gene 60
    • Huang W.M., Ao S.Z., Casjens S., Orlandi R., Zeikus R., Weiss R., Winge D., Fang M. A persistent untranslated sequence within bacteriophage T4 DNA topoisomerase gene 60. Science 1988, 239:1005-1012.
    • (1988) Science , vol.239 , pp. 1005-1012
    • Huang, W.M.1    Ao, S.Z.2    Casjens, S.3    Orlandi, R.4    Zeikus, R.5    Weiss, R.6    Winge, D.7    Fang, M.8
  • 21
    • 77950105950 scopus 로고    scopus 로고
    • Bacteriophage host range and bacterial resistance
    • Hyman P., Abedon S.T. Bacteriophage host range and bacterial resistance. Adv. Appl. Microbiol. 2010, 70:217-248.
    • (2010) Adv. Appl. Microbiol. , vol.70 , pp. 217-248
    • Hyman, P.1    Abedon, S.T.2
  • 22
    • 84880491729 scopus 로고    scopus 로고
    • The Cry4B toxin of Bacillus thuringiensis subsp. israelensis kills permethrin-resistant Anopheles gambiae, the principal vector of malaria
    • Ibrahim M.A., Griko N.B., Bulla L.A. The Cry4B toxin of Bacillus thuringiensis subsp. israelensis kills permethrin-resistant Anopheles gambiae, the principal vector of malaria. Exp. Biol. Med. (Maywood) 2013, 238:350-359.
    • (2013) Exp. Biol. Med. (Maywood) , vol.238 , pp. 350-359
    • Ibrahim, M.A.1    Griko, N.B.2    Bulla, L.A.3
  • 24
    • 39749191170 scopus 로고    scopus 로고
    • Drawing explicit phylogenetic networks and their integration into SplitsTree
    • 22-2148-8-22
    • Kloepper T.H., Huson D.H. Drawing explicit phylogenetic networks and their integration into SplitsTree. BMC Evol. Biol. 2008, 8. 22-2148-8-22.
    • (2008) BMC Evol. Biol. , vol.8
    • Kloepper, T.H.1    Huson, D.H.2
  • 26
    • 84907298189 scopus 로고    scopus 로고
    • The odd one out: Bacillus ACT bacteriophage CP-51 exhibits unusual properties compared to related Spounavirinae W.Ph. and Bastille
    • Klumpp J., Schmuki M., Sozhamannan S., Beyer W., Fouts D.E., Bernbach V., Calendar R., Loessner M.J. The odd one out: Bacillus ACT bacteriophage CP-51 exhibits unusual properties compared to related Spounavirinae W.Ph. and Bastille. Virology 2014, 462-463:299-308.
    • (2014) Virology , pp. 299-308
    • Klumpp, J.1    Schmuki, M.2    Sozhamannan, S.3    Beyer, W.4    Fouts, D.E.5    Bernbach, V.6    Calendar, R.7    Loessner, M.J.8
  • 27
    • 34249734822 scopus 로고    scopus 로고
    • Gepard: a rapid and sensitive tool for creating dotplots on genome scale
    • Krumsiek J., Arnold R., Rattei T. Gepard: a rapid and sensitive tool for creating dotplots on genome scale. Bioinformatics 2007, 23:1026-1028.
    • (2007) Bioinformatics , vol.23 , pp. 1026-1028
    • Krumsiek, J.1    Arnold, R.2    Rattei, T.3
  • 28
    • 0037901842 scopus 로고    scopus 로고
    • The nicking homing endonuclease I-BasI is encoded by a group I intron in the DNA polymerase gene of the Bacillus thuringiensis phage Bastille
    • Landthaler M., Shub D.A. The nicking homing endonuclease I-BasI is encoded by a group I intron in the DNA polymerase gene of the Bacillus thuringiensis phage Bastille. Nucleic Acids Res. 2003, 31:3071-3077.
    • (2003) Nucleic Acids Res. , vol.31 , pp. 3071-3077
    • Landthaler, M.1    Shub, D.A.2
  • 30
    • 1242297827 scopus 로고    scopus 로고
    • ARAGORN, a program to detect tRNA genes and tmRNA genes in nucleotide sequences
    • Laslett D., Canback B. ARAGORN, a program to detect tRNA genes and tmRNA genes in nucleotide sequences. Nucleic Acids Res. 2004, 32:11-16.
    • (2004) Nucleic Acids Res. , vol.32 , pp. 11-16
    • Laslett, D.1    Canback, B.2
  • 31
    • 84899882251 scopus 로고    scopus 로고
    • Characterization and comparative genomic analysis of bacteriophages infecting members of the Bacillus cereus group
    • Lee J.H., Shin H., Ryu S. Characterization and comparative genomic analysis of bacteriophages infecting members of the Bacillus cereus group. Arch. Virol. 2014, 159:871-884.
    • (2014) Arch. Virol. , vol.159 , pp. 871-884
    • Lee, J.H.1    Shin, H.2    Ryu, S.3
  • 34
    • 0030854739 scopus 로고    scopus 로고
    • TRNAscan-SE: a program for improved detection of transfer RNA genes in genomic sequence
    • Lowe T.M., Eddy S.R. tRNAscan-SE: a program for improved detection of transfer RNA genes in genomic sequence. Nucleic Acids Res. 1997, 25:955-964.
    • (1997) Nucleic Acids Res. , vol.25 , pp. 955-964
    • Lowe, T.M.1    Eddy, S.R.2
  • 35
    • 0001538170 scopus 로고
    • A nonhereditary, host-induced variation of bacterial viruses
    • Luria S.E., Human M.L. A nonhereditary, host-induced variation of bacterial viruses. J. Bacteriol. 1952, 64:557-569.
    • (1952) J. Bacteriol. , vol.64 , pp. 557-569
    • Luria, S.E.1    Human, M.L.2
  • 36
    • 84899768313 scopus 로고    scopus 로고
    • Informational requirements for transcriptional regulation
    • O'Neill P.K., Forder R., Erill I. Informational requirements for transcriptional regulation. J. Comput. Biol. 2014, 21:373-384.
    • (2014) J. Comput. Biol. , vol.21 , pp. 373-384
    • O'Neill, P.K.1    Forder, R.2    Erill, I.3
  • 38
    • 0021359098 scopus 로고
    • Interspecies transduction of plasmids among Bacillus anthracis, B. cereus, and B. thuringiensis
    • Ruhfel R.E., Robillard N.J., Thorne C.B. Interspecies transduction of plasmids among Bacillus anthracis, B. cereus, and B. thuringiensis. J. Bacteriol. 1984, 157:708-711.
    • (1984) J. Bacteriol. , vol.157 , pp. 708-711
    • Ruhfel, R.E.1    Robillard, N.J.2    Thorne, C.B.3
  • 39
    • 23144460836 scopus 로고    scopus 로고
    • The tRNAscan-SE, snoscan and snoGPS web servers for the detection of tRNAs and snoRNAs
    • Schattner P., Brooks A.N., Lowe T.M. The tRNAscan-SE, snoscan and snoGPS web servers for the detection of tRNAs and snoRNAs. Nucleic Acids Res. 2005, 33:W686-W689.
    • (2005) Nucleic Acids Res. , vol.33 , pp. W686-W689
    • Schattner, P.1    Brooks, A.N.2    Lowe, T.M.3
  • 40
    • 23144452044 scopus 로고    scopus 로고
    • The HHpred interactive server for protein homology detection and structure prediction
    • Soding J., Biegert A., Lupas A.N. The HHpred interactive server for protein homology detection and structure prediction. Nucleic Acids Res. 2005, 33:W244-W248.
    • (2005) Nucleic Acids Res. , vol.33 , pp. W244-W248
    • Soding, J.1    Biegert, A.2    Lupas, A.N.3
  • 41
    • 0016264492 scopus 로고
    • Cold lability of Bacillus cereus bacteriophage CP 51
    • Thorne C.B., Holt S.C. Cold lability of Bacillus cereus bacteriophage CP 51. J. Virol. 1974, 14:1008-1012.
    • (1974) J. Virol. , vol.14 , pp. 1008-1012
    • Thorne, C.B.1    Holt, S.C.2
  • 42
    • 0038518210 scopus 로고    scopus 로고
    • Phylogenetic relationships between Bacillus species and related genera inferred from comparison of 3' end 16S rDNA and 5' end 16S-23S ITS nucleotide sequences
    • Xu D., Cote J.C. Phylogenetic relationships between Bacillus species and related genera inferred from comparison of 3' end 16S rDNA and 5' end 16S-23S ITS nucleotide sequences. Int. J. Syst. Evol. Microbiol. 2003, 53:695-704.
    • (2003) Int. J. Syst. Evol. Microbiol. , vol.53 , pp. 695-704
    • Xu, D.1    Cote, J.C.2
  • 43
    • 0034800374 scopus 로고    scopus 로고
    • InterProScan-an integration platform for the signature-recognition methods in InterPro
    • Zdobnov E.M., Apweiler R. InterProScan-an integration platform for the signature-recognition methods in InterPro. Bioinformatics 2001, 17:847-848.
    • (2001) Bioinformatics , vol.17 , pp. 847-848
    • Zdobnov, E.M.1    Apweiler, R.2


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