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Archives of Virology

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12.06.2017 | Annotated Sequence Record

Complete genome sequence of Halomonas ventosae virulent halovirus QHHSV-1

verfasst von: Chaoqun Fu, Qin Zhao, Zhiying Li, Yongxia Wang, Shiying Zhang, Yonghong Lai, Wei Xiao, Xiaolong Cui

Erschienen in: Archives of Virology | Ausgabe 10/2017

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Abstract

A virulent halovirus QHHSV-1 which lyses Halomonas ventosae QH52-2 originating from the Qiaohou salt mine in Yunnan, Southwest China was characterized. The complete genome of QHHSV-1 is composed of a circular double-stranded DNA of 37,270 base pairs in length, with 66.8% G+C content and 69 putative open reading frames (ORFs), which were classified into five functional groups, including morphogenesis, replication/regulation, packaging, lysis and lysogeny. A putative Cro repressor gene and an integrase gene were found in the genome, showing that QHHSV-1 may utilize a lambda-like repression system under unfavorable conditions. QHHSV-1 is the first report of the whole genome sequence of the virulent Halomonas phage belonging to the family Siphoviridae.

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Porter K, Russ BE, Dyall-Smith ML (2007) Virus-host interactions in salt lakes. Curr Opin Microbiol 10:418–424CrossRefPubMed

Adriaenssens EM, Zyl LJV, Cowan DA et al (2016) Metaviromics of Namib Desert Salt Pans: a novel lineage of Haloarchaeal Salterproviruses and a rich source of ssDNA viruses. Viruses 8:14CrossRefPubMedCentral

Oren A (2002) Diversity of halophilic microorganisms: environments, phylogeny, physiology, and applications. J Ind Microbiol Biotechnol 28:56–63CrossRefPubMed

Atanasova NS, Bamford DH, Oksanen HM (2016) Virus–host interplay in high salt environments. Environ Microbiol Rep 8:431–444CrossRefPubMed

Pedrós-Alió C, Calderón-Paz JI, Maclean MH et al (2000) The microbial food web along salinity gradients. FEMS Microbiol Ecol 32:143–155CrossRefPubMed

Boujelben I, Yarza P, Almansa C et al (2012) Virioplankton community structure in Tunisian solar salterns. Appl Environ Microbiol 78:7429–7437CrossRefPubMedPubMedCentral

Atanasova NS, Oksanen HM, Bamford DH (2015) Haloviruses of archaea, bacteria, and eukaryotes. Curr Opin Microbiol 25:40–48CrossRefPubMed

Fu CQ, Bai M, Wang YX et al (2017) Advances in bacteriophages isolated from hypersaline environments. Microbiol China 44(4):920−928

Vreeland RH, Litchfield CD, Martin EL et al (1980) Halomonas elongata, a new genus and species of extremely salt-tolerant bacteria. Int J Syst Bacteriol 30:485–495CrossRef

10.

Lim J-M, Yoon JH, Lee J-C et al (2004) Halomonas koreensis sp. nov., a novel moderately halophilic bacterium isolated from a solar saltern in Korea. Int J Syst Evol Microbiol 54:2037–2042CrossRefPubMed

11.

Mobberley JM, Authement RN, Segall AM et al (2008) The temperate marine phage phihap-1 of Halomonas aquamarina possesses a linear plasmid-like prophage genome. J Virol 82:6618–6630CrossRefPubMedPubMedCentral

12.

Wang YX, Xiao W, Dong MH et al (2014) Halomonas qiaohouensis, sp. nov. isolated from salt mine soil in southwest China. Antonie van Leeuwenhoek 106:253–260CrossRefPubMed

13.

Fu CQ, Zhao Q, Li ZY et al (2016) A novel Halomonas ventosae-specific virulent halovirus isolated from the Qiaohou salt mine in Yunnan, southwest China. Extremophiles 20:101–110CrossRefPubMed

14.

Chevreux B, Pfisterer T, Drescher B et al (2004) Using the miraEST assembler for reliable and automated mRNA transcript assembly and SNP detection in sequenced ESTs. Genome Res 14:1147–1159CrossRefPubMedPubMedCentral

15.

Besemer J, Lomsadze A, Borodovsky M (2001) GenemarkS: a self-training method for prediction of gene starts in microbial genomes. Implications for finding sequence motifs in regulatory regions. Nucleic Acids Res 29:2607–2618CrossRefPubMedPubMedCentral

16.

Stephen FA, Thomas LM, Alejandro AS et al (1997) Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res 25:3389–3402CrossRef

17.

Marchler-Bauer A, Derbyshire MK, Gonzales NR et al (2015) CDD: NCBI’s conserved domain database. Nucleic Acids Res 43(Database issue):D222–D226CrossRefPubMed

18.

Bjellqvist B, Hughes GJ, Pasquali C et al (1993) The focusing positions of polypeptides in immobilized pH gradients can be predicted from their amino acid sequences. Electrophoresis 14:1023–1031CrossRefPubMed

19.

Laslett D, Canback B (2004) ARAGORN, a program for the detection of transfer RNA and transfer-messenger RNA genes in nucleotide sequences. Nucleic Acids Res 32:11–16CrossRefPubMedPubMedCentral

20.

Becker B, de la Fuente N, Gassel M et al (1997) Head morphogenesis genes of the Bacillus subtilis bacteriophage SPP1. J MolBiol 268:822–839CrossRef

21.

Duda RL, Martincic K, Hendrix RW (1995) Genetic basis of bacteriophage HK97 prohead assembly. J Mol Biol 247:636–647PubMed

22.

Abuladze NK, Gingery M, Tsai J et al (1994) Tail length determination in bacteriophage T4. Virology 199:301–310CrossRefPubMed

23.

Pedersen M, Ostergaard S, Bresciani J et al (2000) Mutational analysis of two structural genes of the temperate lactococcal bacteriophage TP901-1 involved in tail length determination and baseplate assembly. Virology 276:315–328CrossRefPubMed

24.

Cardarelli L, Lam R, Tuite A et al (2010) The crystal structure of bacteriophage HK97 gp6: defining a large family of head–tail connector proteins. J Mol Biol 395:754–768CrossRefPubMed

25.

Ackermann HW, DuBow MS (1987) Viruses of prokaryotes. CRC Press, Boca Raton

26.

Ryder L, Sharples GJ, Lloyd RG (1996) Recombination-dependent growth in exonuclease-depleted recBCsbcBC strains of Escherichia coli K-12. Genetics 143:1101–1114PubMedPubMedCentral

27.

Mehr IJ, Long CD, Serkin CD et al (2000) A homologue of the recombination-dependent growth gene, Rdgc, is involved in Gonococcalpilin antigenic variation. Genetics 154:523–532PubMedPubMedCentral

28.

Sharples GJ, Chan SN, Mahdi AA et al (1995) Processing of intermediates in recombination and DNA repair: identification of a new endonuclease that specifically cleaves Holliday junctions. EMBO J 13:6133–6142

29.

Mahdi AA, Sharples GJ, Mandal TN et al (1996) Holliday junction resolvases encoded by homologous rusA genes in Escherichia coli K-12 and phage 82. J Mol Biol 257:561–573CrossRefPubMed

30.

Waite-Rees PA, Keating CJ, Moran LS et al (1991) Characterization and expression of the Escherichia coli Mrr restriction system. J Bacteriol 173:5207–5219CrossRefPubMedPubMedCentral

31.

King G, Murray NE (1994) Restriction enzymes in cells, not eppendorfs. Trends Microbiol 2:465–469CrossRefPubMed

32.

Bazinet C, King J (1985) The DNA translocating vertex of dsDNA bacteriophage. Annu Rev Microbiol 39:109–129CrossRefPubMed

33.

Rao VB (2008) The bacteriophage DNA packaging motor. Annu Rev Genet 42:647–681CrossRefPubMed

34.

Baxevanis AD (2005) In: Baxevanis AD, Ouellette BFF (eds) Bioinformatics. Wiley, Hoboken, pp 295–324

35.

Claverie J-M, Notredame C (2007) Bioinformatics for dummies. Wiley Publishing Inc, Indianapolis

36.

Krupovic M, Forterre P, Bamford DH (2010) Comparative analysis of the mosaic genomes of tailed archaeal viruses and proviruses suggests common themes for virion architecture and assembly with tailed viruses of bacteria. J Mol Biol 397:144–160CrossRefPubMed

37.

Pietilä MK, Laurinmäki P, Russell DA et al (2013) Insights into head-tailed viruses infecting extremely halophilic archaea. J Virol 87:3248–3260CrossRefPubMedPubMedCentral

38.

Garcia DL, Dillard JP (2006) AmiC functions as an N-acetylmuramyl-l-alanine amidase necessary for cell separation and can promote autolysis in Neisseria gonorrhoeae. J Bacteriol 188:7211–7221CrossRefPubMedPubMedCentral

39.

Fattah KR, Mizutani S, Fattah FJ et al (2000) A comparative study of the immunity region of lambdoid phages including Shiga-toxin-converting phages: molecular basis for cross immunity. Genes Genet Syst 75:223–232CrossRefPubMed

40.

Ptashne M (2004) A genetic switch: phage lambda revisited. Cold Spring Harbor Laboratory Press, Cold Spring Harbor

41.

Lehours P, Vale FF, Bjursell MK et al (2011) Genome sequencing reveals a phage in Helicobacter pylori. Mbio 2:1867–1877CrossRef

42.

Mei Y, He C, Huang Y et al (2015) Salinity regulation of the interaction of halovirus SNJ1 with its host and alteration of the halovirus replication strategy to adapt to the variable ecosystem. PLoS One 10:537–542

43.

Aalto AP, Bitto D, Ravantti JJ et al (2012) Snapshot of virus evolution in hypersaline environments from the characterization of a membrane-containing salisaeta icosahedral phage 1. Proc Natl Acad Sci USA 109:7079–7084CrossRefPubMedPubMedCentral

44.

Casjens SR, Gilcrease EB, Huang WM et al (2004) The pKO2 linear plasmid prophage of Klebsiella oxytoca. J Bacteriol 186:1818–1832CrossRefPubMedPubMedCentral

45.

Ravin V, Ravin N, Casjens S et al (2000) Genomic sequence and analysis of the atypical temperate bacteriophage N15. J Mol Biol 299:53–73CrossRefPubMed

Titel: Complete genome sequence of Halomonas ventosae virulent halovirus QHHSV-1
verfasst von: Chaoqun Fu
Qin Zhao
Zhiying Li
Yongxia Wang
Shiying Zhang
Yonghong Lai
Wei Xiao
Xiaolong Cui
Publikationsdatum: 12.06.2017
Verlag: Springer Vienna
Erschienen in: Archives of Virology / Ausgabe 10/2017
Print ISSN: 0304-8608
Elektronische ISSN: 1432-8798
DOI: https://doi.org/10.1007/s00705-017-3415-0

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