title: Polar freshwater cyanophage S-EIV1 represents a new widespread evolutionary lineage of phages.
abstract: Cyanobacteria are often the dominant phototrophs in polar freshwater communities; yet, the phages that infect them remain unknown. Here, we present a genomic and morphological characterization of cyanophage S-EIV1 that was isolated from freshwaters on Ellesmere Island (Nunavut, High Arctic Canada), and which infects the polar Synechococcus sp., strain PCCC-A2c. S-EIV1 represents a newly discovered evolutionary lineage of bacteriophages whose representatives are widespread in aquatic systems. Among the 130 predicted open reading frames (ORFs) there is no recognizable similarity to genes that encode structural proteins other than the large terminase subunit and a distant viral morphogenesis protein, indicating that the genes encoding the structural proteins of S-EIV1 are distinct from other viruses. As well, only 19 predicted coding sequences on the 79 178 bp circularly permuted genome have homology with genes encoding proteins of known function. Although S-EIV1 is divergent from other sequenced phage isolates, it shares synteny with phage genes captured on a fosmid from the deep-chlorophyll maximum in the Mediterranean Sea, as well as with an incision element in the genome of Anabaena variabilis (ATCC 29413). Sequence recruitment of metagenomic data indicates that S-EIV1-like viruses are cosmopolitan and abundant in a wide range of aquatic systems, suggesting they have an important ecological role.
authors.affiliation: Department of Earth, Ocean and Atmospheric Sciences, University of British Columbia, Vancouver, British Columbia, Canada.
authors.forename: C
authors.initials: C
authors.lastname: Chénard
authors.affiliation: Department of Earth, Ocean and Atmospheric Sciences, University of British Columbia, Vancouver, British Columbia, Canada.
authors.forename: A M
authors.initials: AM
authors.lastname: Chan
authors.affiliation: Département de Biologie and Centre d'études nordiques (CEN), Laval University, Quebec City, Quebec, Canada.
authors.forename: W F
authors.initials: WF
authors.lastname: Vincent
authors.affiliation: 1] Department of Earth, Ocean and Atmospheric Sciences, University of British Columbia, Vancouver, British Columbia, Canada [2] Departments of Botany, and Microbiology & Immunology, University of British Columbia, Vancouver, British Columbia, Canada [3] Canadian Institute for Advanced Research, Toronto, Ontario, Canada.
authors.forename: C A
authors.initials: CA
authors.lastname: Suttle
mesh_terms: D017033:Anabaena / Q000235:genetics; D001110:Arctic Regions; D001435:Bacteriophages / Q000235:genetics*; D005075:Biological Evolution; D002170:Canada; D002725:Chloroform; D002734:Chlorophyll / Q000737:chemistry; D005618:Fresh Water / Q000382:microbiology; D016679:Genome, Viral; D023281:Genomics; D008522:Mediterranean Sea; D046529:Microscopy, Electron, Transmission; D016366:Open Reading Frames; D010802:Phylogeny; D017422:Sequence Analysis, DNA; D046940:Synechococcus / Q000235:genetics / Q000821:virology*; D026801:Synteny; D014764:Viral Proteins / Q000235:genetics*
chemical_list: D014764:Viral Proteins; D002734:Chlorophyll; D002725:Chloroform
references.citation: Proc Natl Acad Sci U S A. 2011 Sep 27;108(39):E757-64
references.pmid: 21844365
references.citation: Environ Microbiol. 2012 Feb;14(2):540-58
references.pmid: 22188618
references.citation: J Bacteriol. 2008 Mar;190(5):1762-72
references.pmid: 18065537
references.citation: Environ Microbiol. 2013 May;15(5):1356-76
references.pmid: 23320838
references.citation: Appl Environ Microbiol. 2002 May;68(5):2589-94
references.pmid: 11976141
references.citation: Environ Microbiol. 2009 Sep;11(9):2370-87
references.pmid: 19508343
references.citation: J Bacteriol. 2005 May;187(9):3188-200
references.pmid: 15838046
references.citation: J Bacteriol. 1997 Aug;179(16):5188-94
references.pmid: 9260963
references.citation: Proc Natl Acad Sci U S A. 2013 Jul 23;110(30):12343-8
references.pmid: 23798439
references.citation: Genome Announc. 2013 Aug 22;1(4):null
references.pmid: 23969045
references.citation: Science. 1963 May 10;140(3567):679-80
references.pmid: 13976026
references.citation: Microb Ecol. 2008 Nov;56(4):671-80
references.pmid: 18443848
references.citation: FEMS Microbiol Lett. 2004 Jul 15;236(2):249-56
references.pmid: 15251204
references.citation: Science. 2013 Feb 1;339(6119):576-9
references.pmid: 23306440
references.citation: Trends Genet. 1990 Nov;6(11):363-8
references.pmid: 1965068
references.citation: PLoS One. 2013;8(2):e57355
references.pmid: 23468974
references.citation: Environ Microbiol. 2007 Jul;9(7):1675-95
references.pmid: 17564603
references.citation: PLoS One. 2008;3(6):e2324
references.pmid: 18545660
references.citation: Environ Microbiol. 2011 Jul;13(7):1858-74
references.pmid: 21605306
references.citation: J Virol. 2012 Jan;86(1):236-45
references.pmid: 22031930
references.citation: Appl Environ Microbiol. 1993 Oct;59(10):3393-9
references.pmid: 16349072
references.citation: Bioinformatics. 2004 Mar 22;20(5):629-35
references.pmid: 15033869
references.citation: ISME J. 2014 Jan;8(1):103-14
references.pmid: 23985748
references.citation: Microb Ecol. 1994 Sep;28(2):237-43
references.pmid: 24186450
references.citation: J Bacteriol. 2002 Sep;184(17):4891-905
references.pmid: 12169615
references.citation: J Bacteriol. 2004 Nov;186(21):7029-31
references.pmid: 15489416
references.citation: Plant Physiol. 1998 Jun;117(2):483-90
references.pmid: 9625701
references.citation: Nucleic Acids Res. 1997 Mar 1;25(5):955-64
references.pmid: 9023104
references.citation: Bioinformatics. 2014 Aug 1;30(15):2114-20
references.pmid: 24695404
references.citation: FEMS Microbiol Ecol. 2013 Nov;86(2):312-26
references.pmid: 23772675
references.citation: Virol J. 2010;7:291
references.pmid: 21029435
references.citation: Annu Rev Genet. 2008;42:647-81
references.pmid: 18687036
references.citation: PLoS Biol. 2005 May;3(5):e144
references.pmid: 15828858
references.citation: Environ Microbiol. 2012 Aug;14(8):2113-26
references.pmid: 22348436
references.citation: Bioinformatics. 2007 Mar 15;23(6):673-9
references.pmid: 17237039
references.citation: Genome Biol. 2012;13(12):R122
references.pmid: 23259615
references.citation: Bioinformatics. 2007 Apr 1;23(7):802-8
references.pmid: 17267437
references.citation: Nat Struct Mol Biol. 2010 Jul;17(7):830-6
references.pmid: 20543830
references.citation: Extremophiles. 2008 Mar;12(2):167-75
references.pmid: 18188502
references.citation: Proc Natl Acad Sci U S A. 2012 Feb 7;109(6):2037-42
references.pmid: 22308387
references.citation: Nature. 2013 Feb 21;494(7437):357-60
references.pmid: 23407494
references.citation: Nucleic Acids Res. 2004;32(1):11-6
references.pmid: 14704338
references.citation: Appl Environ Microbiol. 1994 Sep;60(9):3167-74
references.pmid: 16349372
references.citation: Environ Microbiol. 2009 Nov;11(11):2935-51
references.pmid: 19840100
references.citation: ISME J. 2010 Feb;4(2):191-202
references.pmid: 19890368
references.citation: Appl Environ Microbiol. 1991 Mar;57(3):721-6
references.pmid: 16348439
references.citation: Nucleic Acids Res. 2007 Jul;35(Web Server issue):W649-52
references.pmid: 17452345
references.citation: Nucleic Acids Res. 1998 Feb 15;26(4):1107-15
references.pmid: 9461475
references.citation: Virology. 2007 Sep 15;366(1):28-39
references.pmid: 17499329
references.citation: Proc Natl Acad Sci U S A. 2013 Jan 15;110(3):1053-8
references.pmid: 23277585
references.citation: Proc Natl Acad Sci U S A. 2004 Jul 27;101(30):11013-8
references.pmid: 15256601
references.citation: Microbiol Rev. 1991 Dec;55(4):561-85
references.pmid: 1779927
references.citation: ISME J. 2010 Sep;4(9):1154-66
references.pmid: 20393571
references.citation: J Biol Chem. 1995 Sep 22;270(38):22478-82
references.pmid: 7673237
references.citation: Syst Biol. 2008 Oct;57(5):758-71
references.pmid: 18853362
references.citation: J Bacteriol. 1964 Sep;88:771-5
references.pmid: 14208517
references.citation: Environ Microbiol. 2010 Nov;12(11):3035-56
references.pmid: 20662890
references.citation: Appl Environ Microbiol. 2009 Jun;75(11):3634-40
references.pmid: 19363063
references.citation: J Virol. 2011 Mar;85(5):2406-15
references.pmid: 21177804
references.citation: Nucleic Acids Res. 2008 Jul 1;36(Web Server issue):W181-4
references.pmid: 18411202
references.citation: PLoS One. 2012;7(3):e33641
references.pmid: 22432038
references.citation: Nature. 2003 Aug 28;424(6952):1047-51
references.pmid: 12944965
references.citation: Proc Natl Acad Sci U S A. 2013 Jul 30;110(31):12798-803
references.pmid: 23858439
references.citation: Proc Natl Acad Sci U S A. 2004 Jul 27;101(30):11007-12
references.pmid: 15263091
references.citation: PLoS Genet. 2013;9(12):e1003987
references.pmid: 24348267
references.citation: Appl Environ Microbiol. 1993 Nov;59(11):3736-43
references.pmid: 16349088
references.citation: Appl Environ Microbiol. 2006 Feb;72(2):1239-47
references.pmid: 16461672
references.citation: Virology. 1971 Nov;46(2):200-8
references.pmid: 4108613