Depth-specific distribution of the SAR116 phages revealed by virome binning

Journal of Microbiology and Biotechnology

Volumn 24, Issue 5, 2014, Pages 592-596

  Kang, Ilnam ^a   Cho, Jang Cheon ^a  

^a Inha University   (South Korea)

Author keywords

"Candidatus puniceispirillum marinum; HMO 2011; Marine virus; Metagenome binning; Sar116; Strain IMCC1322; Viral metagenome

Indexed keywords

ARTICLE; BACTERIAL GENETICS; BACTERIAL INFECTION; BACTERIAL STRAIN; BACTERIOPHAGE; CLADISTICS; COASTAL WATERS; GENE SEQUENCE; GENOME ANALYSIS; GEOGRAPHIC DISTRIBUTION; METAGENOME; NONHUMAN; OCEAN ENVIRONMENT; PACIFIC OCEAN; POPULATION ABUNDANCE; POPULATION DYNAMICS; SAR116 PHAGE; SPECIES DISTRIBUTION; TAXONOMY; VIRAL GENETICS; VIRUS GENOME; VIRUS STRAIN; BACTERIA; CLASSIFICATION; GENETICS; MICROBIOLOGY; PHYSIOLOGY; VIROLOGY;

SEA WATER;

BACTERIA; BACTERIOPHAGES; GENOME, VIRAL; METAGENOME; PACIFIC OCEAN; SEAWATER;

EID: 84901018661     PISSN: 10177825     EISSN: 17388872     Source Type: Journal    
DOI: 10.4014/jmb.1312.12062     Document Type: Article

References (19)

1. Collins CA, Pennington JT, Castro CG, Rago TA, Chavez FP. 2003. The California Current system off Monterey, California: physical and biological coupling. Deep Sea Res. Part II Top. Stud. Oceanogr. 50: 2389-2404.
2. Danovaro R, Corinaldesi C, Dell'Anno A, Fuhrman JA, Middelburg JJ, Noble RT, et al. 2011. Marine viruses and global climate change. FEMS Microbiol. Rev. 35: 993-1034.
3. Gifford SM, Sharma S, Booth M, Moran MA. 2013. Expression patterns reveal niche diversification in a marine microbial assemblage. ISME J. 7: 281-298.
4. Giovannoni SJ, Vergin KL. 2012. Seasonality in ocean microbial communities. Science 335: 671-676.
5. Grote J, Bayindirli C, Bergauer K, Moraes PC, Chen H, D'Ambrosio L, et al. 2011. Complete genome sequence of strain HIMB100, a cultured representative of the SAR116 clade of marine Alphaproteobacteria. Stand. Genomic Sci. 5: 269-278.
6. Hurwitz BL, Sullivan MB. 2013. The Pacific Ocean Virome (POV): a marine viral metagenomic dataset and associated protein clusters for quantitative viral ecology. PLoS One 8: e57355.
7. Kang I, Oh H-M, Kang D, Cho J-C. 2013. Genome of a SAR116 bacteriophage shows the prevalence of this phage type in the oceans. Proc. Natl. Acad. Sci. USA 110: 12343- 12348.
8. Karl DM. 1999. A sea of change: biogeochemical variability in the North Pacific Subtropical Gyre. Ecosystems 2: 181-214.
9. Lin Y-C, Campbell T, Chung C-C, Gong G-C, Chiang K-P, Worden AZ. 2012. Distribution patterns and phylogeny of marine stramenopiles in the North Pacific Ocean. Appl. Environ. Microbiol. 78: 3387-3399.
10. Morris RM, Rappe MS, Connon SA, Vergin KL, Siebold WA, Carlson CA, et al. 2002. SAR11 clade dominates ocean surface bacterioplankton communities. Nature 420: 806-810.
11. Oh H-M, Kwon KK, Kang I, Kang SG, Lee J-H, Kim S-J, et al. 2010. Complete genome sequence of "Candidatus Puniceispirillum marinum" IMCC1322, a representative of the SAR116 clade in the Alphaproteobacteria. J. Bacteriol. 192: 3240-3241.
12. Paerl RW, Johnson KS, Welsh RM, Worden AZ, Chavez FP, Zehr JP. 2011. Differential distributions of Synechococcus subgroups across the California Current system. Front. Microbiol. 2: 59.
13. Pham VD, Konstantinidis KT, Palden T, DeLong EF. 2008. Phylogenetic analyses of ribosomal DNA-containing bacterioplankton genome fragments from a 4000 m vertical profile in the North Pacific Subtropical Gyre. Environ. Microbiol. 10: 2313-2330.
14. Rappé MS, Kemp PF, Giovannoni SJ. 1997. Phylogenetic diversity of marine coastal picoplankton 16S rRNA genes cloned from the continental shelf off Cape Hatteras, North Carolina. Limnol. Oceanogr. 42: 811-826.
15. Rappé MS, Vergin K, Giovannoni SJ. 2000. Phylogenetic comparisons of a coastal bacterioplankton community with its counterparts in open ocean and freshwater systems. FEMS Microbiol. Ecol. 33: 219-232.
16. Sun S, Chen J, Li W, Altintas I, Lin A, Peltier S, et al. 2011. Community cyberinfrastructure for Advanced Microbial Ecology Research and Analysis: the CAMERA resource. Nucleic Acids Res. 39: D546-D551.
17. Suzuki MT, Preston CM, Béjà O, de la Torre JR, Steward GF, DeLong EF. 2004. Phylogenetic screening of ribosomal RNA gene-containing clones in bacterial artificial chromosome (BAC) libraries from different depths in Monterey Bay. Microb. Ecol. 48: 473-488.
18. Treusch AH, Vergin KL, Finlay LA, Donatz MG, Burton RM, Carlson CA, et al. 2009. Seasonality and vertical structure of microbial communities in an ocean gyre. ISME J. 3: 1148-1163.
19. Zhao Y, Temperton B, Thrash JC, Schwalbach MS, Vergin KL, Landry ZC, et al. 2013. Abundant SAR11 viruses in the ocean. Nature 494: 357-360.