New dimensions of the virus world discovered through metagenomics

被引:212
|
作者
Kristensen, David M. [2 ]
Mushegian, Arcady R. [2 ,3 ]
Dolja, Valerian V. [4 ,5 ]
Koonin, Eugene V. [1 ]
机构
[1] NIH, Natl Ctr Biotechnol Informat, Bethesda, MD 20894 USA
[2] Stowers Inst Med Res, Kansas City, MO 64110 USA
[3] Univ Kansas, Med Ctr, Dept Microbiol Mol Genet & Immunol, Kansas City, KS 66160 USA
[4] Oregon State Univ, Dept Bot & Plant Pathol, Corvallis, OR 97331 USA
[5] Oregon State Univ, Ctr Genome Res & Biocomp, Corvallis, OR 97331 USA
关键词
STRANDED RNA VIRUSES; TRANSFER AGENT GENES; LARGE DNA VIRUSES; EVOLUTIONARY GENOMICS; VIRAL METAGENOMICS; MARINE VIRUSES; SARGASSO SEA; MIMIVIRUS; SEQUENCES; COMMUNITIES;
D O I
10.1016/j.tim.2009.11.003
中图分类号
Q5 [生物化学]; Q7 [分子生物学];
学科分类号
071010 ; 081704 ;
摘要
Metagenomic analysis of viruses suggests novel patterns of evolution, changes the existing ideas of the composition of the virus world and reveals novel groups of viruses and virus-like agents. The gene composition of the marine DNA virome is dramatically different from that of known bacteriophages. The virome is dominated by rare genes, many of which might be contained within virus-like entities such as gene transfer agents. Analysis of marine metagenomes thought to consist mostly of bacterial genes revealed a variety of sequences homologous to conserved genes of eukaryotic nucleocytoplasmic large DNA viruses, resulting in the discovery of diverse members of previously undersampled groups and suggesting the existence of new classes of virus-like agents. Unexpectedly, metagenomics of marine RNA viruses showed that representatives of only one superfamily of eukaryotic viruses, the picorna-like viruses, dominate the RNA virome.
引用
收藏
页码:11 / 19
页数:9
相关论文
共 50 条
  • [31] A NEW-WORLD COMES TO LIFE, DISCOVERED IN A STALK OF BAMBOO
    CONOVER, A
    SMITHSONIAN, 1994, 25 (07) : 120 - &
  • [32] Dimensions of amphibian alpha diversity in the New World
    Ochoa-Ochoa, Leticia M.
    Mejia-Dominguez, Nancy R.
    Velasco, Julian A.
    Dimitrov, Dimitar
    Marske, Katharine A.
    JOURNAL OF BIOGEOGRAPHY, 2020, 47 (11) : 2293 - 2302
  • [33] Novel Divergent Members of the Kitrinoviricota Discovered through Metagenomics in the Intestinal Contents of Red-Backed Voles (Clethrionomys gapperi)
    Canuti, Marta
    Rodrigues, Bruce
    Lang, Andrew S.
    Dufour, Suzanne C.
    Verhoeven, Joost T. P.
    INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES, 2023, 24 (01)
  • [34] Zika virus in a New World
    Vial Claro, Pablo Agustin
    Araos Bralic, Rafael Ignacio
    REVISTA CHILENA DE PEDIATRIA-CHILE, 2016, 87 (02): : 79 - 81
  • [35] A distinct abundant group of microbial rhodopsins discovered using functional metagenomics
    Pushkarev, Alina
    Inoue, Keiichi
    Larom, Shirley
    Flores-Uribe, Jose
    Singh, Manish
    Konno, Masae
    Tomida, Sahoko
    Ito, Shota
    Nakamura, Ryoko
    Tsunoda, Satoshi P.
    Philosof, Alon
    Sharon, Itai
    Yutin, Natalya
    Koonin, Eugene V.
    Kandori, Hideki
    Beja, Oded
    NATURE, 2018, 558 (7711) : 595 - +
  • [36] Environmental microbiology and metagenomics: the Brave New World is here, what's next?
    Koonin, Eugene V.
    ENVIRONMENTAL MICROBIOLOGY, 2018, 20 (12) : 4210 - 4212
  • [37] Evaluation of methods to concentrate and purify ocean virus communities through comparative, replicated metagenomics
    Hurwitz, Bonnie L.
    Deng, Li
    Poulos, Bonnie T.
    Sullivan, Matthew B.
    ENVIRONMENTAL MICROBIOLOGY, 2013, 15 (05) : 1428 - 1440
  • [38] A distinct abundant group of microbial rhodopsins discovered using functional metagenomics
    Alina Pushkarev
    Keiichi Inoue
    Shirley Larom
    José Flores-Uribe
    Manish Singh
    Masae Konno
    Sahoko Tomida
    Shota Ito
    Ryoko Nakamura
    Satoshi P. Tsunoda
    Alon Philosof
    Itai Sharon
    Natalya Yutin
    Eugene V. Koonin
    Hideki Kandori
    Oded Béjà
    Nature, 2018, 558 : 595 - 599
  • [39] A Metagenomics Portal for a Democratized Sequencing World
    Wilke, Andreas
    Glass, Elizabeth M.
    Bartels, Daniela
    Bischorf, Jared
    Braithwaite, Daniel
    D'Souza, Mark
    Gerlach, Wolfgang
    Harrison, Travis
    Keegan, Kevin
    Matthews, Hunter
    Kottmann, Renzo
    Paczian, Tobias
    Tang, Wei
    Trimble, William L.
    Yilmaz, Pelin
    Wilkening, Jared
    Desai, Narayan
    Meyer, Folker
    MICROBIAL METAGENOMICS, METATRANSCRIPTOMICS, AND METAPROTEOMICS, 2013, 531 : 487 - 523
  • [40] Lope de Vegas's The 'New World Discovered by Christopher Columbus'
    de Armas, FA
    RENAISSANCE QUARTERLY, 2002, 55 (02) : 718 - 720