메뉴 건너뛰기




Volumn 29, Issue 5, 2014, Pages 252-259

The others: Our biased perspective of eukaryotic genomes

Author keywords

Culture collections; Culturing bias; Ecology; Eukaryotic genomics; Eukaryotic tree of life; Phylogeny; Single cell genomics

Indexed keywords

EUKARYOTE; GENOME; GENOMICS; PHYLOGENY;

EID: 84899491694     PISSN: 01695347     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.tree.2014.03.006     Document Type: Review
Times cited : (140)

References (43)
  • 2
    • 72949101201 scopus 로고    scopus 로고
    • A phylogeny-driven genomic encyclopaedia of Bacteria and Archaea
    • Wu D., et al. A phylogeny-driven genomic encyclopaedia of Bacteria and Archaea. Nature 2009, 462:1056-1060.
    • (2009) Nature , vol.462 , pp. 1056-1060
    • Wu, D.1
  • 3
    • 70449348267 scopus 로고    scopus 로고
    • No genome left behind
    • Pennisi E. No genome left behind. Science 2009, 326:794-795.
    • (2009) Science , vol.326 , pp. 794-795
    • Pennisi, E.1
  • 4
    • 0031797146 scopus 로고    scopus 로고
    • A plant genome initiative
    • Bennetzen J., Kellogg E. A plant genome initiative. Plant Cell 1998, 10:488-494.
    • (1998) Plant Cell , vol.10 , pp. 488-494
    • Bennetzen, J.1    Kellogg, E.2
  • 5
    • 28844492079 scopus 로고    scopus 로고
    • Genomics of the fungal kingdom: insights into eukaryotic biology
    • Galagan J.E., et al. Genomics of the fungal kingdom: insights into eukaryotic biology. Genome Res. 2005, 15:1620-1631.
    • (2005) Genome Res. , vol.15 , pp. 1620-1631
    • Galagan, J.E.1
  • 6
    • 0035341126 scopus 로고    scopus 로고
    • Parasite genome initiatives
    • Degrave W.M., et al. Parasite genome initiatives. Int. J. Parasitol. 2001, 31:532-536.
    • (2001) Int. J. Parasitol. , vol.31 , pp. 532-536
    • Degrave, W.M.1
  • 7
    • 40849104855 scopus 로고    scopus 로고
    • A phylogenomic investigation into the origin of metazoa
    • Ruiz-Trillo I., et al. A phylogenomic investigation into the origin of metazoa. Mol. Biol. Evol. 2008, 25:664-672.
    • (2008) Mol. Biol. Evol. , vol.25 , pp. 664-672
    • Ruiz-Trillo, I.1
  • 8
    • 84870260174 scopus 로고    scopus 로고
    • CBOL Protist Working Group, barcoding eukaryotic richness beyond the Animal, Plant, and Fungal Kingdoms
    • Pawlowski J., et al. CBOL Protist Working Group, barcoding eukaryotic richness beyond the Animal, Plant, and Fungal Kingdoms. PLoS Biol. 2012, 10:e1001419.
    • (2012) PLoS Biol. , vol.10
    • Pawlowski, J.1
  • 9
    • 84859165788 scopus 로고    scopus 로고
    • The Genomes OnLine Database (GOLD) v.4, status of genomic and metagenomic projects and their associated metadata
    • Pagani I., et al. The Genomes OnLine Database (GOLD) v.4, status of genomic and metagenomic projects and their associated metadata. Nucleic Acids Res. 2012, 40:D571-D579.
    • (2012) Nucleic Acids Res. , vol.40
    • Pagani, I.1
  • 10
    • 27344435819 scopus 로고    scopus 로고
    • Pringsheim's living legacy: CCALA, CCAP, SAG and UTEX culture collections of algae
    • Day J.G., et al. Pringsheim's living legacy: CCALA, CCAP, SAG and UTEX culture collections of algae. Nova Hedwigia 2004, 79:27-37.
    • (2004) Nova Hedwigia , vol.79 , pp. 27-37
    • Day, J.G.1
  • 11
    • 56249098614 scopus 로고    scopus 로고
    • The Phaeodactylum genome reveals the evolutionary history of diatom genomes
    • Bowler C., et al. The Phaeodactylum genome reveals the evolutionary history of diatom genomes. Nature 2008, 456:239-244.
    • (2008) Nature , vol.456 , pp. 239-244
    • Bowler, C.1
  • 12
    • 77953001382 scopus 로고    scopus 로고
    • The Ectocarpus genome and the independent evolution of multicellularity in brown algae
    • Cock J.M., et al. The Ectocarpus genome and the independent evolution of multicellularity in brown algae. Nature 2010, 465:617-621.
    • (2010) Nature , vol.465 , pp. 617-621
    • Cock, J.M.1
  • 13
    • 84883788160 scopus 로고    scopus 로고
    • From pathogen genomes to host plant processes: the power of plant parasitic oomycetes
    • Pais M., et al. From pathogen genomes to host plant processes: the power of plant parasitic oomycetes. Genome Biol. 2013, 14:211.
    • (2013) Genome Biol. , vol.14 , pp. 211
    • Pais, M.1
  • 14
    • 84884526092 scopus 로고    scopus 로고
    • The algal past and parasite present of the apicoplast
    • Van Dooren G.G., Striepen B. The algal past and parasite present of the apicoplast. Annu. Rev. Microbiol. 2013, 67:271-289.
    • (2013) Annu. Rev. Microbiol. , vol.67 , pp. 271-289
    • Van Dooren, G.G.1    Striepen, B.2
  • 15
    • 84894295410 scopus 로고    scopus 로고
    • An alternative root for the eukaryote tree of life
    • He D., et al. An alternative root for the eukaryote tree of life. Curr. Biol. 2014, 24:465-470.
    • (2014) Curr. Biol. , vol.24 , pp. 465-470
    • He, D.1
  • 16
    • 84884411804 scopus 로고    scopus 로고
    • Culturing bias in marine heterotrophic flagellates analyzed through seawater enrichment incubations
    • del Campo J., et al. Culturing bias in marine heterotrophic flagellates analyzed through seawater enrichment incubations. Microb. Ecol. 2013, 66:489-499.
    • (2013) Microb. Ecol. , vol.66 , pp. 489-499
    • del Campo, J.1
  • 18
    • 84872980144 scopus 로고    scopus 로고
    • Taming the smallest predators of the oceans
    • del Campo J., et al. Taming the smallest predators of the oceans. ISME J. 2013, 7:351-358.
    • (2013) ISME J. , vol.7 , pp. 351-358
    • del Campo, J.1
  • 19
    • 79955787125 scopus 로고    scopus 로고
    • Single-cell genomics reveals organismal interactions in uncultivated marine protists
    • Yoon H.S., et al. Single-cell genomics reveals organismal interactions in uncultivated marine protists. Science 2011, 332:714-717.
    • (2011) Science , vol.332 , pp. 714-717
    • Yoon, H.S.1
  • 20
    • 84899407728 scopus 로고    scopus 로고
    • Exploring the uncultured microeukaryote majority in the oceans: reevaluation of ribogroups within stramenopiles
    • Massana R., et al. Exploring the uncultured microeukaryote majority in the oceans: reevaluation of ribogroups within stramenopiles. ISME J. 2013, 8:854-866.
    • (2013) ISME J. , vol.8 , pp. 854-866
    • Massana, R.1
  • 21
    • 79958011072 scopus 로고    scopus 로고
    • Emerging diversity within Chrysophytes, Choanoflagellates and Bicosoecids based on molecular surveys
    • del Campo J., Massana R. Emerging diversity within Chrysophytes, Choanoflagellates and Bicosoecids based on molecular surveys. Protist 2011, 162:435-448.
    • (2011) Protist , vol.162 , pp. 435-448
    • del Campo, J.1    Massana, R.2
  • 22
    • 55849101172 scopus 로고    scopus 로고
    • Widespread occurrence and genetic diversity of marine parasitoids belonging to Syndiniales (Alveolata)
    • Guillou L., et al. Widespread occurrence and genetic diversity of marine parasitoids belonging to Syndiniales (Alveolata). Environ. Microbiol. 2008, 10:3349-3365.
    • (2008) Environ. Microbiol. , vol.10 , pp. 3349-3365
    • Guillou, L.1
  • 23
    • 84868098266 scopus 로고    scopus 로고
    • Single cell genomics: an individual look at microbes
    • Stepanauskas R. Single cell genomics: an individual look at microbes. Curr. Opin. Microbiol. 2012, 15:613-620.
    • (2012) Curr. Opin. Microbiol. , vol.15 , pp. 613-620
    • Stepanauskas, R.1
  • 24
    • 36749042030 scopus 로고    scopus 로고
    • The Culture Collection of Algae and Protozoa (CCAP): a biological resource for protistan genomics
    • Gachon C.M.M., et al. The Culture Collection of Algae and Protozoa (CCAP): a biological resource for protistan genomics. Gene 2007, 406:51-57.
    • (2007) Gene , vol.406 , pp. 51-57
    • Gachon, C.M.M.1
  • 25
    • 11844269109 scopus 로고    scopus 로고
    • The Roscoff Culture Collection (RCC): a collection dedicated to marine picoplankton
    • Vaulot D., et al. The Roscoff Culture Collection (RCC): a collection dedicated to marine picoplankton. Nova Hedwigia 2004, 79:49-70.
    • (2004) Nova Hedwigia , vol.79 , pp. 49-70
    • Vaulot, D.1
  • 26
    • 0002035138 scopus 로고    scopus 로고
    • Provasoli-Guillard National Center for culture of marine phytoplankton 1997 list of strains
    • Andersen R., et al. Provasoli-Guillard National Center for culture of marine phytoplankton 1997 list of strains. J. Phycol. 1997, 33(s6):1-75.
    • (1997) J. Phycol. , vol.33 , Issue.6 S , pp. 1-75
    • Andersen, R.1
  • 27
    • 84874706081 scopus 로고    scopus 로고
    • The Culture Collection of Algae at Göttingen University (SAG): a biological resource for biotechnological and biodiversity research
    • Friedl T., Lorenz M. The Culture Collection of Algae at Göttingen University (SAG): a biological resource for biotechnological and biodiversity research. Procedia Environ. Sci. 2012, 15:110-117.
    • (2012) Procedia Environ. Sci. , vol.15 , pp. 110-117
    • Friedl, T.1    Lorenz, M.2
  • 28
    • 84867310470 scopus 로고    scopus 로고
    • The revised classification of eukaryotes
    • Adl S.M., et al. The revised classification of eukaryotes. J. Eukaryot. Microbiol. 2012, 59:429-514.
    • (2012) J. Eukaryot. Microbiol. , vol.59 , pp. 429-514
    • Adl, S.M.1
  • 29
    • 0036124759 scopus 로고    scopus 로고
    • Re-examining alveolate evolution using multiple protein molecular phylogenies
    • Fast N.M., et al. Re-examining alveolate evolution using multiple protein molecular phylogenies. J. Eukaryot. Microbiol. 2002, 49:30-37.
    • (2002) J. Eukaryot. Microbiol. , vol.49 , pp. 30-37
    • Fast, N.M.1
  • 30
    • 22744435955 scopus 로고    scopus 로고
    • Molecular phylogeny and classification of the lobose amoebae
    • Smirnov A., et al. Molecular phylogeny and classification of the lobose amoebae. Protist 2005, 156:129-142.
    • (2005) Protist , vol.156 , pp. 129-142
    • Smirnov, A.1
  • 31
    • 84863230177 scopus 로고    scopus 로고
    • Phylogeny and molecular evolution of the green algae
    • Leliaert F., et al. Phylogeny and molecular evolution of the green algae. CRC Crit. Rev. Plant Sci. 2012, 31:1-46.
    • (2012) CRC Crit. Rev. Plant Sci. , vol.31 , pp. 1-46
    • Leliaert, F.1
  • 32
    • 0033619980 scopus 로고    scopus 로고
    • The ultrastructure of Carpediemonas membranifera (Eukaryota) with reference to the 'Excavate hypothesis'
    • Simpson A.G.B., Patterson D.J. The ultrastructure of Carpediemonas membranifera (Eukaryota) with reference to the 'Excavate hypothesis'. Eur. J. Protistol. 1999, 35:353-370.
    • (1999) Eur. J. Protistol. , vol.35 , pp. 353-370
    • Simpson, A.G.B.1    Patterson, D.J.2
  • 33
    • 62649113993 scopus 로고    scopus 로고
    • Phylogenomic analyses support the monophyly of Excavata and resolve relationships among eukaryotic 'supergroups'
    • Hampl V., et al. Phylogenomic analyses support the monophyly of Excavata and resolve relationships among eukaryotic 'supergroups'. Proc. Natl. Acad. Sci. U.S.A. 2009, 106:3859-3864.
    • (2009) Proc. Natl. Acad. Sci. U.S.A. , vol.106 , pp. 3859-3864
    • Hampl, V.1
  • 34
    • 84855881484 scopus 로고    scopus 로고
    • Phylogenetic relationships within the Opisthokonta based on phylogenomic analyses of conserved single copy protein domains
    • Torruella G., et al. Phylogenetic relationships within the Opisthokonta based on phylogenomic analyses of conserved single copy protein domains. Mol. Biol. Evol. 2011, 29:531-544.
    • (2011) Mol. Biol. Evol. , vol.29 , pp. 531-544
    • Torruella, G.1
  • 36
    • 40749116835 scopus 로고    scopus 로고
    • Phylogenomics reshuffles the eukaryotic supergroups
    • Burki F., et al. Phylogenomics reshuffles the eukaryotic supergroups. PLoS ONE 2007, 2:790.
    • (2007) PLoS ONE , vol.2 , pp. 790
    • Burki, F.1
  • 37
    • 64449083902 scopus 로고    scopus 로고
    • Seven gene phylogeny of heterokonts
    • Riisberg I., et al. Seven gene phylogeny of heterokonts. Protist 2009, 160:191-204.
    • (2009) Protist , vol.160 , pp. 191-204
    • Riisberg, I.1
  • 38
    • 0023774321 scopus 로고
    • Ribosomal RNA sequence shows Pneumocystis carinii to be a member of the fungi
    • Edman J.C., et al. Ribosomal RNA sequence shows Pneumocystis carinii to be a member of the fungi. Nature 1988, 334:519-522.
    • (1988) Nature , vol.334 , pp. 519-522
    • Edman, J.C.1
  • 39
    • 77955687133 scopus 로고    scopus 로고
    • Oomycete-plant coevolution: recent advances and future prospects
    • Thines M., Kamoun S. Oomycete-plant coevolution: recent advances and future prospects. Curr. Opin. Plant. Biol. 2010, 13:427-433.
    • (2010) Curr. Opin. Plant. Biol. , vol.13 , pp. 427-433
    • Thines, M.1    Kamoun, S.2
  • 40
    • 70349281388 scopus 로고    scopus 로고
    • Genome sequence and analysis of the Irish potato famine pathogen Phytophthora infestans
    • Haas B.J., et al. Genome sequence and analysis of the Irish potato famine pathogen Phytophthora infestans. Nature 2009, 461:393-398.
    • (2009) Nature , vol.461 , pp. 393-398
    • Haas, B.J.1
  • 41
    • 77953399900 scopus 로고    scopus 로고
    • Ancient origin of the integrin-mediated adhesion and signaling machinery
    • Sebé-Pedrós A., et al. Ancient origin of the integrin-mediated adhesion and signaling machinery. Proc. Natl. Acad. Sci. U.S.A. 2010, 107:10142-10147.
    • (2010) Proc. Natl. Acad. Sci. U.S.A. , vol.107 , pp. 10142-10147
    • Sebé-Pedrós, A.1
  • 42
    • 84899486794 scopus 로고    scopus 로고
    • Evolution and classification of myosins, a paneukaryotic whole genome approach
    • 290-235
    • Sebé-Pedrós A., et al. Evolution and classification of myosins, a paneukaryotic whole genome approach. Genome Biol. Evol. 2014, 6. 290-235.
    • (2014) Genome Biol. Evol. , vol.6
    • Sebé-Pedrós, A.1
  • 43
    • 84899476741 scopus 로고    scopus 로고
    • New insights into the diversity of marine picoeukaryotes
    • Not F., et al. New insights into the diversity of marine picoeukaryotes. PLoS ONE 2009, 4:7.
    • (2009) PLoS ONE , vol.4 , pp. 7
    • Not, F.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.