메뉴 건너뛰기




Volumn 8, Issue 2, 2012, Pages

Viral proteins acquired from a host converge to simplified domain architectures

Author keywords

[No Author keywords available]

Indexed keywords

PROTEINS;

EID: 84861141010     PISSN: 1553734X     EISSN: 15537358     Source Type: Journal    
DOI: 10.1371/journal.pcbi.1002364     Document Type: Article
Times cited : (27)

References (56)
  • 2
    • 0033008596 scopus 로고    scopus 로고
    • Distribution of protein folds in the three superkingdoms of life
    • Wolf YI, Brenner SE, Bash PA, Koonin EV, (1999) Distribution of protein folds in the three superkingdoms of life. Genome Res 9: 17-26.
    • (1999) Genome Res , vol.9 , pp. 17-26
    • Wolf, Y.I.1    Brenner, S.E.2    Bash, P.A.3    Koonin, E.V.4
  • 5
    • 13644269953 scopus 로고    scopus 로고
    • Reactivation of Epstein-Barr virus can be triggered by an Rta protein mutated at the nuclear localization signal
    • Hsu TY, Chang Y, Wang PW, Liu MY, Chen MR, et al. (2005) Reactivation of Epstein-Barr virus can be triggered by an Rta protein mutated at the nuclear localization signal. J Gen Virol 86: 317-322.
    • (2005) J Gen Virol , vol.86 , pp. 317-322
    • Hsu, T.Y.1    Chang, Y.2    Wang, P.W.3    Liu, M.Y.4    Chen, M.R.5
  • 6
    • 0026644395 scopus 로고
    • Proposed acquisition of an animal protein domain by bacteria
    • Bork P, Doolittle RF, (1992) Proposed acquisition of an animal protein domain by bacteria. Proc Natl Acad Sci U S A 89: 8990-8994.
    • (1992) Proc Natl Acad Sci U S A , vol.89 , pp. 8990-8994
    • Bork, P.1    Doolittle, R.F.2
  • 7
    • 0033057517 scopus 로고    scopus 로고
    • Eukaryotic signalling domain homologues in archaea and bacteria. Ancient ancestry and horizontal gene transfer
    • Ponting CP, Aravind L, Schultz J, Bork P, Koonin EV, (1999) Eukaryotic signalling domain homologues in archaea and bacteria. Ancient ancestry and horizontal gene transfer. J Mol Biol 289: 729-745.
    • (1999) J Mol Biol , vol.289 , pp. 729-745
    • Ponting, C.P.1    Aravind, L.2    Schultz, J.3    Bork, P.4    Koonin, E.V.5
  • 9
    • 0033798416 scopus 로고    scopus 로고
    • Remodeling the endoplasmic reticulum by poliovirus infection and by individual viral proteins: an autophagy-like origin for virus-induced vesicles
    • Suhy DA, Giddings TH Jr, Kirkegaard K, (2000) Remodeling the endoplasmic reticulum by poliovirus infection and by individual viral proteins: an autophagy-like origin for virus-induced vesicles. J Virol 74: 8953-8965.
    • (2000) J Virol , vol.74 , pp. 8953-8965
    • Suhy, D.A.1    Giddings Jr., T.H.2    Kirkegaard, K.3
  • 10
    • 0038730770 scopus 로고    scopus 로고
    • Do viruses form lineages across different domains of life?
    • Bamford DH, (2003) Do viruses form lineages across different domains of life? Res Microbiol 154: 231-236.
    • (2003) Res Microbiol , vol.154 , pp. 231-236
    • Bamford, D.H.1
  • 11
    • 63249112982 scopus 로고    scopus 로고
    • Ten reasons to exclude viruses from the tree of life
    • Moreira D, Lopez-Garcia P, (2009) Ten reasons to exclude viruses from the tree of life. Nat Rev Microbiol 7: 306-311.
    • (2009) Nat Rev Microbiol , vol.7 , pp. 306-311
    • Moreira, D.1    Lopez-Garcia, P.2
  • 12
    • 34047232678 scopus 로고    scopus 로고
    • Positive and negative design in stability and thermal adaptation of natural proteins
    • Berezovsky IN, Zeldovich KB, Shakhnovich EI, (2007) Positive and negative design in stability and thermal adaptation of natural proteins. PLoS Comput Biol 3: e52.
    • (2007) PLoS Comput Biol , vol.3
    • Berezovsky, I.N.1    Zeldovich, K.B.2    Shakhnovich, E.I.3
  • 13
    • 0027139172 scopus 로고
    • Lateral transfer in natural populations of eukaryotes
    • Kidwell MG, (1993) Lateral transfer in natural populations of eukaryotes. Annu Rev Genet 27: 235-256.
    • (1993) Annu Rev Genet , vol.27 , pp. 235-256
    • Kidwell, M.G.1
  • 14
    • 73849140080 scopus 로고    scopus 로고
    • Endogenous non-retroviral RNA virus elements in mammalian genomes
    • Horie M, Honda T, Suzuki Y, Kobayashi Y, Daito T, et al. (2010) Endogenous non-retroviral RNA virus elements in mammalian genomes. Nature 463: 84-87.
    • (2010) Nature , vol.463 , pp. 84-87
    • Horie, M.1    Honda, T.2    Suzuki, Y.3    Kobayashi, Y.4    Daito, T.5
  • 15
    • 0034780910 scopus 로고    scopus 로고
    • Horizontal gene transfer in prokaryotes: quantification and classification
    • Koonin EV, Makarova KS, Aravind L, (2001) Horizontal gene transfer in prokaryotes: quantification and classification. Annu Rev Microbiol 55: 709-742.
    • (2001) Annu Rev Microbiol , vol.55 , pp. 709-742
    • Koonin, E.V.1    Makarova, K.S.2    Aravind, L.3
  • 17
    • 73149095830 scopus 로고    scopus 로고
    • Viral adaptation to host: a proteome-based analysis of codon usage and amino acid preferences
    • Bahir I, Fromer M, Prat Y, Linial M, (2009) Viral adaptation to host: a proteome-based analysis of codon usage and amino acid preferences. Mol Syst Biol 5: 311.
    • (2009) Mol Syst Biol , vol.5 , pp. 311
    • Bahir, I.1    Fromer, M.2    Prat, Y.3    Linial, M.4
  • 18
    • 46449083518 scopus 로고    scopus 로고
    • Patterns of evolution and host gene mimicry in influenza and other RNA viruses
    • Greenbaum BD, Levine AJ, Bhanot G, Rabadan R, (2008) Patterns of evolution and host gene mimicry in influenza and other RNA viruses. PLoS Pathog 4: e1000079.
    • (2008) PLoS Pathog , vol.4
    • Greenbaum, B.D.1    Levine, A.J.2    Bhanot, G.3    Rabadan, R.4
  • 20
    • 70350208780 scopus 로고    scopus 로고
    • The evolutionary conundrum of pathogen mimicry
    • Elde NC, Malik HS, (2009) The evolutionary conundrum of pathogen mimicry. Nat Rev Microbiol 7: 787-797.
    • (2009) Nat Rev Microbiol , vol.7 , pp. 787-797
    • Elde, N.C.1    Malik, H.S.2
  • 21
    • 34948830656 scopus 로고    scopus 로고
    • Viral photosynthetic reaction center genes and transcripts in the marine environment
    • Sharon I, Tzahor S, Williamson S, Shmoish M, Man-Aharonovich D, et al. (2007) Viral photosynthetic reaction center genes and transcripts in the marine environment. ISME J 1: 492-501.
    • (2007) ISME J , vol.1 , pp. 492-501
    • Sharon, I.1    Tzahor, S.2    Williamson, S.3    Shmoish, M.4    Man-Aharonovich, D.5
  • 22
    • 68149139650 scopus 로고    scopus 로고
    • Horizontal gene transfer of an entire metabolic pathway between a eukaryotic alga and its DNA virus
    • Monier A, Pagarete A, de Vargas C, Allen MJ, Read B, et al. (2009) Horizontal gene transfer of an entire metabolic pathway between a eukaryotic alga and its DNA virus. Genome Res 19: 1441-1449.
    • (2009) Genome Res , vol.19 , pp. 1441-1449
    • Monier, A.1    Pagarete, A.2    de Vargas, C.3    Allen, M.J.4    Read, B.5
  • 23
    • 0032837333 scopus 로고    scopus 로고
    • Evolution and horizontal transfer of dUTPase-encoding genes in viruses and their hosts
    • Baldo AM, McClure MA, (1999) Evolution and horizontal transfer of dUTPase-encoding genes in viruses and their hosts. J Virol 73: 7710-7721.
    • (1999) J Virol , vol.73 , pp. 7710-7721
    • Baldo, A.M.1    McClure, M.A.2
  • 24
  • 25
    • 78650627880 scopus 로고    scopus 로고
    • Giant virus with a remarkable complement of genes infects marine zooplankton
    • Fischer MG, Allen MJ, Wilson WH, Suttle CA, (2010) Giant virus with a remarkable complement of genes infects marine zooplankton. Proc Natl Acad Sci U S A 107: 19508-19513.
    • (2010) Proc Natl Acad Sci U S A , vol.107 , pp. 19508-19513
    • Fischer, M.G.1    Allen, M.J.2    Wilson, W.H.3    Suttle, C.A.4
  • 27
    • 0036851310 scopus 로고    scopus 로고
    • Identification of new herpesvirus gene homologs in the human genome
    • Holzerlandt R, Orengo C, Kellam P, Alba MM, (2002) Identification of new herpesvirus gene homologs in the human genome. Genome Res 12: 1739-1748.
    • (2002) Genome Res , vol.12 , pp. 1739-1748
    • Holzerlandt, R.1    Orengo, C.2    Kellam, P.3    Alba, M.M.4
  • 28
    • 77957921403 scopus 로고    scopus 로고
    • Genomic fossils calibrate the long-term evolution of hepadnaviruses
    • Gilbert C, Feschotte C, (2010) Genomic fossils calibrate the long-term evolution of hepadnaviruses. PLoS Biol 8: e1000495.
    • (2010) PLoS Biol , vol.8
    • Gilbert, C.1    Feschotte, C.2
  • 30
    • 78649705750 scopus 로고    scopus 로고
    • Endless forms most viral
    • Johnson WE, (2010) Endless forms most viral. PLoS Genet 6: e1001210.
    • (2010) PLoS Genet , vol.6
    • Johnson, W.E.1
  • 34
    • 78049503885 scopus 로고    scopus 로고
    • Sequences from ancestral single-stranded DNA viruses in vertebrate genomes: the parvoviridae and circoviridae are more than 40 to 50 million years old
    • Belyi VA, Levine AJ, Skalka AM, (2010) Sequences from ancestral single-stranded DNA viruses in vertebrate genomes: the parvoviridae and circoviridae are more than 40 to 50 million years old. J Virol 84: 12458-12462.
    • (2010) J Virol , vol.84 , pp. 12458-12462
    • Belyi, V.A.1    Levine, A.J.2    Skalka, A.M.3
  • 35
    • 34347388470 scopus 로고    scopus 로고
    • UniRef: comprehensive and non-redundant UniProt reference clusters
    • Suzek BE, Huang H, McGarvey P, Mazumder R, Wu CH, (2007) UniRef: comprehensive and non-redundant UniProt reference clusters. Bioinformatics 23: 1282-1288.
    • (2007) Bioinformatics , vol.23 , pp. 1282-1288
    • Suzek, B.E.1    Huang, H.2    McGarvey, P.3    Mazumder, R.4    Wu, C.H.5
  • 36
    • 0033669672 scopus 로고    scopus 로고
    • Horizontal gene transfer among microbial genomes: new insights from complete genome analysis
    • Eisen JA, (2000) Horizontal gene transfer among microbial genomes: new insights from complete genome analysis. Curr Opin Genet Dev 10: 606-611.
    • (2000) Curr Opin Genet Dev , vol.10 , pp. 606-611
    • Eisen, J.A.1
  • 37
    • 77957660360 scopus 로고    scopus 로고
    • Unexpected inheritance: multiple integrations of ancient bornavirus and ebolavirus/marburgvirus sequences in vertebrate genomes
    • Belyi VA, Levine AJ, Skalka AM, (2010) Unexpected inheritance: multiple integrations of ancient bornavirus and ebolavirus/marburgvirus sequences in vertebrate genomes. PLoS Pathog 6: e1001030.
    • (2010) PLoS Pathog , vol.6
    • Belyi, V.A.1    Levine, A.J.2    Skalka, A.M.3
  • 38
    • 77953665114 scopus 로고    scopus 로고
    • Filoviruses are ancient and integrated into mammalian genomes
    • Taylor DJ, Leach RW, Bruenn J, (2010) Filoviruses are ancient and integrated into mammalian genomes. BMC Evol Biol 10: 193.
    • (2010) BMC Evol Biol , vol.10 , pp. 193
    • Taylor, D.J.1    Leach, R.W.2    Bruenn, J.3
  • 39
    • 78649718268 scopus 로고    scopus 로고
    • Endogenous viral elements in animal genomes
    • Katzourakis A, Gifford RJ, (2010) Endogenous viral elements in animal genomes. PLoS Genet 6: e1001191.
    • (2010) PLoS Genet , vol.6
    • Katzourakis, A.1    Gifford, R.J.2
  • 41
    • 0031691064 scopus 로고    scopus 로고
    • Ribosomal S27a coding sequences upstream of ubiquitin coding sequences in the genome of a pestivirus
    • Becher P, Orlich M, Thiel HJ, (1998) Ribosomal S27a coding sequences upstream of ubiquitin coding sequences in the genome of a pestivirus. J Virol 72: 8697-8704.
    • (1998) J Virol , vol.72 , pp. 8697-8704
    • Becher, P.1    Orlich, M.2    Thiel, H.J.3
  • 42
    • 44449096726 scopus 로고    scopus 로고
    • IL-10: the master regulator of immunity to infection
    • Couper KN, Blount DG, Riley EM, (2008) IL-10: the master regulator of immunity to infection. J Immunol 180: 5771-5777.
    • (2008) J Immunol , vol.180 , pp. 5771-5777
    • Couper, K.N.1    Blount, D.G.2    Riley, E.M.3
  • 43
    • 54449095148 scopus 로고    scopus 로고
    • A captured viral interleukin 10 gene with cellular exon structure
    • Jayawardane G, Russell GC, Thomson J, Deane D, Cox H, et al. (2008) A captured viral interleukin 10 gene with cellular exon structure. J Gen Virol 89: 2447-2455.
    • (2008) J Gen Virol , vol.89 , pp. 2447-2455
    • Jayawardane, G.1    Russell, G.C.2    Thomson, J.3    Deane, D.4    Cox, H.5
  • 44
    • 0032853634 scopus 로고    scopus 로고
    • Evolutionary aspects of recombination in RNA viruses
    • Worobey M, Holmes EC, (1999) Evolutionary aspects of recombination in RNA viruses. J Gen Virol 80 (Pt 10): 2535-2543.
    • (1999) J Gen Virol , vol.80 , Issue.Pt 10 , pp. 2535-2543
    • Worobey, M.1    Holmes, E.C.2
  • 45
    • 80054809678 scopus 로고    scopus 로고
    • Viruses with more than 1,000 genes: Mamavirus, a new Acanthamoeba polyphaga mimivirus strain, and reannotation of Mimivirus genes
    • Colson P, Yutin N, Shabalina SA, Robert C, Fournous G, et al. (2011) Viruses with more than 1,000 genes: Mamavirus, a new Acanthamoeba polyphaga mimivirus strain, and reannotation of Mimivirus genes. Genome Biol Evol 3: 737-742.
    • (2011) Genome Biol Evol , vol.3 , pp. 737-742
    • Colson, P.1    Yutin, N.2    Shabalina, S.A.3    Robert, C.4    Fournous, G.5
  • 46
    • 0034687123 scopus 로고    scopus 로고
    • Topology, stability, sequence, and length: defining the determinants of two-state protein folding kinetics
    • Plaxco KW, Simons KT, Ruczinski I, Baker D, (2000) Topology, stability, sequence, and length: defining the determinants of two-state protein folding kinetics. Biochemistry 39: 11177-11183.
    • (2000) Biochemistry , vol.39 , pp. 11177-11183
    • Plaxco, K.W.1    Simons, K.T.2    Ruczinski, I.3    Baker, D.4
  • 47
    • 7444249602 scopus 로고    scopus 로고
    • From ORFeomes to protein interaction maps in viruses
    • Uetz P, Rajagopala SV, Dong YA, Haas J, (2004) From ORFeomes to protein interaction maps in viruses. Genome Res 14: 2029-2033.
    • (2004) Genome Res , vol.14 , pp. 2029-2033
    • Uetz, P.1    Rajagopala, S.V.2    Dong, Y.A.3    Haas, J.4
  • 48
    • 77956216424 scopus 로고    scopus 로고
    • Structural basis of semaphorin-plexin recognition and viral mimicry from Sema7A and A39R complexes with PlexinC1
    • Liu H, Juo ZS, Shim AH, Focia PJ, Chen X, et al. (2010) Structural basis of semaphorin-plexin recognition and viral mimicry from Sema7A and A39R complexes with PlexinC1. Cell 142: 749-761.
    • (2010) Cell , vol.142 , pp. 749-761
    • Liu, H.1    Juo, Z.S.2    Shim, A.H.3    Focia, P.J.4    Chen, X.5
  • 49
    • 59249092261 scopus 로고    scopus 로고
    • Viral mimicry of Cdc2/cyclin-dependent kinase 1 mediates disruption of nuclear lamina during human cytomegalovirus nuclear egress
    • Hamirally S, Kamil JP, Ndassa-Colday YM, Lin AJ, Jahng WJ, et al. (2009) Viral mimicry of Cdc2/cyclin-dependent kinase 1 mediates disruption of nuclear lamina during human cytomegalovirus nuclear egress. PLoS Pathog 5: e1000275.
    • (2009) PLoS Pathog , vol.5
    • Hamirally, S.1    Kamil, J.P.2    Ndassa-Colday, Y.M.3    Lin, A.J.4    Jahng, W.J.5
  • 50
    • 0030760456 scopus 로고    scopus 로고
    • Reactivation of Epstein-Barr virus: regulation and function of the BZLF1 gene
    • Speck SH, Chatila T, Flemington E, (1997) Reactivation of Epstein-Barr virus: regulation and function of the BZLF1 gene. Trends Microbiol 5: 399-405.
    • (1997) Trends Microbiol , vol.5 , pp. 399-405
    • Speck, S.H.1    Chatila, T.2    Flemington, E.3
  • 51
    • 0031878939 scopus 로고    scopus 로고
    • Fowlpox virus encodes nonessential homologs of cellular alpha-SNAP, PC-1, and an orphan human homolog of a secreted nematode protein
    • Laidlaw SM, Anwar MA, Thomas W, Green P, Shaw K, et al. (1998) Fowlpox virus encodes nonessential homologs of cellular alpha-SNAP, PC-1, and an orphan human homolog of a secreted nematode protein. J Virol 72: 6742-6751.
    • (1998) J Virol , vol.72 , pp. 6742-6751
    • Laidlaw, S.M.1    Anwar, M.A.2    Thomas, W.3    Green, P.4    Shaw, K.5
  • 52
    • 77956525570 scopus 로고    scopus 로고
    • Coronaviruses Hijack the LC3-I-positive EDEMosomes, ER-derived vesicles exporting short-lived ERAD regulators, for replication
    • Reggiori F, Monastyrska I, Verheije MH, Cali T, Ulasli M, et al. (2010) Coronaviruses Hijack the LC3-I-positive EDEMosomes, ER-derived vesicles exporting short-lived ERAD regulators, for replication. Cell Host Microbe 7: 500-508.
    • (2010) Cell Host Microbe , vol.7 , pp. 500-508
    • Reggiori, F.1    Monastyrska, I.2    Verheije, M.H.3    Cali, T.4    Ulasli, M.5
  • 53
    • 0024678864 scopus 로고
    • Virus-induced autoimmunity: molecular mimicry as a route to autoimmune disease
    • Oldstone MB, (1989) Virus-induced autoimmunity: molecular mimicry as a route to autoimmune disease. J Autoimmun 2 (Suppl): 187-194.
    • (1989) J Autoimmun , vol.2 , Issue.SUPPL. , pp. 187-194
    • Oldstone, M.B.1
  • 54
    • 42549153337 scopus 로고    scopus 로고
    • Vaccinia virus uses macropinocytosis and apoptotic mimicry to enter host cells
    • Mercer J, Helenius A, (2008) Vaccinia virus uses macropinocytosis and apoptotic mimicry to enter host cells. Science 320: 531-535.
    • (2008) Science , vol.320 , pp. 531-535
    • Mercer, J.1    Helenius, A.2
  • 55
    • 0036107982 scopus 로고    scopus 로고
    • Evolution of DNA polymerase families: evidences for multiple gene exchange between cellular and viral proteins
    • Filee J, Forterre P, Sen-Lin T, Laurent J, (2002) Evolution of DNA polymerase families: evidences for multiple gene exchange between cellular and viral proteins. J Mol Evol 54: 763-773.
    • (2002) J Mol Evol , vol.54 , pp. 763-773
    • Filee, J.1    Forterre, P.2    Sen-Lin, T.3    Laurent, J.4
  • 56
    • 33845873289 scopus 로고    scopus 로고
    • Interactive Tree Of Life (iTOL): an online tool for phylogenetic tree display and annotation
    • Letunic I, Bork P, (2007) Interactive Tree Of Life (iTOL): an online tool for phylogenetic tree display and annotation. Bioinformatics 23: 127-128.
    • (2007) Bioinformatics , vol.23 , pp. 127-128
    • Letunic, I.1    Bork, P.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.