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Volumn 547, Issue 1, 2014, Pages 10-17

Intertypic modular exchanges of genomic segments by homologous recombination at universally conserved segments in human adenovirus species D

Author keywords

Adenovirus; Homologous recombination; Modular exchange; Recombination hotspot; Synonymous substitution rate

Indexed keywords

ARTICLE; CROSSING OVER; GENETIC VARIABILITY; HOMOLOGOUS RECOMBINATION; HUMAN ADENOVIRUS; HUMAN ADENOVIRUS D; IMMUNE RESPONSE; MAJOR HISTOCOMPATIBILITY COMPLEX; NONHUMAN; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; UNIVERSALLY CONSERVED SEGMENT; VIRUS GENOME; ADENOVIRIDAE; GENETICS; PHYLOGENY; SEQUENCE ALIGNMENT; AMINO ACID SEQUENCE; CHIMERA; DNA FLANKING REGION; GENE SEQUENCE; GENETIC CONSERVATION; GENOMICS; HUMAN ADENOVIRUS SPECIES D; MOLECULAR PHYLOGENY; OPEN READING FRAME; PHYLOGENETIC TREE; VIRUS RECOMBINATION;

EID: 84903819554     PISSN: 03781119     EISSN: 18790038     Source Type: Journal    
DOI: 10.1016/j.gene.2014.04.018     Document Type: Article
Times cited : (20)

References (62)
  • 3
    • 0025175785 scopus 로고
    • A defect in mismatch repair in Saccharomyces cerevisiae stimulates ectopic recombination between homeologous genes by an excision repair dependent process
    • Bailis A.M., Rothstein R. A defect in mismatch repair in Saccharomyces cerevisiae stimulates ectopic recombination between homeologous genes by an excision repair dependent process. Genetics 1990, 126(3):535-547.
    • (1990) Genetics , vol.126 , Issue.3 , pp. 535-547
    • Bailis, A.M.1    Rothstein, R.2
  • 4
    • 34250757252 scopus 로고    scopus 로고
    • An exact nonparametric method for inferring mosaic structure in sequence triplets
    • Boni M.F., Posada D., Feldman M.W. An exact nonparametric method for inferring mosaic structure in sequence triplets. Genetics 2007, 176(2):1035-1047.
    • (2007) Genetics , vol.176 , Issue.2 , pp. 1035-1047
    • Boni, M.F.1    Posada, D.2    Feldman, M.W.3
  • 5
    • 84881651887 scopus 로고    scopus 로고
    • Adenovirus-associated epidemic keratoconjunctivitis outbreaks - four States, 2008-2010
    • Centers for Disease Control and Prevention
    • Centers for Disease Control and Prevention Adenovirus-associated epidemic keratoconjunctivitis outbreaks - four States, 2008-2010. MMWR. Morbidity and Mortality Weekly Report 2013, 62(32):637-641.
    • (2013) MMWR. Morbidity and Mortality Weekly Report , vol.62 , Issue.32 , pp. 637-641
  • 6
    • 14644391463 scopus 로고    scopus 로고
    • Online synonymous codon usage analyses with the ade4 and seqinR packages
    • Charif D., Thioulouse J., Lobry J.R., Perriere G. Online synonymous codon usage analyses with the ade4 and seqinR packages. Bioinformatics 2005, 21(4):545-547.
    • (2005) Bioinformatics , vol.21 , Issue.4 , pp. 545-547
    • Charif, D.1    Thioulouse, J.2    Lobry, J.R.3    Perriere, G.4
  • 7
    • 0031804429 scopus 로고    scopus 로고
    • Control of apoptosis by human adenovirus genes
    • Chinnadurai G. Control of apoptosis by human adenovirus genes. Seminars in Virology 1998, 8(5):399-408.
    • (1998) Seminars in Virology , vol.8 , Issue.5 , pp. 399-408
    • Chinnadurai, G.1
  • 8
    • 0035943385 scopus 로고    scopus 로고
    • Nucleotide sequence of coliphage HK620 and the evolution of lambdoid phages
    • Clark A.J., Inwood W., Cloutier T., Dhillon T.S. Nucleotide sequence of coliphage HK620 and the evolution of lambdoid phages. Journal of Molecular Biology 2001, 311(4):657-679.
    • (2001) Journal of Molecular Biology , vol.311 , Issue.4 , pp. 657-679
    • Clark, A.J.1    Inwood, W.2    Cloutier, T.3    Dhillon, T.S.4
  • 9
    • 0036783307 scopus 로고    scopus 로고
    • High-resolution patterns of meiotic recombination across the human major histocompatibility complex
    • Cullen M., Perfetto S.P., Klitz W., Nelson G., Carrington M. High-resolution patterns of meiotic recombination across the human major histocompatibility complex. American Journal of Human Genetics 2002, 71(4):759-776.
    • (2002) American Journal of Human Genetics , vol.71 , Issue.4 , pp. 759-776
    • Cullen, M.1    Perfetto, S.P.2    Klitz, W.3    Nelson, G.4    Carrington, M.5
  • 10
    • 0242351787 scopus 로고    scopus 로고
    • Genetic content and evolution of adenoviruses
    • Davison A.J., Benko M., Harrach B. Genetic content and evolution of adenoviruses. Journal of General Virology 2003, 84(Pt 11):2895-2908.
    • (2003) Journal of General Virology , vol.84 , Issue.PART 11 , pp. 2895-2908
    • Davison, A.J.1    Benko, M.2    Harrach, B.3
  • 12
    • 26444538909 scopus 로고    scopus 로고
    • Comparative sequence analysis of the hexon gene in the entire spectrum of human adenovirus serotypes: phylogenetic, taxonomic, and clinical implications
    • Ebner K., Pinsker W., Lion T. Comparative sequence analysis of the hexon gene in the entire spectrum of human adenovirus serotypes: phylogenetic, taxonomic, and clinical implications. Journal of Virology 2005, 79(20):12635-12642.
    • (2005) Journal of Virology , vol.79 , Issue.20 , pp. 12635-12642
    • Ebner, K.1    Pinsker, W.2    Lion, T.3
  • 13
    • 54249125346 scopus 로고    scopus 로고
    • Adenoviruses in immunocompromised hosts
    • Echavarria M. Adenoviruses in immunocompromised hosts. Clinical Microbiology Reviews 2008, 21(4):704-715.
    • (2008) Clinical Microbiology Reviews , vol.21 , Issue.4 , pp. 704-715
    • Echavarria, M.1
  • 14
    • 0031054141 scopus 로고    scopus 로고
    • Recombinant fibre proteins of human adenoviruses Ad9, Ad15 and Ad19: localization of the haemagglutination properties and the type-specific determinant
    • Eiz B., Adrian T., Pring-Akerblom P. Recombinant fibre proteins of human adenoviruses Ad9, Ad15 and Ad19: localization of the haemagglutination properties and the type-specific determinant. Research in Virology 1997, 148(1):5-10.
    • (1997) Research in Virology , vol.148 , Issue.1 , pp. 5-10
    • Eiz, B.1    Adrian, T.2    Pring-Akerblom, P.3
  • 15
    • 35048898799 scopus 로고    scopus 로고
    • Genetic exchange across a species boundary in the archaeal genus ferroplasma
    • Eppley J.M., Tyson G.W., Getz W.M., Banfield J.F. Genetic exchange across a species boundary in the archaeal genus ferroplasma. Genetics 2007, 177(1):407-416.
    • (2007) Genetics , vol.177 , Issue.1 , pp. 407-416
    • Eppley, J.M.1    Tyson, G.W.2    Getz, W.M.3    Banfield, J.F.4
  • 17
    • 2642702620 scopus 로고    scopus 로고
    • Immune response to recombinant capsid proteins of adenovirus in humans: antifiber and anti-penton base antibodies have a synergistic effect on neutralizing activity
    • Gahery-Segard H., Farace F., Godfrin D., Gaston J., Lengagne R., Tursz T., Boulanger P., Guillet J.G. Immune response to recombinant capsid proteins of adenovirus in humans: antifiber and anti-penton base antibodies have a synergistic effect on neutralizing activity. Journal of Virology 1998, 72(3):2388-2397.
    • (1998) Journal of Virology , vol.72 , Issue.3 , pp. 2388-2397
    • Gahery-Segard, H.1    Farace, F.2    Godfrin, D.3    Gaston, J.4    Lengagne, R.5    Tursz, T.6    Boulanger, P.7    Guillet, J.G.8
  • 18
    • 0033753825 scopus 로고    scopus 로고
    • Sister-scanning: a Monte Carlo procedure for assessing signals in recombinant sequences
    • Gibbs M.J., Armstrong J.S., Gibbs A.J. Sister-scanning: a Monte Carlo procedure for assessing signals in recombinant sequences. Bioinformatics 2000, 16(7):573-582.
    • (2000) Bioinformatics , vol.16 , Issue.7 , pp. 573-582
    • Gibbs, M.J.1    Armstrong, J.S.2    Gibbs, A.J.3
  • 19
    • 33751253784 scopus 로고    scopus 로고
    • Recombination patterns in aphthoviruses mirror those found in other picornaviruses
    • Heath L., van der Walt E., Varsani A., Martin D.P. Recombination patterns in aphthoviruses mirror those found in other picornaviruses. Journal of Virology 2006, 80(23):11827-11832.
    • (2006) Journal of Virology , vol.80 , Issue.23 , pp. 11827-11832
    • Heath, L.1    van der Walt, E.2    Varsani, A.3    Martin, D.P.4
  • 20
    • 0141856338 scopus 로고    scopus 로고
    • Identification of adenovirus (ad) penton base neutralizing epitopes by use of sera from patients who had received conditionally replicative ad (addl1520) for treatment of liver tumors
    • Hong S.S., Habib N.A., Franqueville L., Jensen S., Boulanger P.A. Identification of adenovirus (ad) penton base neutralizing epitopes by use of sera from patients who had received conditionally replicative ad (addl1520) for treatment of liver tumors. Journal of Virology 2003, 77(19):10366-10375.
    • (2003) Journal of Virology , vol.77 , Issue.19 , pp. 10366-10375
    • Hong, S.S.1    Habib, N.A.2    Franqueville, L.3    Jensen, S.4    Boulanger, P.A.5
  • 21
    • 4644289537 scopus 로고    scopus 로고
    • Function of adenovirus E3 proteins and their interactions with immunoregulatory cell proteins
    • Horwitz M.S. Function of adenovirus E3 proteins and their interactions with immunoregulatory cell proteins. Journal of Gene Medicine 2004, 6(Suppl. 1):S172-S183.
    • (2004) Journal of Gene Medicine , vol.6 , Issue.SUPPL. 1
    • Horwitz, M.S.1
  • 23
    • 0034795550 scopus 로고    scopus 로고
    • Intensely punctate meiotic recombination in the class II region of the major histocompatibility complex
    • Jeffreys A.J., Kauppi L., Neumann R. Intensely punctate meiotic recombination in the class II region of the major histocompatibility complex. Nature Genetics 2001, 29(2):217-222.
    • (2001) Nature Genetics , vol.29 , Issue.2 , pp. 217-222
    • Jeffreys, A.J.1    Kauppi, L.2    Neumann, R.3
  • 24
    • 83055173967 scopus 로고    scopus 로고
    • Genome variability of human adenovirus type 8 causing epidemic keratoconjunctivitis during 1986-2003 in Japan
    • Jin X.H., Aoki K., Kitaichi N., Ariga T., Ishida S., Ohno S. Genome variability of human adenovirus type 8 causing epidemic keratoconjunctivitis during 1986-2003 in Japan. Molecular Vision 2011, 17:3121-3127.
    • (2011) Molecular Vision , vol.17 , pp. 3121-3127
    • Jin, X.H.1    Aoki, K.2    Kitaichi, N.3    Ariga, T.4    Ishida, S.5    Ohno, S.6
  • 29
    • 0037100671 scopus 로고    scopus 로고
    • MAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform
    • Katoh K., Misawa K., Kuma K., Miyata T. MAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform. Nucleic Acids Research 2002, 30(14):3059-3066.
    • (2002) Nucleic Acids Research , vol.30 , Issue.14 , pp. 3059-3066
    • Katoh, K.1    Misawa, K.2    Kuma, K.3    Miyata, T.4
  • 30
    • 84888305471 scopus 로고    scopus 로고
    • Population-specific recombination sites within the human MHC region
    • Lam T.H., Shen M., Chia J.M., Chan S.H., Ren E.C. Population-specific recombination sites within the human MHC region. Heredity (Edinb) 2013, 111(2):131-138.
    • (2013) Heredity (Edinb) , vol.111 , Issue.2 , pp. 131-138
    • Lam, T.H.1    Shen, M.2    Chia, J.M.3    Chan, S.H.4    Ren, E.C.5
  • 31
    • 37349086780 scopus 로고    scopus 로고
    • Avoidance of protein fold disruption in natural virus recombinants
    • Lefeuvre P., Lett J.M., Reynaud B., Martin D.P. Avoidance of protein fold disruption in natural virus recombinants. PLoS Pathogens 2007, 3(11):e181.
    • (2007) PLoS Pathogens , vol.3 , Issue.11
    • Lefeuvre, P.1    Lett, J.M.2    Reynaud, B.3    Martin, D.P.4
  • 32
    • 62749122244 scopus 로고    scopus 로고
    • Widely conserved recombination patterns among single-stranded DNA viruses
    • Lefeuvre P., Lett J.M., Varsani A., Martin D.P. Widely conserved recombination patterns among single-stranded DNA viruses. Journal of Virology 2009, 83(6):2697-2707.
    • (2009) Journal of Virology , vol.83 , Issue.6 , pp. 2697-2707
    • Lefeuvre, P.1    Lett, J.M.2    Varsani, A.3    Martin, D.P.4
  • 33
    • 0034466858 scopus 로고    scopus 로고
    • Identification of conserved residues contributing to the activities of adenovirus DNA polymerase
    • Liu H., Naismith J.H., Hay R.T. Identification of conserved residues contributing to the activities of adenovirus DNA polymerase. Journal of Virology 2000, 74(24):11681-11689.
    • (2000) Journal of Virology , vol.74 , Issue.24 , pp. 11681-11689
    • Liu, H.1    Naismith, J.H.2    Hay, R.T.3
  • 34
    • 77956098333 scopus 로고    scopus 로고
    • Atomic structure of human adenovirus by cryo-EM reveals interactions among protein networks
    • Liu H., Jin L., Koh S.B., Atanasov I., Schein S., Wu L., Zhou Z.H. Atomic structure of human adenovirus by cryo-EM reveals interactions among protein networks. Science 2010, 329(5995):1038-1043.
    • (2010) Science , vol.329 , Issue.5995 , pp. 1038-1043
    • Liu, H.1    Jin, L.2    Koh, S.B.3    Atanasov, I.4    Schein, S.5    Wu, L.6    Zhou, Z.H.7
  • 36
    • 0033824415 scopus 로고    scopus 로고
    • RDP: detection of recombination amongst aligned sequences
    • Martin D., Rybicki E. RDP: detection of recombination amongst aligned sequences. Bioinformatics 2000, 16(6):562-563.
    • (2000) Bioinformatics , vol.16 , Issue.6 , pp. 562-563
    • Martin, D.1    Rybicki, E.2
  • 37
    • 13144283628 scopus 로고    scopus 로고
    • A modified bootscan algorithm for automated identification of recombinant sequences and recombination breakpoints
    • Martin D.P., Posada D., Crandall K.A., Williamson C. A modified bootscan algorithm for automated identification of recombinant sequences and recombination breakpoints. AIDS Research and Human Retroviruses 2005, 21(1):98-102.
    • (2005) AIDS Research and Human Retroviruses , vol.21 , Issue.1 , pp. 98-102
    • Martin, D.P.1    Posada, D.2    Crandall, K.A.3    Williamson, C.4
  • 38
    • 81255143082 scopus 로고    scopus 로고
    • Genomic characterization of a novel human adenovirus type 31 recombinant in the hexon gene
    • Matsushima Y., Shimizu H., Phan T.G., Ushijima H. Genomic characterization of a novel human adenovirus type 31 recombinant in the hexon gene. Journal of General Virology 2011, 92(Pt 12):2770-2775.
    • (2011) Journal of General Virology , vol.92 , Issue.PART 12 , pp. 2770-2775
    • Matsushima, Y.1    Shimizu, H.2    Phan, T.G.3    Ushijima, H.4
  • 40
    • 42449144285 scopus 로고    scopus 로고
    • Adenovirus E3/19K promotes evasion of NK cell recognition by intracellular sequestration of the NKG2D ligands major histocompatibility complex class I chain-related proteins A and B
    • McSharry B.P., Burgert H.G., Owen D.P., Stanton R.J., Prod'homme V., Sester M., Koebernick K., Groh V., Spies T., Cox S., et al. Adenovirus E3/19K promotes evasion of NK cell recognition by intracellular sequestration of the NKG2D ligands major histocompatibility complex class I chain-related proteins A and B. Journal of Virology 2008, 82(9):4585-4594.
    • (2008) Journal of Virology , vol.82 , Issue.9 , pp. 4585-4594
    • McSharry, B.P.1    Burgert, H.G.2    Owen, D.P.3    Stanton, R.J.4    Prod'homme, V.5    Sester, M.6    Koebernick, K.7    Groh, V.8    Spies, T.9    Cox, S.10
  • 42
    • 11244260476 scopus 로고    scopus 로고
    • The effect of sequence divergence on recombination between direct repeats in Arabidopsis
    • Opperman R., Emmanuel E., Levy A.A. The effect of sequence divergence on recombination between direct repeats in Arabidopsis. Genetics 2004, 168(4):2207-2215.
    • (2004) Genetics , vol.168 , Issue.4 , pp. 2207-2215
    • Opperman, R.1    Emmanuel, E.2    Levy, A.A.3
  • 43
    • 0033590220 scopus 로고    scopus 로고
    • Possible emergence of new geminiviruses by frequent recombination
    • Padidam M., Sawyer S., Fauquet C.M. Possible emergence of new geminiviruses by frequent recombination. Virology 1999, 265(2):218-225.
    • (1999) Virology , vol.265 , Issue.2 , pp. 218-225
    • Padidam, M.1    Sawyer, S.2    Fauquet, C.M.3
  • 44
    • 84881514081 scopus 로고    scopus 로고
    • The adenovirus E4orf4 protein induces a unique mode of cell death while inhibiting classical apoptosis
    • Pechkovsky A., Salzberg A., Kleinberger T. The adenovirus E4orf4 protein induces a unique mode of cell death while inhibiting classical apoptosis. Cell Cycle 2013, 12(15):2343-2344.
    • (2013) Cell Cycle , vol.12 , Issue.15 , pp. 2343-2344
    • Pechkovsky, A.1    Salzberg, A.2    Kleinberger, T.3
  • 47
    • 69249213616 scopus 로고    scopus 로고
    • Computational analysis of human adenovirus type 22 provides evidence for recombination among species D human adenoviruses in the penton base gene
    • Robinson C.M., Rajaiya J., Walsh M.P., Seto D., Dyer D.W., Jones M.S., Chodosh J. Computational analysis of human adenovirus type 22 provides evidence for recombination among species D human adenoviruses in the penton base gene. Journal of Virology 2009, 83(17):8980-8985.
    • (2009) Journal of Virology , vol.83 , Issue.17 , pp. 8980-8985
    • Robinson, C.M.1    Rajaiya, J.2    Walsh, M.P.3    Seto, D.4    Dyer, D.W.5    Jones, M.S.6    Chodosh, J.7
  • 50
    • 59849102099 scopus 로고    scopus 로고
    • Adenoviruses: update on structure and function
    • Russell W.C. Adenoviruses: update on structure and function. Journal of General Virology 2009, 90(Pt 1):1-20.
    • (2009) Journal of General Virology , vol.90 , Issue.PART 1 , pp. 1-20
    • Russell, W.C.1
  • 51
    • 0028918202 scopus 로고
    • Mismatch correction acts as a barrier to homeologous recombination in Saccharomyces cerevisiae
    • Selva E.M., New L., Crouse G.F., Lahue R.S. Mismatch correction acts as a barrier to homeologous recombination in Saccharomyces cerevisiae. Genetics 1995, 139(3):1175-1188.
    • (1995) Genetics , vol.139 , Issue.3 , pp. 1175-1188
    • Selva, E.M.1    New, L.2    Crouse, G.F.3    Lahue, R.S.4
  • 52
    • 79956061175 scopus 로고    scopus 로고
    • Using the whole-genome sequence to characterize and name human adenoviruses
    • Seto D., Chodosh J., Brister J.R., Jones M.S. Using the whole-genome sequence to characterize and name human adenoviruses. Journal of Virology 2011, 85(11):5701-5702.
    • (2011) Journal of Virology , vol.85 , Issue.11 , pp. 5701-5702
    • Seto, D.1    Chodosh, J.2    Brister, J.R.3    Jones, M.S.4
  • 54
    • 0026708873 scopus 로고
    • Analyzing the mosaic structure of genes
    • Smith J.M. Analyzing the mosaic structure of genes. Journal of Molecular Evolution 1992, 34(2):126-129.
    • (1992) Journal of Molecular Evolution , vol.34 , Issue.2 , pp. 126-129
    • Smith, J.M.1
  • 55
    • 0027157960 scopus 로고
    • Estimation of the number of nucleotide substitutions in the control region of mitochondrial-DNA in humans and chimpanzees
    • Tamura K., Nei M. estimation of the number of nucleotide substitutions in the control region of mitochondrial-DNA in humans and chimpanzees. Molecular Biology and Evolution 1993, 10(3):512-526.
    • (1993) Molecular Biology and Evolution , vol.10 , Issue.3 , pp. 512-526
    • Tamura, K.1    Nei, M.2
  • 58
    • 66749181110 scopus 로고    scopus 로고
    • Evidence of molecular evolution driven by recombination events influencing tropism in a novel human adenovirus that causes epidemic keratoconjunctivitis
    • Walsh M.P., Chintakuntlawar A., Robinson C.M., Madisch I., Harrach B., Hudson N.R., Schnurr D., Heim A., Chodosh J., Seto D., et al. Evidence of molecular evolution driven by recombination events influencing tropism in a novel human adenovirus that causes epidemic keratoconjunctivitis. PLoS One 2009, 4(6):e5635.
    • (2009) PLoS One , vol.4 , Issue.6
    • Walsh, M.P.1    Chintakuntlawar, A.2    Robinson, C.M.3    Madisch, I.4    Harrach, B.5    Hudson, N.R.6    Schnurr, D.7    Heim, A.8    Chodosh, J.9    Seto, D.10
  • 61
    • 0031726784 scopus 로고    scopus 로고
    • Adenovirus E3 proteins: 14.7K, RID, and gp19K inhibit immune-induced cell death; adenovirus death protein promotes cell death
    • Wold W.S.M., Tollefson A.E. Adenovirus E3 proteins: 14.7K, RID, and gp19K inhibit immune-induced cell death; adenovirus death protein promotes cell death. Seminars in Virology 1998, 8(6):515-523.
    • (1998) Seminars in Virology , vol.8 , Issue.6 , pp. 515-523
    • Wold, W.S.M.1    Tollefson, A.E.2


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