메뉴 건너뛰기




Volumn 16, Issue 5, 2014, Pages 604-619

Genome-Wide Analysis of Simple Sequence Repeats in Marine Animals-a Comparative Approach

Author keywords

Genome sequence; Marine animals; Microsatellites; SSR

Indexed keywords

DNA SEQUENCES; GENES;

EID: 84907596628     PISSN: 14362228     EISSN: None     Source Type: Journal    
DOI: 10.1007/s10126-014-9580-1     Document Type: Article
Times cited : (19)

References (44)
  • 2
    • 84872308285 scopus 로고    scopus 로고
    • In silico mining of putative microsatellite markers from whole genome sequence of water buffalo (Bubalus bubalis) and development of first BuffSatDB
    • Arora V, Iquebal MA, Rai A, Kumar D (2013) In silico mining of putative microsatellite markers from whole genome sequence of water buffalo (Bubalus bubalis) and development of first BuffSatDB. BMC Genomics 14: 43.
    • (2013) BMC Genomics , vol.14 , pp. 43
    • Arora, V.1    Iquebal, M.A.2    Rai, A.3    Kumar, D.4
  • 3
    • 0032953314 scopus 로고    scopus 로고
    • Distribution of dinucleotide microsatellites in the Drosophila melanogaster genome
    • Bachtrog D, Weiss S, Zangerl B, Brem G, Schlötterer C (1999) Distribution of dinucleotide microsatellites in the Drosophila melanogaster genome. Mol Biol Evol 16: 602-610.
    • (1999) Mol Biol Evol , vol.16 , pp. 602-610
    • Bachtrog, D.1    Weiss, S.2    Zangerl, B.3    Brem, G.4    Schlötterer, C.5
  • 4
    • 0033914059 scopus 로고    scopus 로고
    • Modulation of EGFR gene transcription by secondary structures, a polymorphic repetitive sequence and mutations-a link between genetics and epigenetics
    • Brandt B, Gebhardt F, Bürger H (2000) Modulation of EGFR gene transcription by secondary structures, a polymorphic repetitive sequence and mutations-a link between genetics and epigenetics. Histol Histopathol 15: 929-936.
    • (2000) Histol Histopathol , vol.15 , pp. 929-936
    • Brandt, B.1    Gebhardt, F.2    Bürger, H.3
  • 5
    • 0020480338 scopus 로고
    • Simple DNA sequences in homologous flanking regions near immunoglobulin VH genes: a role in gene interaction?
    • Cohen JB, Effron K, Rechavi G, Ben-Neriah Y, Zakut R, Givol D (1982) Simple DNA sequences in homologous flanking regions near immunoglobulin VH genes: a role in gene interaction? Nucleic Acids Res 10: 3353-3370.
    • (1982) Nucleic Acids Res , vol.10 , pp. 3353-3370
    • Cohen, J.B.1    Effron, K.2    Rechavi, G.3    Ben-Neriah, Y.4    Zakut, R.5    Givol, D.6
  • 6
    • 0021100483 scopus 로고
    • A chicken repetitive DNA sequence that is highly sensitive to single-strand specific endonucleases
    • Dybvig K, Clark CD, Aliperti G, Schlesinger MJ (1983) A chicken repetitive DNA sequence that is highly sensitive to single-strand specific endonucleases. Nucleic Acids Res 11: 8495-8508.
    • (1983) Nucleic Acids Res , vol.11 , pp. 8495-8508
    • Dybvig, K.1    Clark, C.D.2    Aliperti, G.3    Schlesinger, M.J.4
  • 7
    • 0032539711 scopus 로고    scopus 로고
    • Abundant microsatellite polymorphism in Saccharomyces cerevisiae, and the different distributions of microsatellites in eight prokaryotes and S. cerevisiae, result from strong mutation pressures and a variety of selective forces
    • Field D, Wills C (1998) Abundant microsatellite polymorphism in Saccharomyces cerevisiae, and the different distributions of microsatellites in eight prokaryotes and S. cerevisiae, result from strong mutation pressures and a variety of selective forces. PNAS 95: 1647-1652.
    • (1998) Pnas , vol.95 , pp. 1647-1652
    • Field, D.1    Wills, C.2
  • 8
    • 0040886242 scopus 로고    scopus 로고
    • Modulation of epidermal growth factor receptor gene transcription by a polymorphic dinucleotide repeat in intron 1
    • Gebhardt F, Zänker KS, Brandt B (1999) Modulation of epidermal growth factor receptor gene transcription by a polymorphic dinucleotide repeat in intron 1. J Biol Chem 274: 13176-13180.
    • (1999) J Biol Chem , vol.274 , pp. 13176-13180
    • Gebhardt, F.1    Zänker, K.S.2    Brandt, B.3
  • 9
    • 0036021704 scopus 로고    scopus 로고
    • Genome size and the accumulation of simple sequence repeats: implications of new data from genome sequencing projects
    • Hancock JM (2002) Genome size and the accumulation of simple sequence repeats: implications of new data from genome sequencing projects. Genetica 115: 93-103.
    • (2002) Genetica , vol.115 , pp. 93-103
    • Hancock, J.M.1
  • 10
    • 84869141268 scopus 로고    scopus 로고
    • Use of comparative genomics to develop EST-SSRs for red drum (Sciaenops ocellatus)
    • Hollenbeck CM, Portnoy DS, Gold JR (2012) Use of comparative genomics to develop EST-SSRs for red drum (Sciaenops ocellatus). Mar Biotechnol 14: 672-680.
    • (2012) Mar Biotechnol , vol.14 , pp. 672-680
    • Hollenbeck, C.M.1    Portnoy, D.S.2    Gold, J.R.3
  • 11
    • 0028952245 scopus 로고
    • Simple repetitive DNA sequences from primates: compilation and analysis
    • Jurka J, Pethiyagoda C (1995) Simple repetitive DNA sequences from primates: compilation and analysis. J Mol Evol 40: 120-126.
    • (1995) J Mol Evol , vol.40 , pp. 120-126
    • Jurka, J.1    Pethiyagoda, C.2
  • 12
    • 14544279926 scopus 로고    scopus 로고
    • Survey of simple sequence repeats in completed fungal genomes
    • Karaoglu H, Lee CMY, Meyer W (2005) Survey of simple sequence repeats in completed fungal genomes. Mol Biol Evol 22: 639-649.
    • (2005) Mol Biol Evol , vol.22 , pp. 639-649
    • Karaoglu, H.1    Lee, C.M.Y.2    Meyer, W.3
  • 13
    • 1842332701 scopus 로고    scopus 로고
    • Compositional biases of bacterial genomes and evolutionary implications
    • Karlin S, Mrazek J, Campbell AM (1997) Compositional biases of bacterial genomes and evolutionary implications. J Bacteriol 179: 3899-3913.
    • (1997) J Bacteriol , vol.179 , pp. 3899-3913
    • Karlin, S.1    Mrazek, J.2    Campbell, A.M.3
  • 14
    • 0034946803 scopus 로고    scopus 로고
    • Differential distribution of simple sequence repeats in eukaryotic genome sequences
    • Katti MV, Ranjekar PK, Gupta VS (2001) Differential distribution of simple sequence repeats in eukaryotic genome sequences. Mol Biol Evol 18: 1161-1167.
    • (2001) Mol Biol Evol , vol.18 , pp. 1161-1167
    • Katti, M.V.1    Ranjekar, P.K.2    Gupta, V.S.3
  • 15
    • 34547852208 scopus 로고    scopus 로고
    • SciRoKo: a new tool for whole genome microsatellite search and investigation
    • Kofler R, Schlötterer C, Lelley T (2007) SciRoKo: a new tool for whole genome microsatellite search and investigation. Bioinformatics 23: 1683-1685.
    • (2007) Bioinformatics , vol.23 , pp. 1683-1685
    • Kofler, R.1    Schlötterer, C.2    Lelley, T.3
  • 16
    • 25444467752 scopus 로고    scopus 로고
    • Nonrandom distribution and frequencies of genomic and EST-derived microsatellite markers in rice, wheat, and barley
    • La Rota M, Kantety RV, Yu J-K, Sorrells ME (2005) Nonrandom distribution and frequencies of genomic and EST-derived microsatellite markers in rice, wheat, and barley. BMC Genomics 6: 23.
    • (2005) BMC Genomics , vol.6 , pp. 23
    • La Rota, M.1    Kantety, R.V.2    Yu, J.-K.3    Sorrells, M.E.4
  • 17
    • 33745033519 scopus 로고    scopus 로고
    • Distinct patterns of SSR distribution in the Arabidopsis thaliana and rice genomes
    • Lawson MJ, Zhang L (2006) Distinct patterns of SSR distribution in the Arabidopsis thaliana and rice genomes. Genome Biol 7: R14.
    • (2006) Genome Biol , vol.7
    • Lawson, M.J.1    Zhang, L.2
  • 18
    • 0036897944 scopus 로고    scopus 로고
    • Microsatellites: genomic distribution, putative functions and mutational mechanisms: a review
    • Li YC, Korol AB, Fahima T, Beiles A, Nevo E (2002) Microsatellites: genomic distribution, putative functions and mutational mechanisms: a review. Mol Ecol 11: 2453-2465.
    • (2002) Mol Ecol , vol.11 , pp. 2453-2465
    • Li, Y.C.1    Korol, A.B.2    Fahima, T.3    Beiles, A.4    Nevo, E.5
  • 19
    • 2442701496 scopus 로고    scopus 로고
    • Microsatellites within genes: Structure, function, and evolution
    • Li Y-C, Korol AB, Fahima T, Nevo E (2004) Microsatellites within genes: Structure, function, and evolution. Mol Biol Evol 21: 991-1007.
    • (2004) Mol Biol Evol , vol.21 , pp. 991-1007
    • Li, Y.-C.1    Korol, A.B.2    Fahima, T.3    Nevo, E.4
  • 20
    • 84857235581 scopus 로고    scopus 로고
    • A microsatellite linkage map of striped bass (Morone saxatilis) reveals conserved synteny with the three-spined stickleback (Gasterosteus aculeatus)
    • Liu S, Rexroad CE III, Couch CR, Cordes JF, Reece KS, Sullivan CV (2012) A microsatellite linkage map of striped bass (Morone saxatilis) reveals conserved synteny with the three-spined stickleback (Gasterosteus aculeatus). Mar Biotechnol 14: 237-244.
    • (2012) Mar Biotechnol , vol.14 , pp. 237-244
    • Liu, S.1    Rexroad III, C.E.2    Couch, C.R.3    Cordes, J.F.4    Reece, K.S.5    Sullivan, C.V.6
  • 21
    • 77951586434 scopus 로고    scopus 로고
    • Genome-wide analysis of tandem repeats in Daphnia pulex-a comparative approach
    • Mayer C, Leese F, Tollrian R (2010) Genome-wide analysis of tandem repeats in Daphnia pulex-a comparative approach. BMC Genomics 11: 277.
    • (2010) BMC Genomics , vol.11 , pp. 277
    • Mayer, C.1    Leese, F.2    Tollrian, R.3
  • 22
    • 0031886282 scopus 로고    scopus 로고
    • A tetranucleotide polymorphic microsatellite, located in the first intron of the tyrosine hydroxylase gene, acts as a transcription regulatory element in vitro
    • Meloni R, Albanèse V, Ravassard P, Treilhou F, Mallet J (1998) A tetranucleotide polymorphic microsatellite, located in the first intron of the tyrosine hydroxylase gene, acts as a transcription regulatory element in vitro. Hum Mol Genet 7: 423-428.
    • (1998) Hum Mol Genet , vol.7 , pp. 423-428
    • Meloni, R.1    Albanèse, V.2    Ravassard, P.3    Treilhou, F.4    Mallet, J.5
  • 23
    • 84860143072 scopus 로고    scopus 로고
    • What can we learn from genomics approaches in marine ecology? From sequences to eco-systems biology!
    • Mock T, Kirkham A (2012) What can we learn from genomics approaches in marine ecology? From sequences to eco-systems biology! Mar Ecol 33: 131-148.
    • (2012) Mar Ecol , vol.33 , pp. 131-148
    • Mock, T.1    Kirkham, A.2
  • 24
    • 0036478903 scopus 로고    scopus 로고
    • Microsatellites are preferentially associated with nonrepetitive DNA in plant genomes
    • Morgante M, Hanafey M, Powell W (2002) Microsatellites are preferentially associated with nonrepetitive DNA in plant genomes. Nat Genet 30: 194-200.
    • (2002) Nat Genet , vol.30 , pp. 194-200
    • Morgante, M.1    Hanafey, M.2    Powell, W.3
  • 25
    • 0028065674 scopus 로고
    • Adaptive evolution of highly mutable loci in pathogenic bacteria
    • Moxon ER, Rainey PB, Nowak MA, Lenski RE (1994) Adaptive evolution of highly mutable loci in pathogenic bacteria. Curr Biol 4: 24-33.
    • (1994) Curr Biol , vol.4 , pp. 24-33
    • Moxon, E.R.1    Rainey, P.B.2    Nowak, M.A.3    Lenski, R.E.4
  • 27
    • 27644514554 scopus 로고    scopus 로고
    • Development of EST-SSR markers by data mining in three species of shrimp: Litopenaeus vannamei, Litopenaeus stylirostris, and Trachypenaeus birdy
    • Pérez F, Ortiz J, Zhinaula M, Gonzabay C, Calderón J, Volckaert FA (2005) Development of EST-SSR markers by data mining in three species of shrimp: Litopenaeus vannamei, Litopenaeus stylirostris, and Trachypenaeus birdy. Mar Biotechnol 7: 554-569.
    • (2005) Mar Biotechnol , vol.7 , pp. 554-569
    • Pérez, F.1    Ortiz, J.2    Zhinaula, M.3    Gonzabay, C.4    Calderón, J.5    Volckaert, F.A.6
  • 29
    • 0033808899 scopus 로고    scopus 로고
    • Evolutionary dynamics of microsatellite DNA
    • Schlötterer C (2000) Evolutionary dynamics of microsatellite DNA. Chromosoma 109: 365-371.
    • (2000) Chromosoma , vol.109 , pp. 365-371
    • Schlötterer, C.1
  • 30
    • 0031029760 scopus 로고    scopus 로고
    • Low mutation rates of microsatellite loci in Drosophila melanogaster
    • Schug MD, Mackay TF, Aquadro CF (1997) Low mutation rates of microsatellite loci in Drosophila melanogaster. Nat Genet 15: 99-102.
    • (1997) Nat Genet , vol.15 , pp. 99-102
    • Schug, M.D.1    Mackay, T.F.2    Aquadro, C.F.3
  • 32
    • 0037268258 scopus 로고    scopus 로고
    • Genome-wide analysis of microsatellite repeats in humans: their abundance and density in specific genomic regions
    • Subramanian S, Mishra RK, Singh L (2003) Genome-wide analysis of microsatellite repeats in humans: their abundance and density in specific genomic regions. Genome Biol 4: R13.
    • (2003) Genome Biol , vol.4
    • Subramanian, S.1    Mishra, R.K.2    Singh, L.3
  • 33
    • 84874116812 scopus 로고    scopus 로고
    • The molecular evolution of the Pif family proteins in various species of mollusks
    • Suzuki M, Iwashima A, Kimura M, Kogure T, Nagasawa H (2013) The molecular evolution of the Pif family proteins in various species of mollusks. Mar Biotechnol 15: 145-158.
    • (2013) Mar Biotechnol , vol.15 , pp. 145-158
    • Suzuki, M.1    Iwashima, A.2    Kimura, M.3    Kogure, T.4    Nagasawa, H.5
  • 34
    • 0022533981 scopus 로고
    • Cryptic simplicity in DNA is a major source of genetic variation
    • Tautz D, Trick M, Dover GA (1986) Cryptic simplicity in DNA is a major source of genetic variation. Nature 322: 652-656.
    • (1986) Nature , vol.322 , pp. 652-656
    • Tautz, D.1    Trick, M.2    Dover, G.A.3
  • 35
    • 0033858199 scopus 로고    scopus 로고
    • Microsatellites in different eukaryotic genomes: Survey and analysis
    • Tóth G, Gáspári Z, Jurka J (2000) Microsatellites in different eukaryotic genomes: Survey and analysis. Genome Res 10: 967-981.
    • (2000) Genome Res , vol.10 , pp. 967-981
    • Tóth, G.1    Gáspári, Z.2    Jurka, J.3
  • 37
    • 33746718089 scopus 로고    scopus 로고
    • Identification of genic moss SSR markers and a comparative analysis of twenty-four algal and plant gene indices reveal species-specific rather than group-specific characteristics of microsatellites
    • von Stackelberg M, Rensing SA, Reski R (2006) Identification of genic moss SSR markers and a comparative analysis of twenty-four algal and plant gene indices reveal species-specific rather than group-specific characteristics of microsatellites. BMC Plant Biol 6: 9.
    • (2006) BMC Plant Biol , vol.6 , pp. 9
    • von Stackelberg, M.1    Rensing, S.A.2    Reski, R.3
  • 38
    • 77950829471 scopus 로고    scopus 로고
    • Genome-wide analysis of transposable elements and tandem repeats in the compact placozoan genome
    • Wang S, Zhang L, Meyer E, Bao Z (2010) Genome-wide analysis of transposable elements and tandem repeats in the compact placozoan genome. Biol Direct 5: 18-26.
    • (2010) Biol Direct , vol.5 , pp. 18-26
    • Wang, S.1    Zhang, L.2    Meyer, E.3    Bao, Z.4
  • 39
    • 0027161022 scopus 로고
    • Mutation of human short tandem repeats
    • Weber JL, Wong C (1993) Mutation of human short tandem repeats. Hum Mol Genet 2: 1123-1128.
    • (1993) Hum Mol Genet , vol.2 , pp. 1123-1128
    • Weber, J.L.1    Wong, C.2
  • 40
    • 0037173031 scopus 로고    scopus 로고
    • Microsatellite evolution inferred from human-chimpanzee genomic sequence alignments
    • Webster MT, Smith NG, Ellegren H (2002) Microsatellite evolution inferred from human-chimpanzee genomic sequence alignments. PNAS 99: 8748-8753.
    • (2002) Pnas , vol.99 , pp. 8748-8753
    • Webster, M.T.1    Smith, N.G.2    Ellegren, H.3
  • 41
    • 0024369996 scopus 로고
    • Site-specific location of covalent DNA-polypeptide complexes in the chicken genome
    • Werner D, Neuer-Nitsche B (1989) Site-specific location of covalent DNA-polypeptide complexes in the chicken genome. Nucleic Acids Res 17: 6005-6015.
    • (1989) Nucleic Acids Res , vol.17 , pp. 6005-6015
    • Werner, D.1    Neuer-Nitsche, B.2
  • 42
    • 0034111151 scopus 로고    scopus 로고
    • The direction of microsatellite mutations is dependent upon allele length
    • Xu X, Peng M, Fang Z, Xu X (2000) The direction of microsatellite mutations is dependent upon allele length. Nat Genet 24: 396-399.
    • (2000) Nat Genet , vol.24 , pp. 396-399
    • Xu, X.1    Peng, M.2    Fang, Z.3    Xu, X.4
  • 44
    • 0034049112 scopus 로고    scopus 로고
    • Trinucleotide repeats are clustered in regulatory genes in Saccharomyces cerevisiae
    • Young ET, Sloan JS, van Riper K (2000) Trinucleotide repeats are clustered in regulatory genes in Saccharomyces cerevisiae. Genetics 154: 1053-1068.
    • (2000) Genetics , vol.154 , pp. 1053-1068
    • Young, E.T.1    Sloan, J.S.2    van Riper, K.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.