메뉴 건너뛰기




Volumn 124, Issue 1, 2015, Pages 57-65

Diversity and evolution of centromere repeats in the maize genome

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; BIODIVERSITY; CELL FRACTIONATION; CENTC GENE; CENTROMERE; DOMESTICATION; GENE MUTATION; GENETIC SIMILARITY; MAIZE; MOLECULAR EVOLUTION; NONHUMAN; PLANT GENE; PLANT GENOME; POLYPLOIDY; CHEMISTRY; GENETIC VARIABILITY; GENETICS; TANDEM REPEAT;

EID: 84923653711     PISSN: 00095915     EISSN: 14320886     Source Type: Journal    
DOI: 10.1007/s00412-014-0483-8     Document Type: Article
Times cited : (17)

References (40)
  • 1
    • 77955290185 scopus 로고    scopus 로고
    • Diversity of chromosomal karyotypes in maize and its relatives
    • COI: 1:STN:280:DC%2BC3cnnvVGkuw%3D%3D, PID: 20551613
    • Albert P, Gao Z, Danilova T, Birchler J (2010) Diversity of chromosomal karyotypes in maize and its relatives. Cytogenet Genome Res 129(1–3):6–16
    • (2010) Cytogenet Genome Res , vol.129 , Issue.1-3 , pp. 6-16
    • Albert, P.1    Gao, Z.2    Danilova, T.3    Birchler, J.4
  • 2
    • 0032573174 scopus 로고    scopus 로고
    • Chromosome-specific molecular organization of maize (Zea mays L.) centromeric regions
    • COI: 1:CAS:528:DyaK1cXntFWkurg%3D
    • Ananiev EV, Phillips RL, Rines HW (1998) Chromosome-specific molecular organization of maize (Zea mays L.) centromeric regions. Proc Natl Acad Sci 95(22):13,073–13,078
    • (1998) Proc Natl Acad Sci , vol.95 , Issue.22 , pp. 13,073-13,078
    • Ananiev, E.V.1    Phillips, R.L.2    Rines, H.W.3
  • 4
    • 26444601342 scopus 로고    scopus 로고
    • Estimating a nucleotide substitution rate for maize from polymorphism at a major domestication locus
    • COI: 1:CAS:528:DC%2BD2MXhtFKjsLvK, PID: 16079248
    • Clark RM, Tavaré S, Doebley J (2005) Estimating a nucleotide substitution rate for maize from polymorphism at a major domestication locus. Mol Biol Evol 22(11):2304–2312
    • (2005) Mol Biol Evol , vol.22 , Issue.11 , pp. 2304-2312
    • Clark, R.M.1    Tavaré, S.2    Doebley, J.3
  • 5
    • 3042666256 scopus 로고    scopus 로고
    • Muscle: multiple sequence alignment with high accuracy and high throughput
    • COI: 1:CAS:528:DC%2BD2cXisF2ks7w%3D, PID: 15034147
    • Edgar RC (2004) Muscle: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res 32(5):1792–1797
    • (2004) Nucleic Acids Res , vol.32 , Issue.5 , pp. 1792-1797
    • Edgar, R.C.1
  • 6
    • 0000122573 scopus 로고
    • Phylip—phylogeny inference package (version 3.2)
    • Felsenstein J (1989) Phylip—phylogeny inference package (version 3.2). Cladistics 5(2):164–166
    • (1989) Cladistics , vol.5 , Issue.2 , pp. 164-166
    • Felsenstein, J.1
  • 7
    • 25444495480 scopus 로고    scopus 로고
    • Differential rates of local and global homogenization in centromere satellites from Arabidopsis relatives
    • COI: 1:CAS:528:DC%2BD2MXhtFeis7%2FI, PID: 15937135
    • Hall SE, Luo S, Hall AE, Preuss D (2005) Differential rates of local and global homogenization in centromere satellites from Arabidopsis relatives. Genetics 170(4):1913–1927
    • (2005) Genetics , vol.170 , Issue.4 , pp. 1913-1927
    • Hall, S.E.1    Luo, S.2    Hall, A.E.3    Preuss, D.4
  • 8
    • 0029891606 scopus 로고    scopus 로고
    • Evolution of anthocyanin biosynthesis in maize kernels: the role of regulatory and enzymatic loci
    • COI: 1:CAS:528:DyaK28XksFentLo%3D, PID: 8807310
    • Hanson MA, Gaut BS, Stec AO, Fuerstenberg SI, Goodman MM, Coe EH, Doebley JF (1996) Evolution of anthocyanin biosynthesis in maize kernels: the role of regulatory and enzymatic loci. Genetics 143(3):1395–1407
    • (1996) Genetics , vol.143 , Issue.3 , pp. 1395-1407
    • Hanson, M.A.1    Gaut, B.S.2    Stec, A.O.3    Fuerstenberg, S.I.4    Goodman, M.M.5    Coe, E.H.6    Doebley, J.F.7
  • 9
    • 0036899010 scopus 로고    scopus 로고
    • SPAGeDi: a versatile computer program to analyse spatial genetic structure at the individual or population levels
    • Hardy OJ, Vekemans X (2002) SPAGeDi: a versatile computer program to analyse spatial genetic structure at the individual or population levels. Mol Ecol Notes 2(4):618–620
    • (2002) Mol Ecol Notes , vol.2 , Issue.4 , pp. 618-620
    • Hardy, O.J.1    Vekemans, X.2
  • 10
    • 0036021406 scopus 로고    scopus 로고
    • Dasheng: a recently amplified nonautonomous long terminal repeat element that is a major component of pericentromeric regions in rice
    • COI: 1:CAS:528:DC%2BD38XmsF2qsrc%3D, PID: 12136031
    • Jiang N, Bao Z, Temnykh S, Cheng Z, Jiang J, Wing RA, McCouch SR, Wessler SR (2002) Dasheng: a recently amplified nonautonomous long terminal repeat element that is a major component of pericentromeric regions in rice. Genetics 161(3):1293–1305
    • (2002) Genetics , vol.161 , Issue.3 , pp. 1293-1305
    • Jiang, N.1    Bao, Z.2    Temnykh, S.3    Cheng, Z.4    Jiang, J.5    Wing, R.A.6    McCouch, S.R.7    Wessler, S.R.8
  • 11
    • 1542647343 scopus 로고    scopus 로고
    • Maize centromeres: organization and functional adaptation in the genetic background of oat
    • COI: 1:CAS:528:DC%2BD2cXisFGkt78%3D
    • Jin W, Melo JR, Nagaki K, Talbert PB, Henikoff S, Dawe RK, Jiang J (2004) Maize centromeres: organization and functional adaptation in the genetic background of oat. Plant Cell Online 16(3):571–581
    • (2004) Plant Cell Online , vol.16 , Issue.3 , pp. 571-581
    • Jin, W.1    Melo, J.R.2    Nagaki, K.3    Talbert, P.B.4    Henikoff, S.5    Dawe, R.K.6    Jiang, J.7
  • 12
    • 4544245758 scopus 로고    scopus 로고
    • Chromosome painting using repetitive DNA sequences as probes for somatic chromosome identification in maize
    • COI: 1:CAS:528:DC%2BD2cXnvFehsr8%3D
    • Kato A, Lamb JC, Birchler JA (2004) Chromosome painting using repetitive DNA sequences as probes for somatic chromosome identification in maize. Proc Natl Acad Sci 101(37):13,554–13,559
    • (2004) Proc Natl Acad Sci , vol.101 , Issue.37 , pp. 13,554-13,559
    • Kato, A.1    Lamb, J.C.2    Birchler, J.A.3
  • 13
    • 15044362584 scopus 로고    scopus 로고
    • Structure and genomic organization of centromeric repeats in Arabidopsis species
    • COI: 1:CAS:528:DC%2BD2MXhsVGksL4%3D, PID: 15586291
    • Kawabe A, Nasuda S (2005) Structure and genomic organization of centromeric repeats in Arabidopsis species. Mol Genet Genomics 272(6):593–602
    • (2005) Mol Genet Genomics , vol.272 , Issue.6 , pp. 593-602
    • Kawabe, A.1    Nasuda, S.2
  • 15
    • 84859210032 scopus 로고    scopus 로고
    • Fast gapped-read alignment with bowtie 2
    • COI: 1:CAS:528:DC%2BC38Xjt1Oqt7c%3D, PID: 22388286
    • Langmead B, Salzberg SL (2012) Fast gapped-read alignment with bowtie 2. Nat Methods 9(4):357–359
    • (2012) Nat Methods , vol.9 , Issue.4 , pp. 357-359
    • Langmead, B.1    Salzberg, S.L.2
  • 16
    • 32044442068 scopus 로고    scopus 로고
    • Retrotransposon accumulation and satellite amplification mediated by segmental duplication facilitate centromere expansion in rice
    • Ma J, Jackson SA (2006) Retrotransposon accumulation and satellite amplification mediated by segmental duplication facilitate centromere expansion in rice. Genome Res 16(2):251--259
    • (2006) Genome Res , vol.16 , Issue.2 , pp. 251-259
    • Ma, J.1    Jackson, S.A.2
  • 17
    • 77955869139 scopus 로고    scopus 로고
    • Global sequence characterization of rice centromeric satellite based on oligomer frequency analysis in large-scale sequencing data
    • COI: 1:CAS:528:DC%2BC3cXhtVGru73K, PID: 20616383
    • Macas J, Neumann P, Novák P, Jiang J (2010) Global sequence characterization of rice centromeric satellite based on oligomer frequency analysis in large-scale sequencing data. Bioinformatics 26(17):2101–2108
    • (2010) Bioinformatics , vol.26 , Issue.17 , pp. 2101-2108
    • Macas, J.1    Neumann, P.2    Novák, P.3    Jiang, J.4
  • 18
    • 3242876311 scopus 로고    scopus 로고
    • BLAST: at the core of a powerful and diverse set of sequence analysis tools
    • COI: 1:CAS:528:DC%2BD2cXlvFKnsrY%3D, PID: 15215342
    • McGinnis S, Madden TL (2004) BLAST: at the core of a powerful and diverse set of sequence analysis tools. Nucleic Acids Res 32(suppl 2):W20–W25
    • (2004) Nucleic Acids Res , vol.32 , pp. W20-W25
    • McGinnis, S.1    Madden, T.L.2
  • 20
    • 0037295602 scopus 로고    scopus 로고
    • Molecular and cytological analyses of large tracks of centromeric DNA reveal the structure and evolutionary dynamics of maize centromeres
    • COI: 1:CAS:528:DC%2BD3sXislWjurg%3D, PID: 12618412
    • Nagaki K, Song J, Stupar RM, Parokonny AS, Yuan Q, Ouyang S, Liu J, Hsiao J, Jones KM, Dawe RK, Buell CR, Jiang J (2003) Molecular and cytological analyses of large tracks of centromeric DNA reveal the structure and evolutionary dynamics of maize centromeres. Genetics 163(2):759–770
    • (2003) Genetics , vol.163 , Issue.2 , pp. 759-770
    • Nagaki, K.1    Song, J.2    Stupar, R.M.3    Parokonny, A.S.4    Yuan, Q.5    Ouyang, S.6    Liu, J.7    Hsiao, J.8    Jones, K.M.9    Dawe, R.K.10    Buell, C.R.11    Jiang, J.12
  • 21
    • 0034815462 scopus 로고    scopus 로고
    • Characterization of a maize chromosome 4 centromeric sequence: evidence for an evolutionary relationship with the b chromosome centromere
    • COI: 1:CAS:528:DC%2BD3MXns12jsL0%3D, PID: 11560905
    • Page BT, Wanous MK, Birchler JA (2001) Characterization of a maize chromosome 4 centromeric sequence: evidence for an evolutionary relationship with the b chromosome centromere. Genetics 159(1):291–302
    • (2001) Genetics , vol.159 , Issue.1 , pp. 291-302
    • Page, B.T.1    Wanous, M.K.2    Birchler, J.A.3
  • 22
    • 1042304216 scopus 로고    scopus 로고
    • Ape: analyses of phylogenetics and evolution in R language
    • COI: 1:CAS:528:DC%2BD2cXms1eitg%3D%3D, PID: 14734327
    • Paradis E, Claude J, Strimmer K (2004) Ape: analyses of phylogenetics and evolution in R language. Bioinformatics 20(2):289–290
    • (2004) Bioinformatics , vol.20 , Issue.2 , pp. 289-290
    • Paradis, E.1    Claude, J.2    Strimmer, K.3
  • 23
    • 33846006923 scopus 로고    scopus 로고
    • Population structure and eigenanalysis
    • PID: 17194218
    • Patterson N, Price AL, Reich D (2006) Population structure and eigenanalysis. PLoS Genet 2(12):e190
    • (2006) PLoS Genet , vol.2 , Issue.12 , pp. e190
    • Patterson, N.1    Price, A.L.2    Reich, D.3
  • 25
    • 0032432586 scopus 로고    scopus 로고
    • Genome size and environmental correlations in maize (Zea mays ssp. mays, Poaceae)
    • Poggio L, Rosato M, Chiavarino AM, Naranjo CA (1998) Genome size and environmental correlations in maize (Zea mays ssp. mays, Poaceae). Ann Bot 82(suppl 1):107–115
    • (1998) Ann Bot , vol.82 , pp. 107-115
    • Poggio, L.1    Rosato, M.2    Chiavarino, A.M.3    Naranjo, C.A.4
  • 26
    • 11144224315 scopus 로고    scopus 로고
    • Chromosomal locus rearrangements are a rapid response to formation of the allotetraploid Arabidopsis suecica genome
    • COI: 1:CAS:528:DC%2BD2MXjsl2kuw%3D%3D
    • Pontes O, Neves N, Silva M, Lewis MS, Madlung A, Comai L, Viegas W, Pikaard CS (2004) Chromosomal locus rearrangements are a rapid response to formation of the allotetraploid Arabidopsis suecica genome. Proc Natl Acad Sci 101(52):18,240–18,245
    • (2004) Proc Natl Acad Sci , vol.101 , Issue.52 , pp. 18,240-18,245
    • Pontes, O.1    Neves, N.2    Silva, M.3    Lewis, M.S.4    Madlung, A.5    Comai, L.6    Viegas, W.7    Pikaard, C.S.8
  • 27
    • 0037072660 scopus 로고    scopus 로고
    • Small RNAs correspond to centromere heterochromatic repeats
    • COI: 1:CAS:528:DC%2BD38Xnt1Shsr8%3D, PID: 12193644
    • Reinhart BJ, Bartel DP (2002) Small RNAs correspond to centromere heterochromatic repeats. Science 297(5588):1831–1831
    • (2002) Science , vol.297 , Issue.5588 , pp. 1831
    • Reinhart, B.J.1    Bartel, D.P.2
  • 28
    • 67650314824 scopus 로고    scopus 로고
    • Historical divergence and gene flow in the genus Zea
    • COI: 1:CAS:528:DC%2BD1MXlsFWqtb0%3D, PID: 19153259
    • Ross-Ibarra J, Tenaillon M, Gaut BS (2009) Historical divergence and gene flow in the genus Zea. Genetics 181(4):1399–1413
    • (2009) Genetics , vol.181 , Issue.4 , pp. 1399-1413
    • Ross-Ibarra, J.1    Tenaillon, M.2    Gaut, B.S.3
  • 30
    • 79952744855 scopus 로고    scopus 로고
    • Differentiation of the maize subgenomes by genome dominance and both ancient and ongoing gene loss
    • COI: 1:CAS:528:DC%2BC3MXjs1Wqtb4%3D, PID: 21368132
    • Schnable JC, Springer NM, Freeling M (2011) Differentiation of the maize subgenomes by genome dominance and both ancient and ongoing gene loss. Proc Natl Acad Sci 108(10):4069–4074
    • (2011) Proc Natl Acad Sci , vol.108 , Issue.10 , pp. 4069-4074
    • Schnable, J.C.1    Springer, N.M.2    Freeling, M.3
  • 31
    • 84925883799 scopus 로고    scopus 로고
    • Evolution of centromeric retrotransposons in grasses, Genome Biol Evol:
    • Sharma A, Presting GG (2014) Evolution of centromeric retrotransposons in grasses. Genome Biol Evol. doi:10.1093/gbe/evu096
    • (2014) Presting GG
    • Sharma, A.1
  • 32
    • 55749095036 scopus 로고    scopus 로고
    • Sustained retrotransposition is mediated by nucleotide deletions and interelement recombinations
    • COI: 1:CAS:528:DC%2BD1cXht1Gnt7zL
    • Sharma A, Schneider KL, Presting GG (2008) Sustained retrotransposition is mediated by nucleotide deletions and interelement recombinations. Proc Natl Acad Sci 105(40):15,470–15,474
    • (2008) Proc Natl Acad Sci , vol.105 , Issue.40 , pp. 15,470-15,474
    • Sharma, A.1    Schneider, K.L.2    Presting, G.G.3
  • 34
    • 79960095966 scopus 로고    scopus 로고
    • Genome size and transposable element content as determined by high-throughput sequencing in maize and Zea luxurians
    • COI: 1:CAS:528:DC%2BC3MXks1Ontb0%3D, PID: 21296765
    • Tenaillon MI, Hufford MB, Gaut BS, Ross-Ibarra J (2011) Genome size and transposable element content as determined by high-throughput sequencing in maize and Zea luxurians. Genome Biol Evol 3:219
    • (2011) Genome Biol Evol , vol.3 , pp. 219
    • Tenaillon, M.I.1    Hufford, M.B.2    Gaut, B.S.3    Ross-Ibarra, J.4
  • 35
    • 84871399497 scopus 로고    scopus 로고
    • Centromere retention and loss during the descent of maize from a tetraploid ancestor
    • COI: 1:CAS:528:DC%2BC3sXnt1enuw%3D%3D
    • Wang H, Bennetzen JL (2012) Centromere retention and loss during the descent of maize from a tetraploid ancestor. Proc Natl Acad Sci 109(51):21,004–21,009
    • (2012) Proc Natl Acad Sci , vol.109 , Issue.51 , pp. 21,004-21,009
    • Wang, H.1    Bennetzen, J.L.2
  • 36
    • 84923642906 scopus 로고    scopus 로고
    • Maize centromeres expand and adopt a uniform size in the genetic background of oat
    • Wang K, Wu Y, Zhang W, Dawe RK, Jiang J (2013) Maize centromeres expand and adopt a uniform size in the genetic background of oat. Genome research pp gr–160,887
    • (2013) Genome research pp gr–160 , pp. 887
    • Wang, K.1    Wu, Y.2    Zhang, W.3    Dawe, R.K.4    Jiang, J.5
  • 37
    • 73649146539 scopus 로고    scopus 로고
    • Maize centromere structure and evolution: sequence analysis of centromeres 2 and 5 reveals dynamic loci shaped primarily by retrotransposons
    • PID: 19956743
    • Wolfgruber TK, Sharma A, Schneider KL, Albert PS, Koo DH, Shi J, Gao Z, Han F, Lee H, Xu R (2009) Maize centromere structure and evolution: sequence analysis of centromeres 2 and 5 reveals dynamic loci shaped primarily by retrotransposons. PLoS Genet 5(11):e1000743
    • (2009) PLoS Genet , vol.5 , Issue.11 , pp. e1000743
    • Wolfgruber, T.K.1    Sharma, A.2    Schneider, K.L.3    Albert, P.S.4    Koo, D.H.5    Shi, J.6    Gao, Z.7    Han, F.8    Lee, H.9    Xu, R.10
  • 38
    • 84864867560 scopus 로고    scopus 로고
    • Total centromere size and genome size are strongly correlated in ten grass species
    • COI: 1:CAS:528:DC%2BC38XpvVarsbY%3D
    • Zhang H, Dawe RK (2012) Total centromere size and genome size are strongly correlated in ten grass species. Chromosom Res 20(4):403–412
    • (2012) Chromosom Res , vol.20 , Issue.4 , pp. 403-412
    • Zhang, H.1    Dawe, R.K.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.