메뉴 건너뛰기




Volumn 19, Issue 10, 2004, Pages 545-553

SINEs of speciation: Tracking lineages with retroposons

Author keywords

[No Author keywords available]

Indexed keywords

ANCESTRY; GENEALOGY; PHYLOGENETICS; SPECIATION (BIOLOGY);

EID: 4544222472     PISSN: 01695347     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.tree.2004.08.002     Document Type: Review
Times cited : (129)

References (66)
  • 1
    • 0032531815 scopus 로고    scopus 로고
    • Does SINE evolution preclude Alu function?
    • C. Schmid Does SINE evolution preclude Alu function? Nucl. Acids Res. 26 1998 4541 4550
    • (1998) Nucl. Acids Res. , vol.26 , pp. 4541-4550
    • Schmid, C.1
  • 2
    • 0031593249 scopus 로고    scopus 로고
    • Mobile elements inserted in the distant past have taken on important functions
    • R.J. Britten Mobile elements inserted in the distant past have taken on important functions Gene 205 1997 177 182
    • (1997) Gene , vol.205 , pp. 177-182
    • Britten, R.J.1
  • 3
    • 0025864962 scopus 로고
    • Retroposons - Seeds of evolution
    • J. Brosius Retroposons - seeds of evolution Science 251 1991 753
    • (1991) Science , vol.251 , pp. 753
    • Brosius, J.1
  • 4
    • 0036250811 scopus 로고    scopus 로고
    • Alu repeats and human genomic diversity
    • M. Batzer, and P.L. Deininger Alu repeats and human genomic diversity Nat. Rev. Genet. 3 2001 370 379
    • (2001) Nat. Rev. Genet. , vol.3 , pp. 370-379
    • Batzer, M.1    Deininger, P.L.2
  • 6
    • 0033787169 scopus 로고    scopus 로고
    • Potential gene conversion and source genes for recently integrated Alu elements
    • A.M. Roy Potential gene conversion and source genes for recently integrated Alu elements Genome Res. 10 2000 1485 1495
    • (2000) Genome Res. , vol.10 , pp. 1485-1495
    • Roy, A.M.1
  • 7
    • 0036591885 scopus 로고    scopus 로고
    • SINEs and LINEs: The art of biting the hand that feeds you
    • A.M. Weiner SINEs and LINEs: the art of biting the hand that feeds you Curr. Opin. Cell Biol. 14 2002 343 350
    • (2002) Curr. Opin. Cell Biol. , vol.14 , pp. 343-350
    • Weiner, A.M.1
  • 8
    • 17344370076 scopus 로고    scopus 로고
    • The impact of L1 retrotransposons on the human genome
    • H.H. Kazazian Jr, and J.V. Moran The impact of L1 retrotransposons on the human genome Nat. Genet. 19 1998 19 24
    • (1998) Nat. Genet. , vol.19 , pp. 19-24
    • Kazazian Jr., H.H.1    Moran, J.V.2
  • 9
    • 1542513556 scopus 로고    scopus 로고
    • Mobile elements: Drivers of genome evolution
    • H.H. Kazazian Jr Mobile elements: drivers of genome evolution Science 303 2004 1626 1632
    • (2004) Science , vol.303 , pp. 1626-1632
    • Kazazian, H.H.1    Jr2
  • 11
    • 0033964296 scopus 로고    scopus 로고
    • SINE insertions: Powerful tools for molecular systematics
    • A.M. Shedlock, and N. Okada SINE insertions: powerful tools for molecular systematics Bioessays 22 2000 148 160
    • (2000) Bioessays , vol.22 , pp. 148-160
    • Shedlock, A.M.1    Okada, N.2
  • 12
    • 0027946473 scopus 로고
    • African origin of human-specific polymorphic Alu insertions
    • M.A. Batzer African origin of human-specific polymorphic Alu insertions Proc. Natl. Acad. Sci. U. S. A. 91 1994 12288 12292
    • (1994) Proc. Natl. Acad. Sci. U. S. A. , vol.91 , pp. 12288-12292
    • Batzer, M.A.1
  • 13
    • 0026092321 scopus 로고
    • A human-specific (HS) subfamily of Alu sequences
    • M.A. Batzer, and P.L. Deininger A human-specific (HS) subfamily of Alu sequences Genomics 9 1991 481 487
    • (1991) Genomics , vol.9 , pp. 481-487
    • Batzer, M.A.1    Deininger, P.L.2
  • 14
    • 0030781573 scopus 로고    scopus 로고
    • Alu evolution in human populations: Using the coalescent to estimate effective population size
    • S.T. Sherry Alu evolution in human populations: using the coalescent to estimate effective population size Genetics 147 1997 1977 1982
    • (1997) Genetics , vol.147 , pp. 1977-1982
    • Sherry, S.T.1
  • 16
    • 0031262514 scopus 로고    scopus 로고
    • Alu insertion polymorphisms and human evolution: Evidence for a larger population size in Africa
    • M. Stoneking Alu insertion polymorphisms and human evolution: evidence for a larger population size in Africa Genome Res. 7 1997 1061 1071
    • (1997) Genome Res. , vol.7 , pp. 1061-1071
    • Stoneking, M.1
  • 17
    • 0038148221 scopus 로고    scopus 로고
    • Genetic variation among world populations: Inferences from 100 Alu insertion polymorphisms
    • W.S. Watkins Genetic variation among world populations: inferences from 100 Alu insertion polymorphisms Genome Res. 13 2003 1607 1618
    • (2003) Genome Res. , vol.13 , pp. 1607-1618
    • Watkins, W.S.1
  • 18
    • 0026523850 scopus 로고
    • A human dimorphism resulting from loss of an Alu
    • M.C. Edwards, and R.A. Gibbs A human dimorphism resulting from loss of an Alu Genomics 14 1992 590 597
    • (1992) Genomics , vol.14 , pp. 590-597
    • Edwards, M.C.1    Gibbs, R.A.2
  • 19
    • 0032784908 scopus 로고    scopus 로고
    • Interspersed repeats and other mementos of transposable elements in mammalian genomes
    • A.F.A. Smit Interspersed repeats and other mementos of transposable elements in mammalian genomes Curr. Opin. Genet. Dev. 9 1999 657 663
    • (1999) Curr. Opin. Genet. Dev. , vol.9 , pp. 657-663
    • Smit, A.F.A.1
  • 20
    • 0041465867 scopus 로고    scopus 로고
    • Comparative analyses of multi-species sequences from targeted genomic regions
    • J.W. Thomas Comparative analyses of multi-species sequences from targeted genomic regions Nature 424 2003 788 793
    • (2003) Nature , vol.424 , pp. 788-793
    • Thomas, J.W.1
  • 21
    • 1542563409 scopus 로고    scopus 로고
    • Initial sequencing and comparative analysis of the mouse genome
    • R.H. Waterston Initial sequencing and comparative analysis of the mouse genome Nature 420 2002 520 562
    • (2002) Nature , vol.420 , pp. 520-562
    • Waterston, R.H.1
  • 22
    • 2042437650 scopus 로고    scopus 로고
    • Initial sequencing and analysis of the human genome
    • E.S. Lander Initial sequencing and analysis of the human genome Nature 409 2001 860 921
    • (2001) Nature , vol.409 , pp. 860-921
    • Lander, E.S.1
  • 23
    • 0030794201 scopus 로고    scopus 로고
    • Molecular evidence from retroposons that whales form a clade within even-toed ungulates
    • M. Shimamura Molecular evidence from retroposons that whales form a clade within even-toed ungulates Nature 388 1997 666 670
    • (1997) Nature , vol.388 , pp. 666-670
    • Shimamura, M.1
  • 24
    • 0031567625 scopus 로고    scopus 로고
    • Even-toed fingerprints on whale ancestry
    • M.C. Milinkovitch, and J.G.M. Thewissen Even-toed fingerprints on whale ancestry Nature 388 1997 622 624
    • (1997) Nature , vol.388 , pp. 622-624
    • Milinkovitch, M.C.1    Thewissen, J.G.M.2
  • 25
    • 0033621101 scopus 로고    scopus 로고
    • Phylogenetic relationships among cetartiodactyls based on evidence from insertions of SINEs and LINEs: Hippopotamuses are the closest extant relatives of whales
    • M. Nikaido Phylogenetic relationships among cetartiodactyls based on evidence from insertions of SINEs and LINEs: hippopotamuses are the closest extant relatives of whales Proc. Natl. Acad. Sci. U. S. A. 96 1999 10261 10266
    • (1999) Proc. Natl. Acad. Sci. U. S. A. , vol.96 , pp. 10261-10266
    • Nikaido, M.1
  • 26
    • 0034351398 scopus 로고    scopus 로고
    • SINE evolution, missing data, and the origin of whales
    • A.M. Shedlock SINE evolution, missing data, and the origin of whales Syst. Biol. 49 2000 808 817
    • (2000) Syst. Biol. , vol.49 , pp. 808-817
    • Shedlock, A.M.1
  • 27
    • 0035912816 scopus 로고    scopus 로고
    • Retroposon analysis of major cetacean lineages: The monophyly of toothed whales and the paraphyly of river dolphins
    • M. Nikaido Retroposon analysis of major cetacean lineages: the monophyly of toothed whales and the paraphyly of river dolphins Proc. Natl. Acad. Sci. U. S. A. 98 2001 7384 7389
    • (2001) Proc. Natl. Acad. Sci. U. S. A. , vol.98 , pp. 7384-7389
    • Nikaido, M.1
  • 28
    • 0242331639 scopus 로고    scopus 로고
    • Alu elements and hominid phylogenetics
    • A-H. Salem Alu elements and hominid phylogenetics Proc. Natl. Acad. Sci. U. S. A. 100 2003 12787 12791
    • (2003) Proc. Natl. Acad. Sci. U. S. A. , vol.100 , pp. 12787-12791
    • Salem, A.-H.1
  • 29
    • 0036898942 scopus 로고    scopus 로고
    • The Colugo (Cynocephalus variegatuus Dermoptera): The primates' gliding sister?
    • J. Schmitz The Colugo (Cynocephalus variegatuus Dermoptera): the primates' gliding sister? Mol. Biol. Evol. 19 2002 2308 2312
    • (2002) Mol. Biol. Evol. , vol.19 , pp. 2308-2312
    • Schmitz, J.1
  • 30
    • 0027205382 scopus 로고
    • Determination of the phylogenetic relationships among Pacific salmonids by using short interspersed elements (SINEs) as temporal landmarks of evolution
    • S. Murata Determination of the phylogenetic relationships among Pacific salmonids by using short interspersed elements (SINEs) as temporal landmarks of evolution Proc. Natl. Acad. Sci., U. S. A. 90 1993 6995 6999
    • (1993) Proc. Natl. Acad. Sci., U. S. A. , vol.90 , pp. 6995-6999
    • Murata, S.1
  • 31
    • 0031719198 scopus 로고    scopus 로고
    • Detection of the ongoing sorting of ancestrally polymorphic SINEs toward fixation or loss in populations of two species of charr during speciation
    • M. Hamada Detection of the ongoing sorting of ancestrally polymorphic SINEs toward fixation or loss in populations of two species of charr during speciation Genetics 150 1998 301 311
    • (1998) Genetics , vol.150 , pp. 301-311
    • Hamada, M.1
  • 32
    • 0031955141 scopus 로고    scopus 로고
    • A novel family of short interspersed repetitive elements (SINEs) from cichlids: The pattern of insertion of SINEs at orthologous loci support the proposed monophyly of four major groups of cichlid fishes in Lake Tanganyika
    • K. Takahashi A novel family of short interspersed repetitive elements (SINEs) from cichlids: the pattern of insertion of SINEs at orthologous loci support the proposed monophyly of four major groups of cichlid fishes in Lake Tanganyika Mol. Biol. Evol. 15 1998 391 407
    • (1998) Mol. Biol. Evol. , vol.15 , pp. 391-407
    • Takahashi, K.1
  • 33
    • 0034750288 scopus 로고    scopus 로고
    • Phylogenetic relationships and ancient incomplete lineage sorting among cichlid fishes in Lake Tanganyika as revealed by analysis of the insertions of retroposons
    • K. Takahashi Phylogenetic relationships and ancient incomplete lineage sorting among cichlid fishes in Lake Tanganyika as revealed by analysis of the insertions of retroposons Mol. Biol. Evol. 18 2001 2057 2066
    • (2001) Mol. Biol. Evol. , vol.18 , pp. 2057-2066
    • Takahashi, K.1
  • 34
    • 0034818757 scopus 로고    scopus 로고
    • Retroposition of the AFC family of SINEs (short interspersed repetitive elements) before and after the adaptive radiation of cichlid fishes in Lake Malawi and related inferences about phylogeny
    • K. Takahashi Retroposition of the AFC family of SINEs (short interspersed repetitive elements) before and after the adaptive radiation of cichlid fishes in Lake Malawi and related inferences about phylogeny J. Mol. Evol. 53 2001 496 507
    • (2001) J. Mol. Evol. , vol.53 , pp. 496-507
    • Takahashi, K.1
  • 35
    • 0037910330 scopus 로고    scopus 로고
    • Using SINEs to probe ancient explosive speciation: 'Hidden' radiation of African cichlids?
    • Y. Terai Using SINEs to probe ancient explosive speciation: 'hidden' radiation of African cichlids? Mol. Biol. Evol. 20 2003 924 930
    • (2003) Mol. Biol. Evol. , vol.20 , pp. 924-930
    • Terai, Y.1
  • 36
    • 1642421320 scopus 로고    scopus 로고
    • Phylogenetic relationships among East African haplochromine fish as revealed by short interspersed elements (SINEs)
    • Y. Terai Phylogenetic relationships among East African haplochromine fish as revealed by short interspersed elements (SINEs) J. Mol. Evol. 58 2004 64 78
    • (2004) J. Mol. Evol. , vol.58 , pp. 64-78
    • Terai, Y.1
  • 39
    • 0027534916 scopus 로고
    • A population genetic study of the evolution of SINEs. I. Polymorphism with regard to the presence or absence of an element
    • H. Tachida, and M. Iizuka A population genetic study of the evolution of SINEs. I. Polymorphism with regard to the presence or absence of an element Genetics 133 1993 1023 1030
    • (1993) Genetics , vol.133 , pp. 1023-1030
    • Tachida, H.1    Iizuka, M.2
  • 41
    • 0022480924 scopus 로고
    • Total DNA transcription in vitro: A procedure to detect highly repetitive and transcribable sequences with tRNA-like structures
    • H. Endoh, and N. Okada Total DNA transcription in vitro: a procedure to detect highly repetitive and transcribable sequences with tRNA-like structures Proc. Natl. Acad. Sci. USA 83 1986 251 255
    • (1986) Proc. Natl. Acad. Sci. USA , vol.83 , pp. 251-255
    • Endoh, H.1    Okada, N.2
  • 42
    • 0034967752 scopus 로고    scopus 로고
    • An ancient retrovirus-like insert present in multiple deer mouse species contains hot spots for SINE insertion
    • M.A. Cantrell An ancient retrovirus-like insert present in multiple deer mouse species contains hot spots for SINE insertion Genetics 158 2001 769 777
    • (2001) Genetics , vol.158 , pp. 769-777
    • Cantrell, M.A.1
  • 43
    • 0036300478 scopus 로고    scopus 로고
    • Non-traditional Alu evolution and primate genomic diversity
    • A.M. Roy-Engel Non-traditional Alu evolution and primate genomic diversity J. Mol. Biol. 316 2002 1033 1040
    • (2002) J. Mol. Biol. , vol.316 , pp. 1033-1040
    • Roy-Engel, A.M.1
  • 44
    • 0041571675 scopus 로고    scopus 로고
    • Recently integrated Alu elements and human genomic diversity
    • A-H. Salem Recently integrated Alu elements and human genomic diversity Mol. Biol. Evol. 20 2003 1349 1361
    • (2003) Mol. Biol. Evol. , vol.20 , pp. 1349-1361
    • Salem, A.-H.1
  • 45
    • 0042573930 scopus 로고    scopus 로고
    • Following the LINEs: An analysis of primate genomic variation at human-specific LINE-1 insertion sites
    • B.J. Vincent Following the LINEs: an analysis of primate genomic variation at human-specific LINE-1 insertion sites Mol. Biol. Evol. 20 2003 1338 1348
    • (2003) Mol. Biol. Evol. , vol.20 , pp. 1338-1348
    • Vincent, B.J.1
  • 49
    • 0034817362 scopus 로고    scopus 로고
    • Alu insertion polymorphisms for the study of human genomic diversity
    • A.M. Roy-Engel Alu insertion polymorphisms for the study of human genomic diversity Genetics 159 2001 279 290
    • (2001) Genetics , vol.159 , pp. 279-290
    • Roy-Engel, A.M.1
  • 50
    • 0023163377 scopus 로고
    • Mitochondrial DNA and human evolution
    • R.L. Cann Mitochondrial DNA and human evolution Nature 325 1987 31 36
    • (1987) Nature , vol.325 , pp. 31-36
    • Cann, R.L.1
  • 51
    • 0028885859 scopus 로고
    • A recent common ancestry for human Y chromosomes
    • M.F. Hammer A recent common ancestry for human Y chromosomes Nature 378 1995 376 378
    • (1995) Nature , vol.378 , pp. 376-378
    • Hammer, M.F.1
  • 52
    • 0028184174 scopus 로고
    • High resolution of human evolutionary trees with polymorphic microsatellites
    • A.M. Bowcock High resolution of human evolutionary trees with polymorphic microsatellites Nature 368 1994 455 457
    • (1994) Nature , vol.368 , pp. 455-457
    • Bowcock, A.M.1
  • 53
    • 1842427843 scopus 로고    scopus 로고
    • Adaptive evolution and explosive speciation: The cichlid fish model
    • T.D. Kocher Adaptive evolution and explosive speciation: the cichlid fish model Nat. Rev. Genet. 5 2004 288 298
    • (2004) Nat. Rev. Genet. , vol.5 , pp. 288-298
    • Kocher, T.D.1
  • 54
    • 0034655665 scopus 로고    scopus 로고
    • Total evidence: Molecules, morphology, and the phylogenetics of cichlid fishes
    • I.P. Farais Total evidence: molecules, morphology, and the phylogenetics of cichlid fishes J. Exp. Zool. 288 2000 76 92
    • (2000) J. Exp. Zool. , vol.288 , pp. 76-92
    • Farais, I.P.1
  • 55
    • 0034943229 scopus 로고    scopus 로고
    • The cytochrome b gene as a phylogenetic marker: The limits of resolution for analysing relationships among cichlid fishes
    • I.P. Farais The cytochrome b gene as a phylogenetic marker: the limits of resolution for analysing relationships among cichlid fishes J. Mol. Evol. 53 2001 89 103
    • (2001) J. Mol. Evol. , vol.53 , pp. 89-103
    • Farais, I.P.1
  • 56
    • 0037432767 scopus 로고    scopus 로고
    • Origin of the superflock of cichlid fishes from Lake Victoria, East Africa
    • A. Meyer Origin of the superflock of cichlid fishes from Lake Victoria, East Africa Science 300 2003 325 329
    • (2003) Science , vol.300 , pp. 325-329
    • Meyer, A.1
  • 57
    • 0027296788 scopus 로고
    • Retention of an ancestral polymorphism in the Mbuna species flock (Teleostei: Cichlidae) of Lake Malawi
    • P. Moran, and I. Kornfield Retention of an ancestral polymorphism in the Mbuna species flock (Teleostei: Cichlidae) of Lake Malawi Mol. Biol. Evol. 10 1995 1015 1029
    • (1995) Mol. Biol. Evol. , vol.10 , pp. 1015-1029
    • Moran, P.1    Kornfield, I.2
  • 58
    • 0030875153 scopus 로고    scopus 로고
    • Evolution of the mitochondrial control region in the Mbuna (Cichlidae) species flock of Lake Malawi, East Africa
    • A. Parker, and I. Kornfield Evolution of the mitochondrial control region in the Mbuna (Cichlidae) species flock of Lake Malawi, East Africa J. Mol. Evol. 45 1997 70 83
    • (1997) J. Mol. Evol. , vol.45 , pp. 70-83
    • Parker, A.1    Kornfield, I.2
  • 59
    • 0032564470 scopus 로고    scopus 로고
    • Persistence of neutral polymorphisms in Lake Victoria cichlid fish
    • S. Nagle Persistence of neutral polymorphisms in Lake Victoria cichlid fish Proc. Natl. Acad. Sci. U. S. A. 95 1998 14238 14243
    • (1998) Proc. Natl. Acad. Sci. U. S. A. , vol.95 , pp. 14238-14243
    • Nagle, S.1
  • 60
    • 0034115982 scopus 로고    scopus 로고
    • Extensive homoplasy, nonstepwise mutations, and shared ancestral polymorphism at a complex microsatellite locus in Lake Malawi cichlids
    • M.J.H. Van Oppen Extensive homoplasy, nonstepwise mutations, and shared ancestral polymorphism at a complex microsatellite locus in Lake Malawi cichlids Mol. Biol. Evol. 17 2000 489 498
    • (2000) Mol. Biol. Evol. , vol.17 , pp. 489-498
    • Van Oppen, M.J.H.1
  • 61
    • 0038024403 scopus 로고    scopus 로고
    • Fractious phylogenies
    • T.D. Kocher Fractious phylogenies Nature 423 2003 489 491
    • (2003) Nature , vol.423 , pp. 489-491
    • Kocher, T.D.1
  • 62
    • 0024713112 scopus 로고
    • Gene genealogy in three related populations: Consistency probability between gene and population trees
    • N. Takahata Gene genealogy in three related populations: consistency probability between gene and population trees Genetics 122 1989 957 966
    • (1989) Genetics , vol.122 , pp. 957-966
    • Takahata, N.1
  • 64
    • 0041817551 scopus 로고    scopus 로고
    • Bayes estimation of species divergence times and ancestral population sizes using DNA sequences from multiple loci
    • B. Rannala, and Z. Yang Bayes estimation of species divergence times and ancestral population sizes using DNA sequences from multiple loci Genetics 164 2003 1645 1656
    • (2003) Genetics , vol.164 , pp. 1645-1656
    • Rannala, B.1    Yang, Z.2
  • 65
    • 0037965118 scopus 로고    scopus 로고
    • Detecting correlation between characters in a comparative analysis with uncertain phylogeny
    • J.P. Huelsenbeck, and B. Rannala Detecting correlation between characters in a comparative analysis with uncertain phylogeny Evolution 57 2003 1237 1247
    • (2003) Evolution , vol.57 , pp. 1237-1247
    • Huelsenbeck, J.P.1    Rannala, B.2
  • 66
    • 0033793019 scopus 로고    scopus 로고
    • Rare molecular changes as a tool for phylogenetics
    • A. Rokas, and P.W.H. Holland Rare molecular changes as a tool for phylogenetics Trends Ecol. Evol. 15 2000 454 459
    • (2000) Trends Ecol. Evol. , vol.15 , pp. 454-459
    • Rokas, A.1    Holland, P.W.H.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.