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Volumn 16, Issue 8, 1999, Pages 1046-1060

Genealogy of families of SINEs in cetaceans and artiodactyls: The presence of a huge superfamily of tRNA(Glu)-derived families of SINEs

Author keywords

Artiodactyl; Cetacean; Phylogeny; Retroposon; Short interspersed repetitive element (SINE)

Indexed keywords

TRANSFER RNA;

EID: 0032802198     PISSN: 07374038     EISSN: None     Source Type: Journal    
DOI: 10.1093/oxfordjournals.molbev.a026194     Document Type: Article
Times cited : (79)

References (58)
  • 1
    • 0029328427 scopus 로고
    • Porcine SINE-associated microsatellite markers: Evidence for new artiodactyl SINEs
    • ALEXANDER, L. J., G. A. ROHRER, R. T. STONE, and C. W. BEATTIE. 1995. Porcine SINE-associated microsatellite markers: evidence for new artiodactyl SINEs. Mamm. Genome. 6:464-468.
    • (1995) Mamm. Genome , vol.6 , pp. 464-468
    • Alexander, L.J.1    Rohrer, G.A.2    Stone, R.T.3    Beattie, C.W.4
  • 3
    • 0028091225 scopus 로고
    • What is a whale?
    • BERTA, A. 1994. What is a whale? Science 263:180-181.
    • (1994) Science , vol.263 , pp. 180-181
    • Berta, A.1
  • 4
    • 0017148259 scopus 로고
    • A general method for isolation of high molecular weight DNA from eukaryotes
    • BLIN, N., and D. W. STAFFORD. 1976. A general method for isolation of high molecular weight DNA from eukaryotes. Nucleic Acids Res. 3:2303-2308.
    • (1976) Nucleic Acids Res. , vol.3 , pp. 2303-2308
    • Blin, N.1    Stafford, D.W.2
  • 5
    • 0029796901 scopus 로고    scopus 로고
    • DNA sequence insertion and evolutionary variation in gene regulation
    • BRITTEN, R. J. 1996. DNA sequence insertion and evolutionary variation in gene regulation. Proc. Natl. Acad. Sci. USA 93: 9374-9377.
    • (1996) Proc. Natl. Acad. Sci. USA , vol.93 , pp. 9374-9377
    • Britten, R.J.1
  • 7
    • 0025864962 scopus 로고
    • Retroposons-seeds of evolution
    • BROSIUS, J. 1991. Retroposons-seeds of evolution. Science 251:753.
    • (1991) Science , vol.251 , pp. 753
    • Brosius, J.1
  • 8
    • 0030788418 scopus 로고    scopus 로고
    • Artiodactyl interspersed DNA repeats in cetacean genomes
    • BUNTJER, J. B., I. A. HOFF, and J. A. LENSTRA. 1997. Artiodactyl interspersed DNA repeats in cetacean genomes. J. Mol. Evol. 45:66-69.
    • (1997) J. Mol. Evol. , vol.45 , pp. 66-69
    • Buntjer, J.B.1    Hoff, I.A.2    Lenstra, J.A.3
  • 9
    • 0027144279 scopus 로고
    • Evolution of retroposons
    • DEININGER, P. L., and M. A. BATZER. 1993. Evolution of retroposons. Evol. Biol. 27:1:57-196.
    • (1993) Evol. Biol. , vol.27 , Issue.1 , pp. 57-196
    • Deininger, P.L.1    Batzer, M.A.2
  • 11
    • 0029817951 scopus 로고    scopus 로고
    • Evidence from milk casein genes that cetaceans are close relatives of hippopotamid artiodactyls
    • GATESY, J., C. HAYASHI, M. A. CRONIN, and P. ARCTANDER. 1996. Evidence from milk casein genes that cetaceans are close relatives of hippopotamid artiodactyls. Mol. Biol. Evol. 13:954-963.
    • (1996) Mol. Biol. Evol. , vol.13 , pp. 954-963
    • Gatesy, J.1    Hayashi, C.2    Cronin, M.A.3    Arctander, P.4
  • 12
    • 0028184406 scopus 로고
    • New whale from the Eocene of Pakistan and the origin of cetacean swimming
    • GINGERICH, P. D., S. M. RAZA, M. ARIF, M. ANWAR, and X. ZHOU. 1994. New whale from the Eocene of Pakistan and the origin of cetacean swimming. Nature 368:844-847.
    • (1994) Nature , vol.368 , pp. 844-847
    • Gingerich, P.D.1    Raza, S.M.2    Arif, M.3    Anwar, M.4    Zhou, X.5
  • 13
    • 0025297598 scopus 로고
    • Hind limbs of Eocene Basilosaurus: Evidence of feet in whales
    • GINGERICH, P. D., B. H. SMITH, and E. L. SIMONS. 1990. Hind limbs of Eocene Basilosaurus: evidence of feet in whales. Science 249:154-157.
    • (1990) Science , vol.249 , pp. 154-157
    • Gingerich, P.D.1    Smith, B.H.2    Simons, E.L.3
  • 14
    • 0028350365 scopus 로고
    • Molecular evidence for the inclusion of cetaceans within the order Artiodactyla
    • GRAUR, D., and D. G. HIGGINS. 1994. Molecular evidence for the inclusion of cetaceans within the order Artiodactyla. Mol. Biol. Evol. 11:357-364.
    • (1994) Mol. Biol. Evol. , vol.11 , pp. 357-364
    • Graur, D.1    Higgins, D.G.2
  • 15
    • 0002807369 scopus 로고
    • Cytochrome b gene of marine mammals: Phylogeny and evolution
    • IRWIN, D. M., and U. ARNASON. 1994. Cytochrome b gene of marine mammals: phylogeny and evolution. J. Mamm. Evol. 2:37-55.
    • (1994) J. Mamm. Evol. , vol.2 , pp. 37-55
    • Irwin, D.M.1    Arnason, U.2
  • 16
    • 0025736539 scopus 로고
    • Reconstruction and analysis of human AIu genes
    • JURKA, J., and A. MILOSAVLJHVIC. 1991. Reconstruction and analysis of human AIu genes. J. Mol. Evol. 32:105-121.
    • (1991) J. Mol. Evol. , vol.32 , pp. 105-121
    • Jurka, J.1    Milosavljhvic, A.2
  • 17
    • 0342298816 scopus 로고
    • A fundamental division in the Alu family of repeated sequences
    • JURKA, J., and T. SMITH. 1988. A fundamental division in the Alu family of repeated sequences. Proc. Natl. Acad. Sci. USA 85:4775-4778.
    • (1988) Proc. Natl. Acad. Sci. USA , vol.85 , pp. 4775-4778
    • Jurka, J.1    Smith, T.2
  • 18
    • 0028000997 scopus 로고
    • Amplification of distinct subfamilies of short interspersed elements during evolution of the Salmonidae
    • KIDO, Y., M. HIMBERG, N. TAKASAKI, and N. OKADA. 1994. Amplification of distinct subfamilies of short interspersed elements during evolution of the Salmonidae. J. Mol. Biol. 241:633-644.
    • (1994) J. Mol. Biol. , vol.241 , pp. 633-644
    • Kido, Y.1    Himberg, M.2    Takasaki, N.3    Okada, N.4
  • 19
    • 0027549054 scopus 로고
    • Short interspersed nuclear element (SINE) sequences of the Bovidae
    • LENSTRA, J. A., J. A. F. BOXTEL, K. A. ZWAAGSTRA, and M. SCHWERIN. 1993. Short interspersed nuclear element (SINE) sequences of the Bovidae. Anim. Genet. 24:33-39.
    • (1993) Anim. Genet. , vol.24 , pp. 33-39
    • Lenstra, J.A.1    Boxtel, J.A.F.2    Zwaagstra, K.A.3    Schwerin, M.4
  • 20
    • 0002848838 scopus 로고
    • SINEs as a genomic scrap yard: An essay on genomic evolution
    • R. J. MARAIA, ed. R. G. Landes Company, Austin, Tex.
    • MAKALOWSKI, W. 1995. SINEs as a genomic scrap yard: an essay on genomic evolution. Pp. 81-104 in R. J. MARAIA, ed. The impact of short interspersed elements (SINEs) on the host genome. R. G. Landes Company, Austin, Tex.
    • (1995) The Impact of Short Interspersed Elements (Sines) on the Host Genome , pp. 81-104
    • Makalowski, W.1
  • 21
    • 0028356158 scopus 로고
    • Alu sequences in the coding regions of mRNA: A source of protein variability
    • MAKALOWSKI, W., G. A. MITCHELL, and D. LABUDA. 1994. Alu sequences in the coding regions of mRNA: a source of protein variability. Trends Genet. 10:188-193.
    • (1994) Trends Genet. , vol.10 , pp. 188-193
    • Makalowski, W.1    Mitchell, G.A.2    Labuda, D.3
  • 22
    • 0242689439 scopus 로고
    • DNA-dependent transcription of adenovirus genes in a soluble whole-cell extract
    • MANLEY, J. L., A. FIRE, A. CANO, P. A. SHARP, and M. L. GEFER. 1980. DNA-dependent transcription of adenovirus genes in a soluble whole-cell extract. Proc. Natl. Acad. Sci. USA 77:3855-3859.
    • (1980) Proc. Natl. Acad. Sci. USA , vol.77 , pp. 3855-3859
    • Manley, J.L.1    Fire, A.2    Cano, A.3    Sharp, P.A.4    Gefer, M.L.5
  • 23
    • 0027466080 scopus 로고
    • Revised phylogeny of whales suggested by mitochondrial ribosomal DNA sequences
    • MILINKOVITCH, M. C., G. ORTI, and A. MEYER. 1993. Revised phylogeny of whales suggested by mitochondrial ribosomal DNA sequences. Nature 361:346-348.
    • (1993) Nature , vol.361 , pp. 346-348
    • Milinkovitch, M.C.1    Orti, G.2    Meyer, A.3
  • 24
    • 0027205382 scopus 로고
    • Determination of the phylogenetic relationships among Pacific salmonids by using short interspersed elements (SINEs) as temporal landmarks of evolution
    • MURATA, S., N. TAKASAKI, M. SAITOH, and N. OKADA. 1993. Determination of the phylogenetic relationships among Pacific salmonids by using short interspersed elements (SINEs) as temporal landmarks of evolution. Proc. Natl. Acad. Sci. USA 90:6995-6999.
    • (1993) Proc. Natl. Acad. Sci. USA , vol.90 , pp. 6995-6999
    • Murata, S.1    Takasaki, N.2    Saitoh, M.3    Okada, N.4
  • 25
    • 0033621101 scopus 로고    scopus 로고
    • Phylogenetic relationships among Cetartiodactyls based on evidence from insertions of SINEs and LINEs: Hippopotamuses are the closed extant relatives of whales
    • in press
    • NIKAIDO, M., A. ROONEY, and N. OKADA. 1999. Phylogenetic relationships among Cetartiodactyls based on evidence from insertions of SINEs and LINEs: hippopotamuses are the closed extant relatives of whales. Proc. Natl. Acad. Sci. USA (in press).
    • (1999) Proc. Natl. Acad. Sci. USA
    • Nikaido, M.1    Rooney, A.2    Okada, N.3
  • 26
    • 0029927086 scopus 로고    scopus 로고
    • The 3′ ends of tRNA-derived short interspersed repetitive elements are derived from the 3' ends of long interspersed repetitive elements
    • OHSHIMA, K., M. HAMADA, Y. TERAI, and N. OKADA. 1996. The 3′ ends of tRNA-derived short interspersed repetitive elements are derived from the 3' ends of long interspersed repetitive elements. Mol. Cell. Biol. 16:3756-3764.
    • (1996) Mol. Cell. Biol. , vol.16 , pp. 3756-3764
    • Ohshima, K.1    Hamada, M.2    Terai, Y.3    Okada, N.4
  • 27
    • 0027289469 scopus 로고
    • Several short interspersed repetitive elements (SINEs) in distant species may have originated from a common ancestral retrovirus: Characterization of a squid SINE and a possible mechanism for generation of tRNA-derived retroposons
    • OHSHIMA, K., R. KOISHI, M. MATSUO, and N. OKADA. 1993. Several short interspersed repetitive elements (SINEs) in distant species may have originated from a common ancestral retrovirus: characterization of a squid SINE and a possible mechanism for generation of tRNA-derived retroposons. Proc. Natl. Acad. Sci. USA 90:6260-6264.
    • (1993) Proc. Natl. Acad. Sci. USA , vol.90 , pp. 6260-6264
    • Ohshima, K.1    Koishi, R.2    Matsuo, M.3    Okada, N.4
  • 29
    • 0001414578 scopus 로고
    • SINEs: Short interspersed repeated elements of the eukaryotic genome
    • _. 1991b. SINEs: short interspersed repeated elements of the eukaryotic genome. Trends Ecol. Evol. 6:358-361.
    • (1991) Trends Ecol. Evol. , vol.6 , pp. 358-361
  • 30
    • 0031027784 scopus 로고    scopus 로고
    • The 3′ ends of tRNA-derived SINEs originated from the 3′ ends of LINEs: A new example from the bovine genome
    • OKADA, N., and M. HAMADA. 1997. The 3′ ends of tRNA-derived SINEs originated from the 3′ ends of LINEs: a new example from the bovine genome. J. Mol. Evol. 44(Suppl. 1):S52-S56.
    • (1997) J. Mol. Evol. , vol.44 , Issue.SUPPL. 1
    • Okada, N.1    Hamada, M.2
  • 31
    • 0031593205 scopus 로고    scopus 로고
    • SINEs and LINEs share common 3′ sequences: A review
    • OKADA, N., M. HAMADA, I. OGIWARA, and K. OHSHIMA. 1997. SINEs and LINEs share common 3′ sequences: a review. Gene 205:229-243.
    • (1997) Gene , vol.205 , pp. 229-243
    • Okada, N.1    Hamada, M.2    Ogiwara, I.3    Ohshima, K.4
  • 34
    • 0023916853 scopus 로고
    • The Alu family developed through successive waves of fixation closely connected with primate lineage history
    • QUENTIN, Y. 1988. The Alu family developed through successive waves of fixation closely connected with primate lineage history. J. Mol. Evol. 27:194-202.
    • (1988) J. Mol. Evol. , vol.27 , pp. 194-202
    • Quentin, Y.1
  • 35
    • 0024498530 scopus 로고
    • Successive waves of fixation of B1 variants in rodent lineage history
    • _. 1989. Successive waves of fixation of B1 variants in rodent lineage history. J. Mol. Evol. 28:299-305.
    • (1989) J. Mol. Evol. , vol.28 , pp. 299-305
  • 36
    • 0022435396 scopus 로고
    • Origins of repeated DNA
    • ROGERS, J. 1985. Origins of repeated DNA. Nature 317:765-766.
    • (1985) Nature , vol.317 , pp. 765-766
    • Rogers, J.1
  • 37
    • 0022315823 scopus 로고
    • Rodent type 2 Alu family, rat identifier sequence, rabbit C family, and bovine or goat 73-bp repeat may have evolved from tRNA genes
    • SAKAMOTO, K., and N. OKADA. 1985. Rodent type 2 Alu family, rat identifier sequence, rabbit C family, and bovine or goat 73-bp repeat may have evolved from tRNA genes. J. Mol. Evol. 22:134-140.
    • (1985) J. Mol. Evol. , vol.22 , pp. 134-140
    • Sakamoto, K.1    Okada, N.2
  • 39
    • 0027026168 scopus 로고
    • Transcriptional regulation and transpositional selection of active SINE sequences
    • SCHMID, C., and R. MARAIA. 1992. Transcriptional regulation and transpositional selection of active SINE sequences. Curr. Opin. Genet. Dev. 2:874-882.
    • (1992) Curr. Opin. Genet. Dev. , vol.2 , pp. 874-882
    • Schmid, C.1    Maraia, R.2
  • 40
    • 0033964296 scopus 로고    scopus 로고
    • SINE insertions: Powerful tools for molecular systematics
    • in press
    • SHEDLOCK, A. M., and N. OKADA. 1999. SINE insertions: powerful tools for molecular systematics. BioEssays (in press).
    • (1999) BioEssays
    • Shedlock, A.M.1    Okada, N.2
  • 41
    • 0031877096 scopus 로고    scopus 로고
    • A SINE that acquired a role in signal transduction during evolution
    • SHIMAMURA, M., M. NIKAIDO, K. OHSHIMA, and N. OKADA. 1998. A SINE that acquired a role in signal transduction during evolution. Mol. Biol. Evol. 15:923-925.
    • (1998) Mol. Biol. Evol. , vol.15 , pp. 923-925
    • Shimamura, M.1    Nikaido, M.2    Ohshima, K.3    Okada, N.4
  • 43
    • 0020044638 scopus 로고
    • SINEs and LINEs: Highly repeated short and long interspersed sequences in mammalian genomes
    • SINGER, M. F. 1982. SINEs and LINEs: highly repeated short and long interspersed sequences in mammalian genomes. Cell 28:433-434.
    • (1982) Cell , vol.28 , pp. 433-434
    • Singer, M.F.1
  • 44
    • 0004164996 scopus 로고
    • University Science Books, Mill Valley, Calif.
    • SINGER, M., and P. BERG. 1991. Genes & genomes. University Science Books, Mill Valley, Calif.
    • (1991) Genes & Genomes
    • Singer, M.1    Berg, P.2
  • 45
    • 0023664225 scopus 로고
    • Identification and DNA sequence of an interspersed repetitive DNA element in the genome of the miniature swine
    • SINGER, D. S., L. J. PARENT, and R. EHRLICH. 1987. Identification and DNA sequence of an interspersed repetitive DNA element in the genome of the miniature swine. Nucleic Acids Res. 15:2780.
    • (1987) Nucleic Acids Res. , vol.15 , pp. 2780
    • Singer, D.S.1    Parent, L.J.2    Ehrlich, R.3
  • 47
    • 0029794321 scopus 로고    scopus 로고
    • Phylogenetic evidence from the IRBP gene for the paraphyly of toothed whales, with mixed support for Cetacea as a suborder of Artiodactyla
    • SMITH, M. R., M. S. SHIVJI, V. G. WADDELL, and M. J. STANHOPE. 1996. Phylogenetic evidence from the IRBP gene for the paraphyly of toothed whales, with mixed support for Cetacea as a suborder of Artiodactyla. Mol. Biol. Evol. 13: 918-922.
    • (1996) Mol. Biol. Evol. , vol.13 , pp. 918-922
    • Smith, M.R.1    Shivji, M.S.2    Waddell, V.G.3    Stanhope, M.J.4
  • 48
    • 0026685747 scopus 로고
    • Characterization of swine short interspersed repetitive sequences
    • TAKAHASHI, H., T. AWATA, and H. YASUE. 1992. Characterization of swine short interspersed repetitive sequences. Anim. Genet. 23:443-448.
    • (1992) Anim. Genet. , vol.23 , pp. 443-448
    • Takahashi, H.1    Awata, T.2    Yasue, H.3
  • 49
    • 0032510721 scopus 로고    scopus 로고
    • Existence of a bovine LINE repetitive insert that appears in the cDNA of bovine protein BCNT in ruminant, but not in human, genomes
    • TAKAHASHI, I., T NOBUKUNI, H. OHMORI, M. KOBAYASHI, S. TANAKA, K. OHSHIMA, N. OKADA, T. MASUI, K. HASHIMOTO, and S. IWASHITA. 1998. Existence of a bovine LINE repetitive insert that appears in the cDNA of bovine protein BCNT in ruminant, but not in human, genomes. Gene 211: 387-394.
    • (1998) Gene , vol.211 , pp. 387-394
    • Takahashi, I.1    Nobukuni, T.2    Ohmori, H.3    Kobayashi, M.4    Tanaka, S.5    Ohshima, K.6    Okada, N.7    Masui, T.8    Hashimoto, K.9    Iwashita, S.10
  • 50
    • 0028027562 scopus 로고
    • Species-specific amplification of tRNA-derived short interspersed repetitive elements (SINEs) by retroposition: A process of parasitization of entire genomes during the evolution of salmonids
    • TAKASAKI, N., S. MURATA, M. SAITOH, T. KOBAYASHI, L. PARK, and N. OKADA. 1994. Species-specific amplification of tRNA-derived short interspersed repetitive elements (SINEs) by retroposition: a process of parasitization of entire genomes during the evolution of salmonids. Proc. Natl. Acad. Sci. USA 91:10153-10157.
    • (1994) Proc. Natl. Acad. Sci. USA , vol.91 , pp. 10153-10157
    • Takasaki, N.1    Murata, S.2    Saitoh, M.3    Kobayashi, T.4    Park, L.5    Okada, N.6
  • 51
    • 0000731302 scopus 로고
    • Phylogenetic aspects of cetacean origins: A morphological perspective
    • THEWISSEN, J. G. M. 1994. Phylogenetic aspects of cetacean origins: a morphological perspective. J. Mamm. Evol. 2: 157-184.
    • (1994) J. Mamm. Evol. , vol.2 , pp. 157-184
    • Thewissen, J.G.M.1
  • 52
    • 0027341212 scopus 로고
    • Origin of underwater hearing in whales
    • THEWISSEN, J. G. M., and S. T. HUSSAIN. 1993. Origin of underwater hearing in whales. Nature 361:444-445,
    • (1993) Nature , vol.361 , pp. 444-445
    • Thewissen, J.G.M.1    Hussain, S.T.2
  • 53
    • 0028182149 scopus 로고
    • Fossil evidence for the origin of aquatic locomotion in archaeocete whales
    • THEWISSEN, J. G. M., S. T. HUSSAIN, and M. ARIF. 1994. Fossil evidence for the origin of aquatic locomotion in archaeocete whales. Science 263:210-212.
    • (1994) Science , vol.263 , pp. 210-212
    • Thewissen, J.G.M.1    Hussain, S.T.2    Arif, M.3
  • 54
    • 0021127698 scopus 로고
    • Alu sequences are processed 7SL RNA genes
    • ULLU, E., and C. TSCHUDI. 1984. Alu sequences are processed 7SL RNA genes. Nature 312:171-172.
    • (1984) Nature , vol.312 , pp. 171-172
    • Ullu, E.1    Tschudi, C.2
  • 55
    • 0019186902 scopus 로고
    • An abundant cytoplasmic 7S RNA is complementary to the dominant interspersed middle repetitive DNA sequence family in the human genome
    • WEINER, A. M. 1980. An abundant cytoplasmic 7S RNA is complementary to the dominant interspersed middle repetitive DNA sequence family in the human genome. Cell 22: 209-218.
    • (1980) Cell , vol.22 , pp. 209-218
    • Weiner, A.M.1
  • 56
    • 0022555861 scopus 로고
    • Nonviral retroposons: Genes, pseudogenes, and transposable elements generated by the reverse flow of genetic information
    • WEINER, A. M., P. L. DEININGER, and A. EFSTRATIADIS. 1986. Nonviral retroposons: genes, pseudogenes, and transposable elements generated by the reverse flow of genetic information. Annu. Rev. Biochem. 55:631-661.
    • (1986) Annu. Rev. Biochem. , vol.55 , pp. 631-661
    • Weiner, A.M.1    Deininger, P.L.2    Efstratiadis, A.3
  • 57
    • 0023478607 scopus 로고
    • Existence of at least three distinct Alu subfamilies
    • WILLARD, C., H. T. NGUYEN, and C. W. SCHMID. 1987. Existence of at least three distinct Alu subfamilies. J. Mol. Evol. 26:180-186.
    • (1987) J. Mol. Evol. , vol.26 , pp. 180-186
    • Willard, C.1    Nguyen, H.T.2    Schmid, C.W.3
  • 58
    • 0027260466 scopus 로고
    • Molecular characterization of a short interspersed repetitive element from tobacco that exhibits sequence homology to specific tRNAs
    • YOSHIOKA, Y., S. MATSUMOTO, S. KOJIMA, K. OHSHIMA, N. OKADA, and Y. MACHIDA. 1993. Molecular characterization of a short interspersed repetitive element from tobacco that exhibits sequence homology to specific tRNAs. Proc. Natl. Acad. Sci. USA 90:6562-6566.
    • (1993) Proc. Natl. Acad. Sci. USA , vol.90 , pp. 6562-6566
    • Yoshioka, Y.1    Matsumoto, S.2    Kojima, S.3    Ohshima, K.4    Okada, N.5    Machida, Y.6


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