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Proc Natl Acad Sci U S A. Mar 15, 1991; 88(6): 2326–2330.

Shaping and reshaping of salmonid genomes by amplification of tRNA-derived retroposons during evolution.


Three families of tRNA-derived repeated retroposons in the genomes of salmonid species have been isolated and characterized. These three families differ in sequence, but all are derived from a tRNA(Lys) or from a tRNA species structurally related to tRNA(Lys). The salmon Sma I family is present in the genomes of two species of the genus Oncorhynchus but not in other species, including five other species of the same genus. The charr Fok I family is present only in four species and subspecies of the genus Salvelinus. The third family, the salmonid Hpa I family, appears to be present in all salmonid species but is not present in species that are not members of the Salmonidae. Thus, the genome of proto-Salmonidae was originally shaped by amplification and dispersion of the salmonid Hpa I family and then reshaped by amplification of the Sma I and Fok I families in the more recently evolved species of salmon and charr, respectively. We speculate that amplification and dispersion of retroposons may have played a role in salmonid speciation.

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Selected References

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  • Rogers JH. The origin and evolution of retroposons. Int Rev Cytol. 1985;93:187–279. [PubMed]
  • Weiner AM, Deininger PL, Efstratiadis A. Nonviral retroposons: genes, pseudogenes, and transposable elements generated by the reverse flow of genetic information. Annu Rev Biochem. 1986;55:631–661. [PubMed]
  • Baltimore D. Retroviruses and retrotransposons: the role of reverse transcription in shaping the eukaryotic genome. Cell. 1985 Mar;40(3):481–482. [PubMed]
  • Okada N. Transfer RNA-like structure of the human Alu family: implications of its generation mechanism and possible functions. J Mol Evol. 1990 Dec;31(6):500–510. [PubMed]
  • Singer MF. SINEs and LINEs: highly repeated short and long interspersed sequences in mammalian genomes. Cell. 1982 Mar;28(3):433–434. [PubMed]
  • Matsumoto K, Murakami K, Okada N. Pseudouridylic modification of a 6S RNA transcribed in vitro from highly repetitive and transcribable (Hirt) sequences of salmon total DNA. Biochem Biophys Res Commun. 1984 Oct 30;124(2):514–522. [PubMed]
  • Matsumoto K, Murakami K, Okada N. Gene for lysine tRNA1 may be a progenitor of the highly repetitive and transcribable sequences present in the salmon genome. Proc Natl Acad Sci U S A. 1986 May;83(10):3156–3160. [PMC free article] [PubMed]
  • Lawrence CB, McDonnell DP, Ramsey WJ. Analysis of repetitive sequence elements containing tRNA-like sequences. Nucleic Acids Res. 1985 Jun 25;13(12):4239–4252. [PMC free article] [PubMed]
  • Daniels GR, Deininger PL. Repeat sequence families derived from mammalian tRNA genes. Nature. 317(6040):819–822. [PubMed]
  • Sakamoto K, Okada N. 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. 1985;22(2):134–140. [PubMed]
  • Endoh H, Okada N. Total DNA transcription in vitro: a procedure to detect highly repetitive and transcribable sequences with tRNA-like structures. Proc Natl Acad Sci U S A. 1986 Jan;83(2):251–255. [PMC free article] [PubMed]
  • Weiner AM. An abundant cytoplasmic 7S RNA is complementary to the dominant interspersed middle repetitive DNA sequence family in the human genome. Cell. 1980 Nov;22(1 Pt 1):209–218. [PubMed]
  • Ullu E, Tschudi C. Alu sequences are processed 7SL RNA genes. Nature. 1984 Nov 8;312(5990):171–172. [PubMed]
  • Blin N, Stafford DW. A general method for isolation of high molecular weight DNA from eukaryotes. Nucleic Acids Res. 1976 Sep;3(9):2303–2308. [PMC free article] [PubMed]
  • Manley JL, Fire A, Cano A, Sharp PA, Gefter ML. DNA-dependent transcription of adenovirus genes in a soluble whole-cell extract. Proc Natl Acad Sci U S A. 1980 Jul;77(7):3855–3859. [PMC free article] [PubMed]
  • Sanger F, Nicklen S, Coulson AR. DNA sequencing with chain-terminating inhibitors. Proc Natl Acad Sci U S A. 1977 Dec;74(12):5463–5467. [PMC free article] [PubMed]
  • Saiki RK, Gelfand DH, Stoffel S, Scharf SJ, Higuchi R, Horn GT, Mullis KB, Erlich HA. Primer-directed enzymatic amplification of DNA with a thermostable DNA polymerase. Science. 1988 Jan 29;239(4839):487–491. [PubMed]
  • Raba M, Limburg K, Burghagen M, Katze JR, Simsek M, Heckman JE, Rajbhandary UL, Gross HJ. Nucleotide sequence of three isoaccepting lysine tRNAs from rabbit liver and SV40-transformed mouse fibroblasts. Eur J Biochem. 1979 Jun;97(1):305–318. [PubMed]
  • Endoh H, Nagahashi S, Okada N. A highly repetitive and transcribable sequence in the tortoise genome is probably a retroposon. Eur J Biochem. 1990 Apr 20;189(1):25–31. [PubMed]
  • Panet A, Haseltine WA, Baltimore D, Peters G, Harada F, Dahlberg JE. Specific binding of tryptophan transfer RNA to avian myeloblastosis virus RNA-dependent DNA polymerase (reverse transcriptase). Proc Natl Acad Sci U S A. 1975 Jul;72(7):2535–2539. [PMC free article] [PubMed]
  • Barat C, Lullien V, Schatz O, Keith G, Nugeyre MT, Grüninger-Leitch F, Barré-Sinoussi F, LeGrice SF, Darlix JL. HIV-1 reverse transcriptase specifically interacts with the anticodon domain of its cognate primer tRNA. EMBO J. 1989 Nov;8(11):3279–3285. [PMC free article] [PubMed]
  • Thomas WK, Beckenbach AT. Variation in salmonid mitochondrial DNA: evolutionary constraints and mechanisms of substitution. J Mol Evol. 1989 Sep;29(3):233–245. [PubMed]

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