Sequence conservation in avian CR1: an interspersed repetitive DNA family evolving under functional constraints.

Proc Natl Acad Sci U S A. 1991 July 1; 88(13): 5814–5818.

PMCID: PMC51968

Z Q Chen, R G Ritzel, C C Lin, and R B Hodgetts

Department of Genetics, University of Alberta, Edmonton, Canada.

This article has been cited by other articles in PMC.

Abstract

CR1 is a short interspersed repetitive DNA element originally identified in the domestic chicken (Gallus gallus). However, unlike virtually all other such sequences described to date, CR1 is not confined to one or a few closely related species. It is probably a ubiquitous component of the avian genome, having been detected in representatives of nine orders encompassing a wide spectrum of the class Aves. This identification was made possible by using the polymerase chain reaction (PCR), which revealed interspecific similarities not detected by conventional Southern analysis. DNA sequence comparisons between a CR1 element isolated from a sarus crane (Grus antigone) and those isolated from an emu (Dromaius novaehollandiae) showed that two short highly conserved regions are present. These are included within two regions previously characterized in the CR1 units of domestic fowl. One of these behaves as a transcriptional silencer and the other is a binding site for a nuclear protein. Our observations suggest that CR1 has evolved under functional constraints and that interspersed repetitive sequences as a class may constitute a more significant component of the eukaryotic genome than is generally acknowledged.

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Selected References

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Britten, RJ. Rates of DNA sequence evolution differ between taxonomic groups. Science. 1986 Mar 21;231(4744):1393–1398. [PubMed]
Chen, ZQ; Lin, CC; Hodgetts, RB. Cloning and characterization of a tandemly repeated DNA sequence in the crane family (Gruidae). Genome. 1989 Aug;32(4):646–654. [PubMed]
Voliva, CF; Jahn, CL; Comer, MB; Hutchison, CA, 3rd; Edgell, MH. The L1Md long interspersed repeat family in the mouse: almost all examples are truncated at one end. Nucleic Acids Res. 1983 Dec 20;11(24):8847–8859. [PubMed]
Doolittle, WF; Sapienza, C. Selfish genes, the phenotype paradigm and genome evolution. Nature. 1980 Apr 17;284(5757):601–603. [PubMed]
Orgel, LE; Crick, FH. Selfish DNA: the ultimate parasite. Nature. 1980 Apr 17;284(5757):604–607. [PubMed]
Britten, RJ; Kohne, DE. Repeated sequences in DNA. Hundreds of thousands of copies of DNA sequences have been incorporated into the genomes of higher organisms. Science. 1968 Aug 9;161(841):529–540. [PubMed]
Britten, RJ; Davidson, EH. Gene regulation for higher cells: a theory. Science. 1969 Jul 25;165(891):349–357. [PubMed]
Davidson, EH; Britten, RJ. Regulation of gene expression: possible role of repetitive sequences. Science. 1979 Jun 8;204(4397):1052–1059. [PubMed]
Stumph, WE; Kristo, P; Tsai, MJ; O'Malley, BW. A chicken middle-repetitive DNA sequence which shares homology with mammalian ubiquitous repeats. Nucleic Acids Res. 1981 Oct 24;9(20):5383–5397. [PubMed]
Haché, RJ; Deeley, RG. Organization, sequence and nuclease hypersensitivity of repetitive elements flanking the chicken apoVLDLII gene: extended sequence similarity to elements flanking the chicken vitellogenin gene. Nucleic Acids Res. 1988 Jan 11;16(1):97–113. [PubMed]
Silva, R; Burch, JB. Evidence that chicken CR1 elements represent a novel family of retroposons. Mol Cell Biol. 1989 Aug;9(8):3563–3566. [PubMed]
Sanzo, M; Stevens, B; Tsai, MJ; O'Malley, BW. Isolation of a protein fraction that binds preferentially to chicken middle repetitive DNA. Biochemistry. 1984 Dec 18;23(26):6491–6498. [PubMed]
Baniahmad, A; Muller, M; Steiner, C; Renkawitz, R. Activity of two different silencer elements of the chicken lysozyme gene can be compensated by enhancer elements. EMBO J. 1987 Aug;6(8):2297–2303. [PubMed]
van het Schip, F; Samallo, J; Meijlink, F; Gruber, M; AB, G. A new repetitive element of the CR1 family downstream of the chicken vitellogenin gene. Nucleic Acids Res. 1987 May 26;15(10):4193–4202. [PubMed]
Stumph, WE; Hodgson, CP; Tsai, MJ; O'Malley, BW. Genomic structure and possible retroviral origin of the chicken CR1 repetitive DNA sequence family. Proc Natl Acad Sci U S A. 1984 Nov;81(21):6667–6671. [PubMed]
Dunning, AM; Talmud, P; Humphries, SE. Errors in the polymerase chain reaction. Nucleic Acids Res. 1988 Nov 11;16(21):10393. [PubMed]
Wingender, E. Compilation of transcription regulating proteins. Nucleic Acids Res. 1988 Mar 25;16(5):1879–1902. [PubMed]
Renkawitz, R. Transcriptional repression in eukaryotes. Trends Genet. 1990 Jun;6(6):192–197. [PubMed]
Laimins, L; Holmgren-König, M; Khoury, G. Transcriptional "silencer" element in rat repetitive sequences associated with the rat insulin 1 gene locus. Proc Natl Acad Sci U S A. 1986 May;83(10):3151–3155. [PubMed]