Ubiquitous, interspersed repeated sequences in mammalian genomes.

Jelinek, Warren R.; Toomey, Thomas P.; Leinwand, Leslie A.; Duncan, Craig H.; Biro, P. A.; Choudary, Prabhakara V; Weissman, Sherman M.; Rubin, Carol M.; Houck, Catherine M.; Deininger, Prescott L.; Schmid, Carl W.

doi:10.1073/pnas.77.3.1398

Cited by 489 publications

(135 citation statements)

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“…Modification of microsatellite loci by TE insertion has been documented. The Alu repeats are retroelement (class I TE)-like short interspersed nucleotide elements (SINEs) that are prevalent in non-coding regions of primate genomes and are composed of a 282 bp conserved region that is similar to the 7SL rRNA gene (Jelinek et al 1980). Subfamilies of human Alu elements are associated with microsatellite repeats (Zuliani and Hobbs 1990;Jurka and Pethiyagoda 1995), wherein AluJ subfamily members are preferentially located near (GAAA) n repeats (Yandava et al 1997).…”

Section: Introductionmentioning

confidence: 99%

A Helitron-Like Transposon Superfamily from Lepidoptera Disrupts (GAAA)n Microsatellites and is Responsible for Flanking Sequence Similarity within a Microsatellite Family

et al. 2010

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Transposable elements (TEs) are mobile DNA regions that alter host genome structure and gene expression. A novel 588 bp non-autonomous high copy number TE in the Ostrinia nubilalis genome has features in common with miniature inverted-repeat transposable elements (MITEs): high A + T content (62.3%), lack of internal protein coding sequence, and secondary structure consisting of subterminal inverted repeats (SIRs). The O. nubilalis TE has inserted at (GAAA)n microsatellite loci, and was named the microsatellite-associated interspersed nuclear element ( MINE-1). Non-autonomous MINE-1 superfamily members also were identified downstream of (GAAA)n microsatellites within Bombyx mori and Pectinophora gossypiella genomes. Of 316 (GAAA)n microsatellites from the B. mori whole genome sequence, 201 (63.6%) have associated autonomous or non-autonomous MINE-1 elements. Autonomous B. mori MINE-1s a encode a helicase and endonuclease domain RepHel-like protein (BMHELp1) indicating their classification as Helitron-like transposons and were renamed Helitron1_BM. Transposition of MINE-1 members in Lepidoptera has resulted in the disruption of (GAAA)n microsatellite loci, has impacted the application of microsatellite-based genetic markers, and suggests genome sequence that flanks TT/AA dinucleotides may be required for target site recognition by RepHel endonuclease domains. Abstract Transposable elements (TEs) are mobile DNA regions that alter host genome structure and gene expression. A novel 588 bp non-autonomous high copy number TE in the Ostrinia nubilalis genome has features in common with miniature inverted-repeat transposable elements (MITEs): high A ? T content (62.3%), lack of internal protein coding sequence, and secondary structure consisting of subterminal inverted repeats (SIRs). The O. nubilalis TE has inserted at (GAAA) n microsatellite loci, and was named the microsatellite-associated interspersed nuclear element (MINE-1). Non-autonomous MINE-1 superfamily members also were identified downstream of (GAAA) n microsatellites within Bombyx mori and Pectinophora gossypiella genomes. Of 316 (GAAA) n microsatellites from the B. mori whole genome sequence, 201 (63.6%) have associated autonomous or non-autonomous MINE-1 elements. Autonomous B. mori MINE-1s a encode a helicase and endonuclease domain RepHel-like protein (BMHELp1) indicating their classification as Helitron-like transposons and were renamed Helitron1_BM. Transposition of MINE-1 members in Lepidoptera has resulted in the disruption of (GAAA) n microsatellite loci, has impacted the application of microsatellite-based genetic markers, and suggests genome sequence that flanks TT/AA dinucleotides may be required for target site recognition by RepHel endonuclease domains.

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Section: Introductionmentioning

confidence: 99%

A Helitron-Like Transposon Superfamily from Lepidoptera Disrupts (GAAA)n Microsatellites and is Responsible for Flanking Sequence Similarity within a Microsatellite Family

et al. 2010

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“…Highly repeated and interspersed sequences have a conserved sequence among several species, like Alu family members (Jelinek et al 1980 ;Jelinek and Schmid 1982). Therefore, the Alu type repeated DNA of humans ), mouse B1 (Krayev et al 1980), chinese hamster (Haynes and Jelinek 1981) and non-Alu family repeats, Kpn I family (Digiovanni et al 1983) and Hinf I family (Shimizu et al 1983) in humans, were compared to the consensus sequence of four clones (Kikuchi et al 1987).…”

Section: Discussionmentioning

confidence: 99%

Repetitive sequences in the rat genome that have cleavage sites for the restriction endonuclease Taq I.

Kikuchi

Sekiya²,

Nishimura

et al. 1990

Tohoku J. Exp. Med.

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A cleavage of rat DNA with restriction endonuclease Tag I produced at least 8 discrete bands. One of the bands, 0.29 kilobase pairs (kb) long, was isolated and cloned in plasmid. The hybridization of this fragment to genomic DNA digested with Tag I showed 1.6 kb, 1.2 kb and 0.29 kb band in a smear hybridization signal. A repetition of the DNA sequence of this fragment was about 12,500 copies haploid genome of both Buffalo and Sprague-Dawley rats by the Cot-hybridization analysis. Four independent clones of 0.29 kb Tag I fragment share high homology (97%). repetitive sequence ; restriction endonuclease Tag I ; rat Recent developments in the field of molecular oncology have facilitated the detection of potent oncogenes by the method of DNA transfection to mouse 3T3 cells (Cooper 1982). In these experiments, repetitive DNA of the donor animal, such as the Alu-sequence in the human genome (Jelinek and Schmid 1982), is usually used to detect the integrated donor DNA in the transformants. In the case of the rat genome, there was no suitable sequence for this purpose.

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“…Alu sequences are estimated to be present in more than 300,000 copies per haploid human genome. They are transcribed into HnRNA and represent the prevalent class of repetitive RNA (16). The primary nucleotide sequence of individual cloned members of the human Alu family diverge from each other about 10 to 20 percent (17,18).…”

Section: Introductionmentioning

confidence: 99%

“…A recombinant library of monkey genomic DNA in X bacteriophage was screened with a cloned member of the human Alu family (BLUR 8, ref. 16,17), and the arrangement of Alu-like sequences was investigated in several clones selected from the monkey library. The clones analyzed were not initially chosen for the presence of Alu-like sequence, but because they contained other DNA sequences being investigated in this laboratory.…”

Section: Introductionmentioning

confidence: 99%

Interspersed repeated sequences in the African green monkey genome that are homologous to the human Alu family

1981

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The dominant family of interspersed repetitive DNA sequences in the human genome has been termed the Alu family. We have found that more than 75% of the X phage in a recombinant library representing an African green monkey genome hybridize with a human Alu sequence under stringent conditions. A group of clones selected from the monkey library with probes other than the Alu sequence were analyzed for the presence and distribution of Alu family sequences. The analyses confirm the abundance of Alu sequences and demonstrate that more than one repeat unit is present in some phages. In the clones studied, the Alu units are separated by an average of 8 kilobase pairs of unrelated sequences. The nucleotide sequence of one monkey Alu sequence is reported and shown to resemble the human Alu sequences closely. Hence, the sequence, dispersion pattern, and copy number of the Alu family members are very similar in the African green monkey and human genomes.Among the clones investigated were two that contain segments of the satellite DNA termed o-component joined to non o-component DNA. The experiments indicate that in the monkey genome Alu sequences can occur close to regions of a-component DNA.

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Ubiquitous, interspersed repeated sequences in mammalian genomes.

Cited by 489 publications

References 30 publications

A Helitron-Like Transposon Superfamily from Lepidoptera Disrupts (GAAA)n Microsatellites and is Responsible for Flanking Sequence Similarity within a Microsatellite Family

A Helitron-Like Transposon Superfamily from Lepidoptera Disrupts (GAAA)n Microsatellites and is Responsible for Flanking Sequence Similarity within a Microsatellite Family

Repetitive sequences in the rat genome that have cleavage sites for the restriction endonuclease Taq I.

Interspersed repeated sequences in the African green monkey genome that are homologous to the human Alu family

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