Abstract
LINE-1 is a family of repetitive DNA sequences interspersed among mammalian genes. In the mouse haploid genome there are about 100,000 LINE-1 copies. We asked if the subspecies Mus spretus and Mus domesticus have developed species-specific LINE-1 subfamilies. Sequences from 14 M. spretus LINE-1 elements were obtained and compared to M. domesticus LINE-1 sequences. Using a molecular phylogenetic tree we identified several differences shared among a subset of young repeats in one or the other species as candidates for species-specific LINE-1 variants. Species specificity was tested using oligonucleotide probes complementary to each putative species-specific variant. When hybridized to genomic DNAs, single-variant probes detected an expanded number of elements in the expected mouse. In the other species these probes detected a smaller number of matches consistent with the average rate of random divergence among LINE-1 elements. It was further found that the combination of two species-specific sequence differences in the same probe reduced the detection background in the wrong species below our detection limit.
| Original language | English (US) |
|---|---|
| Pages (from-to) | 635-643 |
| Number of pages | 9 |
| Journal | Journal of Molecular Biology |
| Volume | 219 |
| Issue number | 4 |
| DOIs | |
| State | Published - Jun 20 1991 |
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Keywords
- DNA probes
- LINE-1 repetitive DNA
- molecular phylogenetic trees
- mouse genetics
- Mus spretus
ASJC Scopus subject areas
- Virology
Cite this
Systematic identification of LINE-1 repetitive DNA sequence differences having species specificity between Mus spretus and Mus domesticus. / Rikke, Brad A.; Garvin, Lorrie D.; Hardies, Stephen C.
In: Journal of Molecular Biology, Vol. 219, No. 4, 20.06.1991, p. 635-643.Research output: Contribution to journal › Article
}
TY - JOUR
T1 - Systematic identification of LINE-1 repetitive DNA sequence differences having species specificity between Mus spretus and Mus domesticus
AU - Rikke, Brad A.
AU - Garvin, Lorrie D.
AU - Hardies, Stephen C.
PY - 1991/6/20
Y1 - 1991/6/20
N2 - LINE-1 is a family of repetitive DNA sequences interspersed among mammalian genes. In the mouse haploid genome there are about 100,000 LINE-1 copies. We asked if the subspecies Mus spretus and Mus domesticus have developed species-specific LINE-1 subfamilies. Sequences from 14 M. spretus LINE-1 elements were obtained and compared to M. domesticus LINE-1 sequences. Using a molecular phylogenetic tree we identified several differences shared among a subset of young repeats in one or the other species as candidates for species-specific LINE-1 variants. Species specificity was tested using oligonucleotide probes complementary to each putative species-specific variant. When hybridized to genomic DNAs, single-variant probes detected an expanded number of elements in the expected mouse. In the other species these probes detected a smaller number of matches consistent with the average rate of random divergence among LINE-1 elements. It was further found that the combination of two species-specific sequence differences in the same probe reduced the detection background in the wrong species below our detection limit.
AB - LINE-1 is a family of repetitive DNA sequences interspersed among mammalian genes. In the mouse haploid genome there are about 100,000 LINE-1 copies. We asked if the subspecies Mus spretus and Mus domesticus have developed species-specific LINE-1 subfamilies. Sequences from 14 M. spretus LINE-1 elements were obtained and compared to M. domesticus LINE-1 sequences. Using a molecular phylogenetic tree we identified several differences shared among a subset of young repeats in one or the other species as candidates for species-specific LINE-1 variants. Species specificity was tested using oligonucleotide probes complementary to each putative species-specific variant. When hybridized to genomic DNAs, single-variant probes detected an expanded number of elements in the expected mouse. In the other species these probes detected a smaller number of matches consistent with the average rate of random divergence among LINE-1 elements. It was further found that the combination of two species-specific sequence differences in the same probe reduced the detection background in the wrong species below our detection limit.
KW - DNA probes
KW - LINE-1 repetitive DNA
KW - molecular phylogenetic trees
KW - mouse genetics
KW - Mus spretus
UR - http://www.scopus.com/inward/record.url?scp=0025878984&partnerID=8YFLogxK
UR - http://www.scopus.com/inward/citedby.url?scp=0025878984&partnerID=8YFLogxK
U2 - 10.1016/0022-2836(91)90660-X
DO - 10.1016/0022-2836(91)90660-X
M3 - Article
C2 - 2056531
AN - SCOPUS:0025878984
VL - 219
SP - 635
EP - 643
JO - Journal of Molecular Biology
JF - Journal of Molecular Biology
SN - 0022-2836
IS - 4
ER -