Phylogenetic information in inter-SINE and inter-SSR fingerprints of the Artiodactyla and evolution of the Bov-tA SINE

Various interspersed repeated sequences and elements (IRSs) can be utilized to generate PCR-based multilocus fingerprint profiles by amplifying the interelement segments, using primers matching the elements themselves. We assessed the utility of inter-IRS fingerprinting in phylogenetic comparisons a...

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Published in:Heredity 2000-01, Vol.84 (1), p.37-45
Main Authors: Kostia, Silja, Ruohonen-Lehto, Marja, Väinölä, Risto, Varvio, Sirkka-Liisa
Format: Article
Language:English
Subjects:
Animals
Artiodactyla
Artiodactyla - genetics
Artiodactyla - physiology
Base Sequence
Biomedical and Life Sciences
Biomedicine
Bov‐tA
Cattle
Cervidae
Cytogenetics
DNA Fingerprinting - methods
Ecology
Evolution, Molecular
Evolutionary Biology
fingerprinting
Human Genetics
microsatellite
Microsatellite Repeats - genetics
Molecular Sequence Data
Odocoileus
original-article
Phylogeny
Plant Genetics and Genomics
Polymerase Chain Reaction - methods
Rangifer
RNA, Transfer - genetics
ruminant
Sheep - genetics
Short Interspersed Nucleotide Elements - genetics
SINE
Swine - genetics
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description Various interspersed repeated sequences and elements (IRSs) can be utilized to generate PCR-based multilocus fingerprint profiles by amplifying the interelement segments, using primers matching the elements themselves. We assessed the utility of inter-IRS fingerprinting in phylogenetic comparisons among six artiodactyl species using several primers derived from two abundant genomic components: the Bov-tA short interspersed nuclear elements (SINEs) and simple sequence repeats or microsatellites (SSRs). Character- and distance-based analyses of the fingerprint data produced trees conforming to the established phylogenetic relationships of species. The strength of phylogenetic signal from different primers varied; combining data from different experiments resulted in robust trees. Within the Cervidae, the hierarchical relationship [( Odocoileus , Rangifer ) Alces ] was strongly supported. Both methods appear useful tools for systematic studies at time scales 25 Myr ago, which is in line with the observed fingerprint distributions.
doi_str_mv 10.1046/j.1365-2540.2000.00629.x
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To elucidate the material basis of inter-SINE fingerprints, we obtained the first sequences of the ‘bovid’ Bov-tA element also from two cervids (reindeer and white-tailed deer) and analysed their relationship to a number of paralogous bovid elements. The differences among sequences, both intra- and interspecific, were relatively high (mean 18.5%); the sequences showed no clear clustering with the species from which they had been isolated. 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source Nature
subjects Animals
Artiodactyla
Artiodactyla - genetics
Artiodactyla - physiology
Base Sequence
Biomedical and Life Sciences
Biomedicine
Bov‐tA
Cattle
Cervidae
Cytogenetics
DNA Fingerprinting - methods
Ecology
Evolution, Molecular
Evolutionary Biology
fingerprinting
Human Genetics
microsatellite
Microsatellite Repeats - genetics
Molecular Sequence Data
Odocoileus
original-article
Phylogeny
Plant Genetics and Genomics
Polymerase Chain Reaction - methods
Rangifer
RNA, Transfer - genetics
ruminant
Sheep - genetics
Short Interspersed Nucleotide Elements - genetics
SINE
Swine - genetics
title Phylogenetic information in inter-SINE and inter-SSR fingerprints of the Artiodactyla and evolution of the Bov-tA SINE
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