RsaI repetitive DNA in Buffalo Bubalus bubalis representing retrotransposons, conserved in bovids, are part of the functional genes

Repetitive sequences are the major components of the eukaryotic genomes. Association of these repeats with transcribing sequences and their regulation in buffalo Bubalus bubalis has remained largely unresolved. We cloned and sequenced RsaI repeat fragments pDp1, pDp2, pDp3, pDp4 of 1331, 651, 603 an...

Full description

Saved in:
Bibliographic Details
Published in:BMC genomics 2011-07, Vol.12 (1), p.338-338, Article 338
Main Authors: Pathak, Deepali, Ali, Sher
Format: Article
Language:English
Subjects:
Animals
Base Sequence
Buffaloes - genetics
Cattle
Chromosome Mapping
Deoxyribonucleases, Type II Site-Specific - metabolism
DNA - chemistry
DNA - metabolism
Exons
Genetic aspects
Genetic variation
Genome
Goats - genetics
Molecular Sequence Data
Open Reading Frames
Physiological aspects
Protection and preservation
Retroelements
Sequence Alignment
Sequence Analysis, DNA
Sheep - genetics
Transposons
Water buffalo
Citations: Items that this one cites
Items that cite this one
Online Access:Get full text
Tags: Add Tag
No Tags, Be the first to tag this record!
Description
Summary:Repetitive sequences are the major components of the eukaryotic genomes. Association of these repeats with transcribing sequences and their regulation in buffalo Bubalus bubalis has remained largely unresolved. We cloned and sequenced RsaI repeat fragments pDp1, pDp2, pDp3, pDp4 of 1331, 651, 603 and 339 base pairs, respectively from the buffalo, Bubalus bubalis. Upon characterization, these fragments were found to represent retrotransposons and part of some functional genes. The resultant clones showed cross hybridization only with buffalo, cattle, goat and sheep genomic DNA. Real Time PCR, detected ~2 × 10(4) copies of pDp1, ~ 3000 copies of pDp2 and pDp3 and ~ 1000 of pDp4 in buffalo, cattle, goat and sheep genomes, respectively. RsaI repeats are transcriptionally active in somatic tissues and spermatozoa. Accordingly, pDp1 showed maximum expression in lung, pDp2 and pDp3 both in Kidney, and pDp4 in ovary. Fluorescence in situ hybridization showed repeats to be distributed all across the chromosomes. The data suggest that RsaI repeats have been incorporated into the exonic regions of various transcribing genes, possibly contributing towards the architecture and evolution of the buffalo and related genomes. Prospects of our present work in the context of comparative and functional genomics are highlighted.
ISSN:1471-2164
1471-2164
DOI:10.1186/1471-2164-12-338