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Genome wise identification of long terminal repeats in Bubalus bubalis

Indian Agricultural Research Journals

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Title Genome wise identification of long terminal repeats in Bubalus bubalis
 
Creator KHATRI, INDU
SHARMA, UPASNA
BANERJEE, PRIYANKA
JOSHI, JYOTI
VIJH, R K
 
Subject Buffalo; Chromosomes; Long terminal repeat; Reverse transcriptase
 
Description Bovines are important livestock species contributing towards food (milk and meat), draft power and fuel. Buffalo is important for Indian subcontinent and far East countries of Asia and Brazil. Striking difference between the cattle and buffalo is attributed to distinct novelties between them at genomic level. Long terminal repeat (LTR) retrotransposons make up a large fraction of the typical mammalian genome. The abundance of LTR retro-transposons are believed to hold major significance for genome structure and function. The present study is an effort to identify the contribution of LTR to Bubalus bubalis genome, their abundance and the distribution of LTRs was examined in the buffalo genome version Bbu_2.0–alpha using web based algorithm. The buffalo chromosomes were screened against tRNA database of Bos taurus. A total of 26,338 LTRs were observed from the buffalo genome. Chromosome 1 exhibited the maximum number of LTRs i.e. 2232 and the minimum i.e. 324 LTRs were observed in chromosome 24. It was observed that more LTRs were present on sense strand than on antisense strand. 11 LTR regions were found to be coding for the Reverse Transcriptase (RT). Target site repeats (TSR) were AT rich. The density of the LTR along the length of chromosomes revealed that the LTR are present abundantly in the middle of autosomes than at the end except chromosome X. Being source of genetic variability and having evolutionary significance, an indepth analysis of LTRs may provide a clue for the significant difference between cattle and buffalo genomes.
 
Publisher Directorate of Knowledge Management in Agriculture
 
Contributor —
 
Date 2012-04-09
 
Type info:eu-repo/semantics/article
info:eu-repo/semantics/publishedVersion
—
 
Format application/pdf
 
Identifier http://epubs.icar.org.in/ejournal/index.php/IJAnS/article/view/16691
 
Source The Indian Journal of Animal Sciences; Vol 82, No 4 (2012)
0367-8318
 
Language eng
 
Relation http://epubs.icar.org.in/ejournal/index.php/IJAnS/article/view/16691/8065
 
Rights Copyright (c) 2014 The Indian Journal of Animal Sciences