Identification, sequence analysis of ribosomal protein SA in Iranian water buffalo and comparison with some other species

Precise comparisons of mammalian gene maps require loci as landmarks for conserved chromosomal segments. One of the conserved genes is ribosomal protein SA. In this study, a part of ribosomal protein SA to genome river buffalo was detected by cloning of RAPD fragments for the first time. Blood samples of eighty individuals from different populations of Iranian water buffalo were taken and following DNA extraction, PCR was optimized for RAPD primers. Fragments which defined stable in different samples were selected and purified. RAPD-PCR fragments were ligated into pDrive TA cloning vector and transformed into DH5α competent cells. Sequencing was performed and edited, and then they were analyzed by NCBI-BLASTN program. BLAST results showed that one of fragments which related to RP1 (5'GGGACGTCTC3') has high similarity with ribosomal protein SA gene. The sequence aligned with the same sequences of cattle, pig, horse, chimpanzee, baboon, canis familiaris, human and Rhesus monkey by Clustal W software and then phylogeny tree was constructed. Results showed that the homology of this sequence with the same sequence in cattle, pig, horse, chimpanzee, baboon, canis familiaris, human and Rhesus monkey were 93%, 61%,60%, 62%, 62%, 62%, 62%, and 60%, respectively. The GenBank accession number of this sequence is GQ452383, the results of this study extended the water buffalo's physical map.