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IJSTR >> Volume 4 - Issue 12, December 2015 Edition



International Journal of Scientific & Technology Research  
International Journal of Scientific & Technology Research

Website: http://www.ijstr.org

ISSN 2277-8616



Bioinformatics Study On Mirror DNA In Mycobacterium Tuberculosis Using Fast Parallel Complement Blast Strategy.

[Full Text]

 

AUTHOR(S)

Munzali S. Zubair, Musa Hassan.Muhammad, R.G. Ahmad, Umar A.A

 

KEYWORDS

Keywords: Fast Parallel Complement Blast, Bioinformatics, DNA, mirror repeats, mycobacterium tuberculosis H37Rv, and Gene Sequences.

 

ABSTRACT

Abstract: Many softwares that have been used for identification DNA mirror repeats were not simple and effective for finding mirror repeats, so a new method for the identification of mirror repeats within the gene sequences in both eukaryotic and prokaryotic organisms has been developed and now is available. The method is called FAST PARALLEL COMPLEMENT BLAST which is the easiest method for observing mirror repeats in bacterial genome and other eukaryotic genome. This simple method involves only three steps: Downloading sequence of mycobacterium tuberculosis gene using NCBI in FASTA format, Making a Parallel complement, and searching for mirror repeats using BLAST which shows the homology between the original sequence and the parallel complement sequence. We explored twenty genes (20) of Mycobacterium tuberculosis H37Rv for DNA mirror repeats and the result shows that mirror repeats of 18 genes were successfully found. Furthermore, nobody knows the exact role of mirror repeats yet and detailed mechanisms and functions of most repeats are still unknown.

 

REFERENCES

[1] Pattabiraman N: Can the Double Helix Be Parallel? Biopolymers. 1986; 25(9): 16031606

[2] Dorothy M. Lang, (2007). Imperfect DNA mirror repeats in the gag gene of HIV-1 (HXB2)identify key functional domains and coincide with protein structuralelements in each of the mature proteins. Virology Journal 2007. (2007).

[3] Yo-Cheng Chang Chuan-Hsiung Chang, (2003). Common Repeat Sequences in Bacterial Genomes. Journal of Medical and Biological Engineering, 23(2): 65-72

[4] http://www.ncbi.nlm.nih.gov

[5] http://www.bioinformatics.org/sms/rev_comp.html

[6] http://blast.ncbi.nlm.nih.gov/Blast.cgi?PAGE=MegaBlast&PROGRAM=blastn&BLAS_PROGRAMS=megaBlast&PAGE_TYPE=BlastSearch&BLAST_SPEC=blast2seq&QUERY=&SUBJECTS=)