In silico genome-wide identification and analysis of microsatellite repeats in the largest RNA virus family (Closteroviridae)

Biju GEORGE; Binu GEORGE; Mayur AWASTHI; RAM NAGEENA SINGH

Makale detayları

In silico genome-wide identification and analysis of microsatellite repeats in the largest RNA virus family (Closteroviridae)

Yazarlar:

Biju GEORGE | Binu GEORGE | Mayur AWASTHI | RAM NAGEENA SINGH

Yayıncı:

TUBITAK

Dergi:

Turkish Journal of Biology 2016 Vol.40 Issue 3, pp.589-599

Belge Tipi:

Makale

Yayın Tarihi:

5/2016

Belge Dili:

Türkçe

Document ID (Org No.):

2000811664

Sıklık:

İki Aylık

eISSN:

1303-6092

pISSN:

1300-0152

Özet:

 

Microsatellites are known to exhibit ubiquitous presence across all kingdoms of life, including viruses. Members of the family Closteroviridae are the largest RNA viruses and severely affect different agricultural crops worldwide, including1397645907citrus, grapevine, and vegetables. Here we identified and systematically analyzed the nature and distribution of both simple and complex microsatellites present in the complete genome of 36 species belonging to Closteroviridae. Our results showed, in all analyzed genomes, that neither genome size nor GC content had any influence on number, relative abundance, or relative density of microsatellites. For each genome, dinucleotide repeats were found to be highly predominant and AT/TA and AG/GA were the two most abundant dinucleotide repeat motifs. Repeats larger than trinucleotide were relatively rare in these viral genomes. Comparative study of occurrence, abundance, and density of microsatellites among available RNA and DNA viral genomes indicated that simple repeats were less abundant in genomes of Closteroviridae. To our knowledge, this is the first analysis of microsatellites occurring in the largest viral genome that infects plants. Characterization of such variations in repeat sequences would be important in deciphering the origin, mutational processes, and role of repeat sequences in viral genomes.

Makale detayları

In silico genome-wide identification and analysis of microsatellite repeats in the largest RNA virus family (Closteroviridae)

Yazarlar: Biju GEORGE | Binu GEORGE | Mayur AWASTHI | RAM NAGEENA SINGH

Yayıncı: TUBITAK

Dergi: Turkish Journal of Biology 2016 Vol.40 Issue 3, pp.589-599

Belge Tipi: Makale

Yayın Tarihi: 5/2016

Belge Dili: Türkçe

Document ID (Org No.): 2000811664

Sıklık: İki Aylık

eISSN: 1303-6092

pISSN: 1300-0152

Sayı

Yazarlar:

Biju GEORGE | Binu GEORGE | Mayur AWASTHI | RAM NAGEENA SINGH

Yayıncı:

TUBITAK

Dergi:

Turkish Journal of Biology 2016 Vol.40 Issue 3, pp.589-599

Belge Tipi:

Makale

Yayın Tarihi:

5/2016

Belge Dili:

Türkçe

Document ID (Org No.):

2000811664

Sıklık:

İki Aylık

eISSN:

1303-6092

pISSN:

1300-0152