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Title

Microsatellite repeat dynamics in mitochondrial genomes of phytopathogenic fungi: frequency and distribution in the genic and intergenic regions

 

Authors

Sahil Mahfooz1*, Pallavi Singh2, Deepak K Maurya2, Mahesh C Yadav3, Azram Tahoor4, Harmesh Sahay2, Arpita Srivastava2 & Anil Prakash1

 

Affiliation

1Department of Biotechnology and Bioinformatics, Barkatullah University, Bhopal 462 026, Madhya Pradesh, India; 2National Bureau of Agriculturally Important Microorganisms, Mau 275 101, Uttar Pradesh, India; 3National Research Centre on DNA Fingerprinting, National Bureau of Plant Genetic Resources, Pusa Campus, New Delhi 110 012, India; 4Department of Wildlife Science, Aligarh Muslim University, Aligarh 202002, Uttar Pradesh, India

 

Email

sahil_mahfooz@yahoo.com; *Corresponding author

 

Article Type

Hypothesis

Date

Received November 02, 2012; Accepted November 05, 2012; Published November 23, 2012

 

Abstract

The frequency and distribution of microsatellites were analyzed in the 19 mitogenomes of phytopathogenic fungi covering five phyla. Our analysis revealed that in all the mitogenomes studied, the frequency and relative abundance varied, and it was neither influenced by genome size nor by GC content. SSRs were found to be differential distributed in genic and intergenic regions. An average of 5.14 (23.6%) SSRs were present in genic sequences and 21.7 (76.4%) SSRs were located in the intergenic sequences. Relative abundance of SSRs in mitogenomes was the highest in Aspergillus tubigensis, whereas, it was the least in Phaeosphaeria nodurum, the average being 0.45. Trinucleotide repeats were the most abundant motifs in the genic and intergenic regions of the mitogenomes of the phytopathogenic fungi. Among the genes, cox1 harbors the maximum SSRs, whereas cox3 and nad 7 contain the least. Based on the presence of SSRs in a particular gene, genetic relationships among individual organisms were also established.

 

Keywords

Simple sequence repeats, Comparative genomics, Mitochondria; Phytopathogenic fungi, Phylogenetics.

 

Citation

Mahfooz et al. Bioinformation 8(23): 1171-1175 (2012)
 

Edited by

P Kangueane

 

ISSN

0973-2063

 

Publisher

Biomedical Informatics

 

License

This is an Open Access article which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly credited. This is distributed under the terms of the Creative Commons Attribution License.