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Title: | Simple Sequence Repeats in Organellar genomes of rice: frequency and distribution in genic and intergenic regions |
Other Titles: | Not Available |
Authors: | P. Rajendrakumar, A.K. Biswal, S.M Balachandran, K. Srinivasa Rao and R.M. Sundaram |
ICAR Data Use Licennce: | http://krishi.icar.gov.in/PDF/ICAR_Data_Use_Licence.pdf |
Author's Affiliated institute: | ICAR::Indian Institute of Rice Research |
Published/ Complete Date: | 2007-01-01 |
Project Code: | Not Available |
Keywords: | Simple sequence repeats (SSRs) Rice Mitochondrial genome Chloroplast genome |
Publisher: | Not Available |
Citation: | Rajendrakumar P, Biswal AK, Balachandran SM, Srinivasarao K, Sundaram RM. Simple sequence repeats in organellar genomes of rice: frequency and distribution in genic and intergenic regions. Bioinformatics. 2007 Jan 1;23(1):1-4. doi: 10.1093/bioinformatics/btl547. Epub 2006 Oct 31. PMID: 17077096. |
Series/Report no.: | Not Available; |
Abstract/Description: | Motivation: Simple sequence repeats (SSRs) are abundant across genomes. However, the significance of SSRs in organellar genomes of rice has not been completely understood. The availability of organellar genome sequences allows us to understand the organization of SSRs in their genic and intergenic regions. Results: We have analyzed SSRs in mitochondrial and chloroplast genomes of rice. We identified 2528 SSRs in the mitochondrial genome and average 870 SSRs in the chloroplast genomes. About 8.7% of the mitochondrial and 27.5% of the chloroplast SSRs were observed in the genic region. Dinucleotides were the most abundant repeats in genic and intergenic regions of the mitochondrial genome while mononucleotides were predominant in the chloroplast genomes. The rps and nad gene clusters of mitochondria had the maximum repeats, while the rpo and ndh gene clusters of chloroplast had the maximum repeats. We identified SSRs in both organellar genomes and validated in different cultivars and species. |
Description: | Not Available |
ISSN: | Not Available |
Type(s) of content: | Article |
Sponsors: | Not Available |
Language: | English |
Name of Journal: | Bioinformatics |
Journal Type: | International Journal |
NAAS Rating: | 11.61 |
Impact Factor: | 5.610 |
Volume No.: | 23(1) |
Page Number: | 1-4 |
Name of the Division/Regional Station: | Not Available |
Source, DOI or any other URL: | https://doi.org/10.1093/bioinformatics/btl547 |
URI: | http://krishi.icar.gov.in/jspui/handle/123456789/52601 |
Appears in Collections: | CS-IIRR-Publication |
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