Identification and Characterization of Microsatellites in Expressed Sequence Tags and Their Cross Transferability in Different Plants
Joint Authors
Haq, Shamshad ul
Jain, Rohit
Sharma, Meenakshi
Kachhwaha, Sumita
Kothari, S. L.
Source
International Journal of Genomics
Issue
Vol. 2014, Issue 2014 (31 Dec. 2014), pp.1-12, 12 p.
Publisher
Hindawi Publishing Corporation
Publication Date
2014-10-19
Country of Publication
Egypt
No. of Pages
12
Main Subjects
Abstract EN
Expressed sequence tags (EST) are potential source for the development of genic microsatellite markers, gene discovery, comparative genomics, and other genomic studies.
In the present study, 7630 ESTs were examined from NCBI for SSR identification and characterization.
A total of 263 SSRs were identified with an average density of one SSR/4.2 kb (3.4% frequency).
Analysis revealed that trinucleotide repeats (47.52%) were most abundant followed by tetranucleotide (19.77%), dinucleotide (19.01%), pentanucleotide (9.12%), and hexanucleotide repeats (4.56%).
Functional annotation was done through homology search and gene ontology, and 35 EST-SSRs were selected.
Primer pairs were designed for evaluation of cross transferability and polymorphism among 11 plants belonging to five different families.
Total 402 alleles were generated at 155 loci with an average of 2.6 alleles/locus and the polymorphic information content (PIC) ranged from 0.15 to 0.92 with an average of 0.75.
The cross transferability ranged from 34.84% to 98.06% in different plants, with an average of 67.86%.
Thus, the validation study of annotated 35 EST-SSR markers which correspond to particular metabolic activity revealed polymorphism and evolutionary nature in different families of Angiospermic plants.
American Psychological Association (APA)
Haq, Shamshad ul& Jain, Rohit& Sharma, Meenakshi& Kachhwaha, Sumita& Kothari, S. L.. 2014. Identification and Characterization of Microsatellites in Expressed Sequence Tags and Their Cross Transferability in Different Plants. International Journal of Genomics،Vol. 2014, no. 2014, pp.1-12.
https://search.emarefa.net/detail/BIM-1036696
Modern Language Association (MLA)
Haq, Shamshad ul…[et al.]. Identification and Characterization of Microsatellites in Expressed Sequence Tags and Their Cross Transferability in Different Plants. International Journal of Genomics No. 2014 (2014), pp.1-12.
https://search.emarefa.net/detail/BIM-1036696
American Medical Association (AMA)
Haq, Shamshad ul& Jain, Rohit& Sharma, Meenakshi& Kachhwaha, Sumita& Kothari, S. L.. Identification and Characterization of Microsatellites in Expressed Sequence Tags and Their Cross Transferability in Different Plants. International Journal of Genomics. 2014. Vol. 2014, no. 2014, pp.1-12.
https://search.emarefa.net/detail/BIM-1036696
Data Type
Journal Articles
Language
English
Notes
Includes bibliographical references
Record ID
BIM-1036696