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In silico mining of conserved miRNAs of Indian catfish Clarias batrachus (Linnaeus, 1758) from the contigs, ESTs, and BAC end sequences

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Title In silico mining of conserved miRNAs of Indian catfish Clarias batrachus (Linnaeus, 1758) from the contigs, ESTs, and BAC end sequences
Not Available
 
Creator Suyash Agarwal
N S Nagpure
Prachi Srivastava
Ravindra Kumar
Manmohan Pandey
Shreya Srivastava
J K Jena
P Das
Basdeo Kushwaha
 
Subject MicroRNAs (miRNAs)
C. batrachus
In silico mining
.Putative genes
Target prediction
 
Description Not Available
MicroRNAs are small non-coding RNAs which play significant role in RNA interference. The present work deals with mining of the conserved miRNA and their target genes from the contigs, ESTs, and BAC end sequences of commercially important catfish, Clarias batrachus, from India. A total of 138, 1 and 1 conserved pre-miRNA sequences, were mined from the contigs, ESTs, and BAC end sequences, respectively. The analysis of families of the conserved pre-miRNA revealed conservation of the fish-specific family mir-430 and other important families, such as mir-455, let-7, mir-133, and mir-137. The mir-455 is involved in hypoxia signaling, let-7 family represents potential anti-tumor molecules involved in human cancer therapy, whereas mir-133 and mir-137 have high therapeutic potentials. Using an alternate computational in silico approach, mining of mature miRNAs resulted in identification of 210 mature miRNAs from contigs, 1 from EST, and 2 each from forward as well as reverse BAC end sequences. Target prediction of these putative miRNAs resulted in the identification of 66,758 and 18,747 target genes in C. batrachus and Danio rerio, respectively. Functional annotation of these miRNAs indicated their involvement in diverse biological functions. The findings of the present study can serve as a valuable resource for further functional genomics studies in C. batrachus.
Department of Biotechnology, Ministry of Science and Technology, Gov. of India, New Delhi, India vide Sanction Grant No. BT/PR3688/AAQ/3/571/2011
 
Date 2021-07-24T05:19:00Z
2021-07-24T05:19:00Z
2017-03
 
Type Research Paper
 
Identifier Agarwal, S., Nagpure, N.S., Srivastava, P., Kumar, R., Pandey, M., Srivastava, S., Jena, J.K., Das, P. and Kushwaha, B., 2017. In silico mining of conserved miRNAs of Indian catfish Clarias batrachus (Linnaeus, 1758) from the contigs, ESTs, and BAC end sequences. Applied biochemistry and biotechnology, 182(3), pp.956-966.
Print ISSN: 0273-2289
Electronic ISSN: 1559-0291
http://krishi.icar.gov.in/jspui/handle/123456789/49661
 
Language English
 
Relation Not Available;
 
Publisher Springer