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Identification and evolutionary analysis of polycistronic miRNA clusters in domesticated and wild wheat

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Title Identification and evolutionary analysis of polycistronic miRNA clusters in domesticated and wild wheat
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Creator Singh, Amit Kumar
Singh, Nidhi
Kumar, Sundeep
Kumari, Jyoti
Singh, Rakesh
Gaba, Sonam
Yadav, Mahesh C.
Grover, Monendra
Chaurasia, Shiksha
Kumar, Rajesh
 
Subject miRNA
Wheat genome
Evolution
Polycistronic miRNA
 
Description The authors thank Director ICAR-NBPGR, New Delhi for providing lab facilities to carry out this work. This work was supported by the Indian Council of Agriculture Research-National Innovations in Climate Resilient Agriculture project scheme (Grant number 1006607).
MicroRNAs are similar to 22 nucleotide long non-coding RNAs that regulate gene expression at posttranscriptional level. Genome-wide analysis was performed to identify polycistronic miRNAs from wheat. Total 89 polycistronic miRNAs were identified in bread wheat which were distributed on three component sub-genomes (A = 26, B = 33 and D = 30). Except some, most of the identified polycistronic miRNAs were also present in other cultivated and wild wheat species. Expression of 11 identified polycistronic miRNAs could be validated using previously assembled transcriptomes, RNA-seq/s-RNA seq data of cultivated and wild wheats and RT-PCR. Polycistronic miRNAs orthologs were also localized on rice and Brachypodium genomes. As a case study, we also analyzed molecular evolution of miR395 family polycistrons in wheat. Both tandem and segmental duplications contributed to expansion of miR395 family polycistrons. Our findings provide a comprehensive view on wheat polycitronic miRNAs that will enable their in-depth functional analysis in the future.
Indian Council of Agriculture Research-National Innovations in Climate Resilient Agriculture project scheme [1006607]
 
Date 2020-08-01T03:50:44Z
2020-08-01T03:50:44Z
2020-05
 
Type Article
 
Identifier Singh, Amit Kumar; Singh, Nidhi; Kumar, Sundeep; Kumari, Jyoti; Singh, Rakesh; Gaba, Sonam; Yadav, Mahesh C.; Grover, Monendra; Chaurasia, Shiksha; Kumar, Rajesh. Identification and evolutionary analysis of polycistronic miRNA clusters in domesticated and wild wheat, GENOMICS, 112 (3), 2334-2348. doi:10.1016/j.ygeno.2020.01.005
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http://krishi.icar.gov.in/jspui/handle/123456789/38862
 
Language English
 
Relation Not Available
 
Publisher GENOMICS, ACADEMIC PRESS INC ELSEVIER SCIENCE, 525 B ST, STE 1900, SAN DIEGO, CA 92101-4495 USA