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Genome-wide development and deployment of informativeintron-spanning and intron-length polymorphism markers for genomics-assisted breeding applications in chickpea.

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Title Genome-wide development and deployment of informativeintron-spanning and intron-length polymorphism markers for genomics-assisted breeding applications in chickpea.
Not Available
 
Creator Rishi Srivastava
Deepak Bajaj
Yogesh K Sayal
Prabina K Meher
Hari D Upadhyaya
Rajendra Kumar
Shailesh Tripathi
Chellapilla Bharadwaj
Atmakuri R Rao
Swarup K Parida
 
Subject Foot-and-mouth disease
high genetic variability
miRNA
simulated nucleotide sequences (SNSs)
FMDV
 
Description Not Available
Foot-and-mouth disease (FMD) endangers a large number of livestock populations across the globe being a highly contagious viral infection in wild and domestic cloven-hoofed animals. It adversely affects the socioeconomic status of millions of households. Vaccination has been used to protect animals against FMD virus (FMDV) to some extent but the effectiveness of available vaccines has been decreased due to high genetic variability in the FMDV genome. Another key aspect that the current vaccines are not favored is they do not provide the ability to differentiate between infected and vaccinated animals. Thus, RNA interference (RNAi) being a potential strategy to control virus replication, has opened up a new avenue for controlling the viral transmission. Hence, an attempt has been made here to establish the role of RNAi in therapeutic developments for FMD by computationally identifying (i) microRNA (miRNA) targets in FMDV using target prediction algorithms, (ii) targetable genomic regions in FMDV based on their dissimilarity with the host genome and, (iii) plausible anti-FMDV miRNA-like simulated nucleotide sequences (SNSs). The results revealed 12 mature host miRNAs that have 284 targets in 98 distinct FMDV genomic sequences. Wet-lab validation for anti-FMDV properties of 8 host miRNAs was carried out and all were observed to confer variable magnitude of antiviral effect. In addition, 14 miRBase miRNAs were found with better target accessibility in FMDV than that of Bostaurus. Further, 8 putative targetable regions having sense strand properties of siRNAs were identified on FMDV genes that are highly dissimilar with the host genome. A total of 16 SNSs having > 90% identity with mature miRNAs were also identified that have targets in FMDV genes. The information generated from this study is populated at http://bioinformatics.iasri.res.in/fmdisc/ to cater the needs of biologists, veterinarians and animal scientists working on FMD.
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Date 2022-08-11T10:32:22Z
2022-08-11T10:32:22Z
2020-12-09
 
Type Research Paper
 
Identifier Rishi Srivastava, Deepak Bajaj, Yogesh K. Sayal, Prabina K. Meher, Hari D. Upadhyaya, Rajendra Kumar, Shailesh Tripathi, Chellapilla Bharadwaj, Atmakuri R. Rao, Swarup K. Parida, (2016). Genome-wide development and deployment of informative intron-spanning and intron-length polymorphism markers for genomics-assisted breeding applications in chickpea, Plant Science, 252, 374-387, ISSN 0168-9452,https://doi.org/10.1016/j.plantsci.2016.08.013.
Not Available
http://krishi.icar.gov.in/jspui/handle/123456789/73762
 
Language English
 
Relation Not Available;
 
Publisher Not Available