Novel MicroRNAs and Their Functional Targets from Phytophthora infestans and Phytophthora cinnamomi

Author:

Varghese Binta1,V Ravisankar1,Mathew Deepu1ORCID

Affiliation:

1. Bioinformatics Centre, Kerala Agricultural University, Thrissur – 680 656, India

Abstract

Background: Even though miRNAs play viral roles in developmental biology by regulating the translation of mRNAs, they are poorly studied in oomycetes, especially in plant pathogen Phytophthora. Objective: The study was aimed to predict and identify the putative miRNAs and their targets in Phytophthora infestans and Phytophthora cinnamomi. Methods: Homology based comparative method was used to identify the unique miRNA sequences in P. infestans and P. cinnamomi with 148,689 EST and TSA sequences of these species. Secondary structure prediction of sRNAs for the 76 resultant sequences has been performed with MFOLD tool and their targets were predicted using psRNAtarget. Result: Novel miRNAs, miR-8210 and miR-4968 were predicted from P. infestans and P. cinnamomi, respectively along with their structural features. The newly identified miRNAs were identified to play important roles in gene regulation, with few of their target genes predicted as transcription factors, tumor suppressor genes, stress responsive genes, DNA repairing genes etc. Conclusion: The miRNAs and their targets identified have opened new interference and editing targets for the development of Phytophthora resistant crop varieties.

Publisher

Bentham Science Publishers Ltd.

Subject

Genetics (clinical),Genetics

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