{"title":"Novel MicroRNAs and their Functional Targets from <i>Phytophthora infestans</i> and <i>Phytophthora cinnamomi</i>.","authors":"Binta Varghese, Ravisankar Valsalan, Deepu Mathew","doi":"10.2174/1389202923666211223122305","DOIUrl":null,"url":null,"abstract":"<p><strong>Background: </strong>Even though miRNAs play vital roles in developmental biology by regulating the translation of mRNAs, they are poorly studied in oomycetes, especially in the plant pathogen <i>Phytophthora</i>.</p><p><strong>Objective: </strong>The study aimed to predict and identify the putative miRNAs and their targets in <i>Phytophthora infestans</i> and <i>Phytophthora cinnamomi</i>.</p><p><strong>Methods: </strong>The homology-based comparative method was used to identify the unique miRNA sequences in <i>P. infestans</i> and <i>P. cinnamomi</i> with 148,689 EST and TSA sequences of these species. Secondary structure prediction of sRNAs for the 76 resultant sequences has been performed with the MFOLD tool, and their targets were predicted using psRNATarget.</p><p><strong>Results: </strong>Novel miRNAs, miR-8210 and miR-4968, were predicted from <i>P. infestans</i> and <i>P. cinnamomi</i>, 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 repair genes, <i>etc</i>.</p><p><strong>Conclusion: </strong>The miRNAs and their targets identified have opened new interference and editing targets for the development of <i>Phytophthora</i> resistant crop varieties.</p>","PeriodicalId":10803,"journal":{"name":"Current Genomics","volume":"23 1","pages":"41-49"},"PeriodicalIF":1.8000,"publicationDate":"2022-04-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://ftp.ncbi.nlm.nih.gov/pub/pmc/oa_pdf/5a/a7/CG-23-41.PMC9199537.pdf","citationCount":"0","resultStr":null,"platform":"Semanticscholar","paperid":null,"PeriodicalName":"Current Genomics","FirstCategoryId":"99","ListUrlMain":"https://doi.org/10.2174/1389202923666211223122305","RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"Q4","JCRName":"BIOCHEMISTRY & MOLECULAR BIOLOGY","Score":null,"Total":0}
引用次数: 0
Abstract
Background: Even though miRNAs play vital roles in developmental biology by regulating the translation of mRNAs, they are poorly studied in oomycetes, especially in the plant pathogen Phytophthora.
Objective: The study aimed to predict and identify the putative miRNAs and their targets in Phytophthora infestans and Phytophthora cinnamomi.
Methods: The 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 the MFOLD tool, and their targets were predicted using psRNATarget.
Results: 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 repair genes, etc.
Conclusion: The miRNAs and their targets identified have opened new interference and editing targets for the development of Phytophthora resistant crop varieties.
期刊介绍：
Current Genomics is a peer-reviewed journal that provides essential reading about the latest and most important developments in genome science and related fields of research. Systems biology, systems modeling, machine learning, network inference, bioinformatics, computational biology, epigenetics, single cell genomics, extracellular vesicles, quantitative biology, and synthetic biology for the study of evolution, development, maintenance, aging and that of human health, human diseases, clinical genomics and precision medicine are topics of particular interest. The journal covers plant genomics. The journal will not consider articles dealing with breeding and livestock.
Current Genomics publishes three types of articles including:
i) Research papers from internationally-recognized experts reporting on new and original data generated at the genome scale level. Position papers dealing with new or challenging methodological approaches, whether experimental or mathematical, are greatly welcome in this section.
ii) Authoritative and comprehensive full-length or mini reviews from widely recognized experts, covering the latest developments in genome science and related fields of research such as systems biology, statistics and machine learning, quantitative biology, and precision medicine. Proposals for mini-hot topics (2-3 review papers) and full hot topics (6-8 review papers) guest edited by internationally-recognized experts are welcome in this section. Hot topic proposals should not contain original data and they should contain articles originating from at least 2 different countries.
iii) Opinion papers from internationally recognized experts addressing contemporary questions and issues in the field of genome science and systems biology and basic and clinical research practices.
求助内容：
应助结果提醒方式：
京公网安备 11010802042870号
