{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,2,17]],"date-time":"2026-02-17T05:27:37Z","timestamp":1771306057224,"version":"3.50.1"},"reference-count":47,"publisher":"Oxford University Press (OUP)","license":[{"start":{"date-parts":[[2020,3,18]],"date-time":"2020-03-18T00:00:00Z","timestamp":1584489600000},"content-version":"vor","delay-in-days":77,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"name":"Jiangsu Collaborative Innovation Center for Modern Crop Production"},{"DOI":"10.13039\/501100012226","name":"Fundamental Research Funds for the Central Universities","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100012226","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100001809","name":"National Natural Science Foundation of China","doi-asserted-by":"publisher","award":["31571366"],"award-info":[{"award-number":["31571366"]}],"id":[{"id":"10.13039\/501100001809","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100001809","name":"National Natural Science Foundation of China","doi-asserted-by":"publisher","award":["31771477"],"award-info":[{"award-number":["31771477"]}],"id":[{"id":"10.13039\/501100001809","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100012166","name":"National Key Research and Development Program of China","doi-asserted-by":"publisher","award":["2016YFA0501704"],"award-info":[{"award-number":["2016YFA0501704"]}],"id":[{"id":"10.13039\/501100012166","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100012166","name":"National Key Research and Development Program of China","doi-asserted-by":"publisher","award":["2018YFC0310602"],"award-info":[{"award-number":["2018YFC0310602"]}],"id":[{"id":"10.13039\/501100012166","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2020,1,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Non-coding RNAs (ncRNAs) are recognized as key regulatory molecules in many biological processes. Accumulating evidence indicates that ncRNA-related mechanisms play important roles in plant stress responses. Although abundant plant stress-responsive ncRNAs have been identified, these experimentally validated results have not been gathered into a single public domain archive. Therefore, we established PncStress by curating experimentally validated stress-responsive ncRNAs in plants, including microRNAs, long non-coding RNAs and circular RNAs. The current version of PncStress contains 4227 entries from 114 plants covering 48 biotic and 91 abiotic stresses. For each entry, PncStress has biological information and network visualization. Serving as a manually curated database, PncStress will become a valuable resource in support of plant stress response research.<\/jats:p>","DOI":"10.1093\/database\/baaa001","type":"journal-article","created":{"date-parts":[[2020,1,3]],"date-time":"2020-01-03T20:19:15Z","timestamp":1578082755000},"source":"Crossref","is-referenced-by-count":26,"title":["PncStress: a manually curated database of experimentally validated stress-responsive non-coding RNAs in plants"],"prefix":"10.1093","volume":"2020","author":[{"given":"Wenyi","family":"Wu","sequence":"first","affiliation":[{"name":"Department of Bioinformatics, State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou 310058, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Yan","family":"Wu","sequence":"first","affiliation":[{"name":"Department of Bioinformatics, State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou 310058, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Dahui","family":"Hu","sequence":"first","affiliation":[{"name":"Department of Bioinformatics, State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou 310058, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Yincong","family":"Zhou","sequence":"first","affiliation":[{"name":"Department of Bioinformatics, State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou 310058, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Yanshi","family":"Hu","sequence":"first","affiliation":[{"name":"Department of Bioinformatics, State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou 310058, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Yujie","family":"Chen","sequence":"first","affiliation":[{"name":"Department of Bioinformatics, State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou 310058, China"},{"name":"College of Life Sciences and Food Engineering, Inner Mongolia University for the Nationalities, Tongliao 028043, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Ming","family":"Chen","sequence":"first","affiliation":[{"name":"Department of Bioinformatics, State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou 310058, China"},{"name":"College of Life Sciences and Food Engineering, Inner Mongolia University for the Nationalities, Tongliao 028043, China"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"286","published-online":{"date-parts":[[2020,3,17]]},"reference":[{"key":"2020031722081761300_ref1","doi-asserted-by":"crossref","first-page":"9643","DOI":"10.3390\/ijms14059643","article-title":"Physiological, biochemical, and molecular mechanisms of heat stress tolerance in plants","volume":"14","author":"Hasanuzzaman","year":"2013","journal-title":"Int. J. Mol. Sci."},{"key":"2020031722081761300_ref2","doi-asserted-by":"crossref","first-page":"2827","DOI":"10.1093\/jxb\/erv099","article-title":"ROS and RNS in plant physiology: an overview","volume":"66","author":"Del Rio","year":"2015","journal-title":"J. Exp. Bot."},{"key":"2020031722081761300_ref3","doi-asserted-by":"crossref","first-page":"515","DOI":"10.3390\/ijms19020515","article-title":"Plant responses to pathogen attack: small RNAs in focus","volume":"19","author":"Islam","year":"2018","journal-title":"Int. J. Mol. Sci."},{"key":"2020031722081761300_ref4","doi-asserted-by":"crossref","first-page":"759","DOI":"10.1101\/gad.1410506","article-title":"Post-transcriptional small RNA pathways in plants: mechanisms and regulations","volume":"20","author":"Vaucheret","year":"2006","journal-title":"Genes Dev."},{"key":"2020031722081761300_ref5","doi-asserted-by":"crossref","first-page":"57","DOI":"10.3389\/fpls.2015.00057","article-title":"Post-transcriptional and post-translational regulations of drought and heat response in plants: a spider's web of mechanisms","volume":"6","author":"Guerra","year":"2015","journal-title":"Front. Plant Sci."},{"key":"2020031722081761300_ref6","doi-asserted-by":"crossref","first-page":"3737","DOI":"10.3390\/ijms19123737","article-title":"Regulating the regulators: the control of transcription factors in plant defense signaling","volume":"19","author":"Ng","year":"2018","journal-title":"Int. J. Mol. Sci."},{"key":"2020031722081761300_ref7","doi-asserted-by":"crossref","first-page":"784","DOI":"10.1016\/S0960-9822(03)00281-1","article-title":"Negative feedback regulation of dicer-Like1 in Arabidopsis by microRNA-guided mRNA degradation","volume":"13","author":"Xie","year":"2003","journal-title":"Curr. Biol."},{"key":"2020031722081761300_ref8","doi-asserted-by":"crossref","first-page":"1279","DOI":"10.1016\/j.cell.2005.11.035","article-title":"Endogenous siRNAs derived from a pair of natural cis-antisense transcripts regulate salt tolerance in Arabidopsis","volume":"123","author":"Borsani","year":"2005","journal-title":"Cell"},{"key":"2020031722081761300_ref9","doi-asserted-by":"crossref","first-page":"521","DOI":"10.1016\/j.molcel.2012.08.032","article-title":"Stress-induced alternative splicing provides a mechanism for the regulation of microRNA processing in Arabidopsis thaliana","volume":"48","author":"Yan","year":"2012","journal-title":"Mol. Cell"},{"key":"2020031722081761300_ref10","doi-asserted-by":"crossref","first-page":"901","DOI":"10.1038\/35002607","article-title":"The 21-nucleotide let-7 RNA regulates developmental timing in Caenorhabditis elegans","volume":"403","author":"Reinhart","year":"2000","journal-title":"Nature"},{"key":"2020031722081761300_ref11","doi-asserted-by":"crossref","first-page":"950","DOI":"10.1126\/science.286.5441.950","article-title":"A species of small antisense RNA in posttranscriptional gene silencing in plants","volume":"286","author":"Hamilton","year":"1999","journal-title":"Science"},{"key":"2020031722081761300_ref12","doi-asserted-by":"crossref","first-page":"853","DOI":"10.1126\/science.1064921","article-title":"Identification of novel genes coding for small expressed RNAs","volume":"294","author":"Lagos-Quintana","year":"2001","journal-title":"Science"},{"key":"2020031722081761300_ref13","doi-asserted-by":"crossref","first-page":"439","DOI":"10.1016\/j.tig.2014.08.004","article-title":"Volatile evolution of long noncoding RNA repertoires: mechanisms and biological implications","volume":"30","author":"Kapusta","year":"2014","journal-title":"Trends Genet."},{"key":"2020031722081761300_ref14","doi-asserted-by":"crossref","first-page":"141","DOI":"10.1261\/rna.035667.112","article-title":"Circular RNAs are abundant, conserved, and associated with ALU repeats","volume":"19","author":"Jeck","year":"2013","journal-title":"RNA"},{"key":"2020031722081761300_ref15","doi-asserted-by":"crossref","first-page":"262","DOI":"10.1016\/S1360-1385(01)01946-X","article-title":"Abiotic stress signalling pathways: specificity and cross-talk","volume":"6","author":"Knight","year":"2001","journal-title":"Trends Plant Sci."},{"key":"2020031722081761300_ref16","doi-asserted-by":"crossref","first-page":"1041","DOI":"10.1111\/j.1365-313X.2010.04124.x","article-title":"Research on plant abiotic stress responses in the post-genome era: past, present and future","volume":"61","author":"Hirayama","year":"2010","journal-title":"Plant J."},{"key":"2020031722081761300_ref17","doi-asserted-by":"crossref","first-page":"111","DOI":"10.1016\/j.bbrc.2013.05.086","article-title":"Long noncoding RNAs: new regulators in plant development","volume":"436","author":"Zhang","year":"2013","journal-title":"Biochem. Biophys. Res. Commun."},{"key":"2020031722081761300_ref18","doi-asserted-by":"crossref","first-page":"943","DOI":"10.1007\/s00425-012-1693-z","article-title":"Non-coding RNAs in the plant response to abiotic stress","volume":"236","author":"Contreras-Cubas","year":"2012","journal-title":"Planta"},{"key":"2020031722081761300_ref19","doi-asserted-by":"crossref","first-page":"1213","DOI":"10.3389\/fpls.2016.01213","article-title":"Regulation of non-coding RNAs in heat stress responses of plants","volume":"7","author":"Zhao","year":"2016","journal-title":"Front. Plant Sci."},{"key":"2020031722081761300_ref20","doi-asserted-by":"crossref","first-page":"196","DOI":"10.1016\/j.tplants.2012.01.010","article-title":"Functions of microRNAs in plant stress responses","volume":"17","author":"Sunkar","year":"2012","journal-title":"Trends Plant Sci."},{"key":"2020031722081761300_ref21","doi-asserted-by":"crossref","first-page":"481","DOI":"10.1111\/j.1365-3040.2009.02048.x","article-title":"Post-transcriptional gene regulation of salinity and drought responses by plant microRNAs","volume":"33","author":"Covarrubias","year":"2010","journal-title":"Plant Cell Environ."},{"key":"2020031722081761300_ref22","doi-asserted-by":"crossref","first-page":"787","DOI":"10.1016\/j.molcel.2004.05.027","article-title":"Computational identification of plant microRNAs and their targets, including a stress-induced miRNA","volume":"14","author":"Jones-Rhoades","year":"2004","journal-title":"Mol. Cell"},{"key":"2020031722081761300_ref23","doi-asserted-by":"crossref","first-page":"2238","DOI":"10.1105\/tpc.108.059444","article-title":"The Arabidopsis NFYA5 transcription factor is regulated transcriptionally and posttranscriptionally to promote drought resistance","volume":"20","author":"Li","year":"2008","journal-title":"Plant Cell"},{"key":"2020031722081761300_ref24","doi-asserted-by":"crossref","first-page":"585","DOI":"10.1016\/j.bbrc.2007.01.022","article-title":"Identification of drought-induced microRNAs in rice","volume":"354","author":"Zhao","year":"2007","journal-title":"Biochem. Biophys. Res. Commun."},{"key":"2020031722081761300_ref25","doi-asserted-by":"crossref","first-page":"705","DOI":"10.1007\/s00425-009-1078-0","article-title":"miR398 and miR408 are up-regulated in response to water deficit in Medicago truncatula","volume":"231","author":"Trindade","year":"2010","journal-title":"Planta"},{"key":"2020031722081761300_ref26","article-title":"tasiRNA-ARF pathway moderates floral architecture in Arabidopsis plants subjected to drought stress","volume-title":"Biomed Res Int.","author":"Matsui","year":"2014"},{"key":"2020031722081761300_ref27","doi-asserted-by":"crossref","first-page":"799","DOI":"10.1038\/nature08618","article-title":"Cold-induced silencing by long antisense transcripts of an Arabidopsis Polycomb target","volume":"462","author":"Swiezewski","year":"2009","journal-title":"Nature"},{"key":"2020031722081761300_ref28","doi-asserted-by":"crossref","first-page":"76","DOI":"10.1126\/science.1197349","article-title":"Vernalization-mediated epigenetic silencing by a long intronic noncoding RNA","volume":"331","author":"Heo","year":"2011","journal-title":"Science"},{"key":"2020031722081761300_ref29","doi-asserted-by":"crossref","first-page":"10359","DOI":"10.1073\/pnas.1409457111","article-title":"Arabidopsis noncoding RNA mediates control of photomorphogenesis by red light","volume":"111","author":"Wang","year":"2014","journal-title":"Proc. Natl. Acad. Sci. U. S. A."},{"key":"2020031722081761300_ref30","doi-asserted-by":"crossref","first-page":"345","DOI":"10.1007\/978-981-13-1426-1_27","article-title":"Circular RNAs and plant stress responses","volume":"1087","author":"Litholdo","year":"2018","journal-title":"Adv. Exp. Med. Biol."},{"key":"2020031722081761300_ref31","doi-asserted-by":"crossref","first-page":"D982","DOI":"10.1093\/nar\/gku1162","article-title":"PNRD: a plant non-coding RNA database","volume":"43","author":"Yi","year":"2015","journal-title":"Nucleic Acids Res."},{"key":"2020031722081761300_ref32","doi-asserted-by":"crossref","first-page":"D203","DOI":"10.1093\/nar\/gkv1252","article-title":"NONCODE 2016: an informative and valuable data source of long non-coding RNAs","volume":"44","author":"Zhao","year":"2016","journal-title":"Nucleic Acids Res."},{"key":"2020031722081761300_ref33","doi-asserted-by":"crossref","first-page":"D168","DOI":"10.1093\/nar\/gku988","article-title":"lncRNAdb v2.0: expanding the reference database for functional long noncoding RNAs","volume":"43","author":"Quek","year":"2015","journal-title":"Nucleic Acids Res."},{"key":"2020031722081761300_ref34","doi-asserted-by":"crossref","first-page":"33","DOI":"10.1186\/1471-2229-13-33","article-title":"PASmiR: a literature-curated database for miRNA molecular regulation in plant response to abiotic stress","volume":"13","author":"Zhang","year":"2013","journal-title":"BMC Plant Biol."},{"key":"2020031722081761300_ref35","doi-asserted-by":"crossref","first-page":"D100","DOI":"10.1093\/nar\/gkx677","article-title":"EVLncRNAs: a manually curated database for long non-coding RNAs validated by low-throughput experiments","volume":"46","author":"Zhou","year":"2018","journal-title":"Nucleic Acids Res."},{"key":"2020031722081761300_ref36","article-title":"CircFunBase: a database for functional circular RNAs","volume":"36","author":"Meng","year":"2019","journal-title":"Database"},{"key":"2020031722081761300_ref37","doi-asserted-by":"crossref","first-page":"26","DOI":"10.1186\/1748-7188-6-26","article-title":"ViennaRNA package 2.0","volume":"6","author":"Lorenz","year":"2011","journal-title":"Algorithms Mol. Biol."},{"key":"2020031722081761300_ref38","doi-asserted-by":"crossref","first-page":"W49","DOI":"10.1093\/nar\/gky316","article-title":"psRNATarget: a plant small RNA target analysis server (2017 release)","volume":"46","author":"Dai","year":"2018","journal-title":"Nucleic Acids Res."},{"key":"2020031722081761300_ref39","doi-asserted-by":"crossref","first-page":"284","DOI":"10.1093\/bioinformatics\/btu628","article-title":"PhaseTank: genome-wide computational identification of phasiRNAs and their regulatory cascades","volume":"31","author":"Guo","year":"2015","journal-title":"Bioinformatics (Oxford England)"},{"key":"2020031722081761300_ref40","doi-asserted-by":"crossref","first-page":"889","DOI":"10.1093\/bioinformatics\/btr020","article-title":"Dalliance: interactive genome viewing on the web","volume":"27","author":"Down","year":"2011","journal-title":"Bioinformatics"},{"key":"2020031722081761300_ref41","doi-asserted-by":"crossref","first-page":"D1178","DOI":"10.1093\/nar\/gkr944","article-title":"Phytozome: a comparative platform for green plant genomics","volume":"40","author":"Goodstein","year":"2012","journal-title":"Nucleic Acids Res."},{"key":"2020031722081761300_ref42","doi-asserted-by":"crossref","first-page":"2922","DOI":"10.1093\/molbev\/msz185","article-title":"Sequenceserver: a modern graphical user interface for custom BLAST databases","volume":"36","author":"Priyam","year":"2019","journal-title":"Mol. Biol. Evol."},{"key":"2020031722081761300_ref43","doi-asserted-by":"crossref","first-page":"D68","DOI":"10.1093\/nar\/gkt1181","article-title":"miRBase: annotating high confidence microRNAs using deep sequencing data","volume":"42","author":"Kozomara","year":"2014","journal-title":"Nucleic Acids Res."},{"key":"2020031722081761300_ref44","doi-asserted-by":"crossref","first-page":"2192","DOI":"10.3389\/fpls.2017.02192","article-title":"Salicylic acid perturbs sRNA-gibberellin regulatory network in immune response of potato to Potato virus Y infection","volume":"8","author":"Kriznik","year":"2017","journal-title":"Front. Plant Sci."},{"key":"2020031722081761300_ref45","doi-asserted-by":"crossref","first-page":"D1250","DOI":"10.1093\/nar\/gky1206","article-title":"RNAcentral: a hub of information for non-coding RNA sequences","volume":"47","author":"The RNAcentral Consortium","year":"2019","journal-title":"Nucleic Acids Res."},{"key":"2020031722081761300_ref46","doi-asserted-by":"crossref","first-page":"D1009","DOI":"10.1093\/nar\/gkw916","article-title":"PceRBase: a database of plant competing endogenous RNA","volume":"45","author":"Yuan","year":"2017","journal-title":"Nucleic Acids Res."},{"key":"2020031722081761300_ref47","doi-asserted-by":"crossref","first-page":"290","DOI":"10.1093\/bioinformatics\/btu633","article-title":"MTide: an integrated tool for the identification of miRNA-target interaction in plants","volume":"31","author":"Zhang","year":"2015","journal-title":"Bioinformatics"}],"container-title":["Database"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/academic.oup.com\/database\/article-pdf\/doi\/10.1093\/database\/baaa001\/32923924\/baaa001.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"http:\/\/academic.oup.com\/database\/article-pdf\/doi\/10.1093\/database\/baaa001\/32923924\/baaa001.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2020,3,18]],"date-time":"2020-03-18T02:08:37Z","timestamp":1584497317000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/database\/article\/doi\/10.1093\/database\/baaa001\/5809233"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2020,1,1]]},"references-count":47,"URL":"https:\/\/doi.org\/10.1093\/database\/baaa001","relation":{},"ISSN":["1758-0463"],"issn-type":[{"value":"1758-0463","type":"electronic"}],"subject":[],"published-other":{"date-parts":[[2020]]},"published":{"date-parts":[[2020,1,1]]},"article-number":"baaa001"}}