{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,5,19]],"date-time":"2026-05-19T23:31:18Z","timestamp":1779233478731,"version":"3.51.4"},"reference-count":60,"publisher":"Oxford University Press (OUP)","license":[{"start":{"date-parts":[[2018,11,16]],"date-time":"2018-11-16T00:00:00Z","timestamp":1542326400000},"content-version":"vor","delay-in-days":1,"URL":"https:\/\/academic.oup.com\/journals\/pages\/open_access\/funder_policies\/chorus\/standard_publication_model"}],"funder":[{"DOI":"10.13039\/501100001809","name":"National Science Foundation of China","doi-asserted-by":"publisher","award":["91740108"],"award-info":[{"award-number":["91740108"]}],"id":[{"id":"10.13039\/501100001809","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100004731","name":"Natural Science Foundation of Zhejiang Province","doi-asserted-by":"publisher","award":["LY17C130004"],"award-info":[{"award-number":["LY17C130004"]}],"id":[{"id":"10.13039\/501100004731","id-type":"DOI","asserted-by":"publisher"}]},{"name":"Jiangsu Collaborative Innovation Center for Modern Crop Production"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"DOI":"10.1093\/bib\/bby111","type":"journal-article","created":{"date-parts":[[2018,10,19]],"date-time":"2018-10-19T03:12:09Z","timestamp":1539918729000},"source":"Crossref","is-referenced-by-count":28,"title":["Characteristics of plant circular RNAs"],"prefix":"10.1093","author":[{"given":"Qinjie","family":"Chu","sequence":"first","affiliation":[{"name":"Institute of Crop Science, Zhejiang University, Hangzhou, China"},{"name":"Institute of Bioinformatics, Zhejiang University, Hangzhou, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Panpan","family":"Bai","sequence":"additional","affiliation":[{"name":"Institute of Crop Science, Zhejiang University, Hangzhou, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Xintian","family":"Zhu","sequence":"additional","affiliation":[{"name":"Institute of Crop Science, Zhejiang University, Hangzhou, China"},{"name":"Institute of Bioinformatics, Zhejiang University, Hangzhou, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Xingchen","family":"Zhang","sequence":"additional","affiliation":[{"name":"Institute of Crop Science, Zhejiang University, Hangzhou, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Lingfeng","family":"Mao","sequence":"additional","affiliation":[{"name":"Institute of Crop Science, Zhejiang University, Hangzhou, China"},{"name":"Institute of Bioinformatics, Zhejiang University, Hangzhou, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Qian-Hao","family":"Zhu","sequence":"additional","affiliation":[{"name":"CSIRO Agriculture and Food, Canberra, Australia"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Longjiang","family":"Fan","sequence":"additional","affiliation":[{"name":"Institute of Crop Science, Zhejiang University, Hangzhou, China"},{"name":"Institute of Bioinformatics, Zhejiang University, Hangzhou, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Chu-Yu","family":"Ye","sequence":"additional","affiliation":[{"name":"Institute of Crop Science, Zhejiang University, Hangzhou, China"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"286","published-online":{"date-parts":[[2018,11,15]]},"reference":[{"key":"key\n\t\t\t\t2018111915582396600_ref1","doi-asserted-by":"crossref","DOI":"10.1073\/pnas.73.11.3852","article-title":"Viroids are single-stranded covalently closed circular RNA molecules existing as highly base-paired rod-like structures","volume":"73","author":"Sanger","year":"1976","journal-title":"Proc Natl Acad Sci"},{"key":"key\n\t\t\t\t2018111915582396600_ref2","doi-asserted-by":"crossref","first-page":"1666","DOI":"10.1261\/rna.043687.113","article-title":"circBase: a database for circular RNAs","volume":"20","author":"Glazar","year":"2014","journal-title":"RNA"},{"key":"key\n\t\t\t\t2018111915582396600_ref3","doi-asserted-by":"crossref","first-page":"34985","DOI":"10.1038\/srep34985","article-title":"circRNADb: a comprehensive database for human circular RNAs with protein-coding annotations","volume":"6","author":"Chen","year":"2016","journal-title":"Sci Rep"},{"key":"key\n\t\t\t\t2018111915582396600_ref4","doi-asserted-by":"crossref","DOI":"10.1371\/journal.pone.0030733","article-title":"Circular RNAs are the predominant transcript isoform from hundreds of human genes in diverse cell types","volume":"7","author":"Salzman","year":"2012","journal-title":"PLoS One"},{"key":"key\n\t\t\t\t2018111915582396600_ref5","doi-asserted-by":"crossref","first-page":"1966","DOI":"10.1016\/j.celrep.2014.10.062","article-title":"Genome-wide analysis of Drosophila circular RNAs reveals their structural and sequence properties and age-dependent neural accumulation","volume":"9","author":"Westholm","year":"2014","journal-title":"Cell Rep"},{"key":"key\n\t\t\t\t2018111915582396600_ref6","doi-asserted-by":"crossref","first-page":"333","DOI":"10.1038\/nature11928","article-title":"Circular RNAs are a large class of animal RNAs with regulatory potency","volume":"495","author":"Memczak","year":"2013","journal-title":"Nature"},{"key":"key\n\t\t\t\t2018111915582396600_ref7","doi-asserted-by":"crossref","first-page":"170","DOI":"10.1016\/j.celrep.2014.12.019","article-title":"Analysis of intron sequences reveals hallmarks of circular RNA biogenesis in animals","volume":"10","author":"Ivanov","year":"2015","journal-title":"Cell Rep"},{"key":"key\n\t\t\t\t2018111915582396600_ref8","doi-asserted-by":"crossref","first-page":"148","DOI":"10.1186\/s13059-015-0706-1","article-title":"Single-cell RNA-seq transcriptome analysis of linear and circular RNAs in mouse preimplantation embryos","volume":"16","author":"Fan","year":"2015","journal-title":"Genome Biol"},{"key":"key\n\t\t\t\t2018111915582396600_ref9","doi-asserted-by":"crossref","DOI":"10.1093\/dnares\/dsx022","article-title":"Genome-wide profiling of Sus scrofa circular RNAs across nine organs and three developmental stages","volume":"24","author":"Liang","year":"2017","journal-title":"DNA Res"},{"key":"key\n\t\t\t\t2018111915582396600_ref10","doi-asserted-by":"crossref","first-page":"e90859","DOI":"10.1371\/journal.pone.0090859","article-title":"Circular RNA is expressed across the eukaryotic tree of life","volume":"9","author":"Wang","year":"2014","journal-title":"PLoS One"},{"key":"key\n\t\t\t\t2018111915582396600_ref11","doi-asserted-by":"crossref","first-page":"88","DOI":"10.1111\/nph.13585","article-title":"Widespread noncoding circular RNAs in plants","volume":"208","author":"Ye","year":"2015","journal-title":"New Phytol"},{"key":"key\n\t\t\t\t2018111915582396600_ref12","doi-asserted-by":"crossref","first-page":"2076","DOI":"10.1261\/rna.052282.115","article-title":"Transcriptome-wide investigation of circular RNAs in rice","volume":"21","author":"Lu","year":"2015","journal-title":"RNA"},{"key":"key\n\t\t\t\t2018111915582396600_ref13","doi-asserted-by":"crossref","first-page":"134","DOI":"10.1016\/j.cell.2014.09.001","article-title":"Complementary sequence-mediated exon circularization","volume":"159","author":"Zhang","year":"2014","journal-title":"Cell"},{"key":"key\n\t\t\t\t2018111915582396600_ref14","doi-asserted-by":"crossref","first-page":"1277","DOI":"10.1101\/gr.202895.115","article-title":"Diverse alternative back-splicing and alternative splicing landscape of circular RNAs","volume":"26","author":"Zhang","year":"2016","journal-title":"Genome Res"},{"key":"key\n\t\t\t\t2018111915582396600_ref15","doi-asserted-by":"crossref","first-page":"4","DOI":"10.1186\/s13059-014-0571-3","article-title":"CIRI: an efficient and unbiased algorithm for de novo circular RNA identification","volume":"16","author":"Gao","year":"2015","journal-title":"Genome Biol"},{"key":"key\n\t\t\t\t2018111915582396600_ref16","doi-asserted-by":"crossref","DOI":"10.1093\/bib\/bbx014","article-title":"Circular RNA identification based on multiple seed matching","volume":"19","author":"Gao","year":"2018","journal-title":"Brief Bioinform"},{"key":"key\n\t\t\t\t2018111915582396600_ref17","doi-asserted-by":"crossref","first-page":"126","DOI":"10.1186\/s13059-015-0690-5","article-title":"Statistically based splicing detection reveals neural enrichment and tissue-specific induction of circular RNA during human fetal development","volume":"16","author":"Szabo","year":"2015","journal-title":"Genome Biol"},{"key":"key\n\t\t\t\t2018111915582396600_ref18","doi-asserted-by":"crossref","first-page":"R34","DOI":"10.1186\/gb-2014-15-2-r34","article-title":"A multi-split mapping algorithm for circular RNA, splicing, trans-splicing and fusion detection","volume":"15","author":"Hoffmann","year":"2014","journal-title":"Genome Biol"},{"key":"key\n\t\t\t\t2018111915582396600_ref19","doi-asserted-by":"crossref","first-page":"453","DOI":"10.1038\/nbt.2890","article-title":"Detecting and characterizing circular RNAs","volume":"32","author":"Jeck","year":"2014","journal-title":"Nat Biotechnol"},{"key":"key\n\t\t\t\t2018111915582396600_ref20","doi-asserted-by":"crossref","first-page":"563","DOI":"10.1002\/wrna.1294","article-title":"Biogenesis, identification, and function of exonic circular RNAs","volume":"6","author":"Chen","year":"2015","journal-title":"Wiley Interdiscip Rev RNA"},{"key":"key\n\t\t\t\t2018111915582396600_ref21","doi-asserted-by":"crossref","first-page":"679","DOI":"10.1038\/nrg.2016.114","article-title":"Detecting circular RNAs: bioinformatic and experimental challenges","volume":"17","author":"Szabo","year":"2016","journal-title":"Nat Rev Genet"},{"key":"key\n\t\t\t\t2018111915582396600_ref22","doi-asserted-by":"crossref","DOI":"10.1371\/journal.pcbi.1005420","article-title":"A comprehensive overview and evaluation of circular RNA detection tools","volume":"13","author":"Zeng","year":"2017","journal-title":"PLoS Comput Biol"},{"key":"key\n\t\t\t\t2018111915582396600_ref23","doi-asserted-by":"crossref","first-page":"1","DOI":"10.3389\/fpls.2017.01678","article-title":"Genome-wide identification of circular RNAs in Arabidopsis thaliana","volume":"8","author":"Chen","year":"2017","journal-title":"Front Plant Sci"},{"key":"key\n\t\t\t\t2018111915582396600_ref24","doi-asserted-by":"crossref","DOI":"10.2174\/1389202918666170307161124","article-title":"Genome-wide discovery of circular RNAs in the leaf and seedling tissues of Arabidopsis thaliana","volume":"18","author":"Dou","year":"2017","journal-title":"Curr Genomics"},{"key":"key\n\t\t\t\t2018111915582396600_ref25","first-page":"1","article-title":"Identifying and characterizing the circular RNAs during the lifespan of Arabidopsis leaves","volume":"8","author":"Liu","year":"2017","journal-title":"Front Plant Sci"},{"key":"key\n\t\t\t\t2018111915582396600_ref26","doi-asserted-by":"crossref","first-page":"217","DOI":"10.1007\/s11103-017-0684-7","article-title":"Heat stress alters genome-wide profiles of circular RNAs in Arabidopsis","volume":"96","author":"Pan","year":"2018","journal-title":"Plant Mol Biol"},{"key":"key\n\t\t\t\t2018111915582396600_ref27","doi-asserted-by":"crossref","first-page":"3510","DOI":"10.1002\/1873-3468.12440","article-title":"Integrative analysis of Arabidopsis thaliana transcriptomics reveals intuitive splicing mechanism for circular RNA","volume":"590","author":"Sun","year":"2016","journal-title":"FEBS Lett"},{"key":"key\n\t\t\t\t2018111915582396600_ref28","doi-asserted-by":"crossref","first-page":"3660","DOI":"10.1002\/1873-3468.12868","article-title":"Characterization of conserved circular RNA in polyploid Gossypium species and their ancestors","volume":"591","author":"Zhao","year":"2017","journal-title":"FEBS Lett"},{"key":"key\n\t\t\t\t2018111915582396600_ref29","doi-asserted-by":"crossref","first-page":"5636","DOI":"10.1038\/s41598-017-05922-9","article-title":"Genome-wide identification and characterization of circular RNAs by high throughput sequencing in soybean","volume":"7","author":"Zhao","year":"2017","journal-title":"Sci Rep"},{"key":"key\n\t\t\t\t2018111915582396600_ref30","doi-asserted-by":"crossref","DOI":"10.3389\/fpls.2016.00776","article-title":"Identification of circular RNAs from the parental genes involved in multiple aspects of cellular metabolism in barley","volume":"7","author":"Darbani","year":"2016","journal-title":"Front Plant Sci"},{"key":"key\n\t\t\t\t2018111915582396600_ref31","doi-asserted-by":"crossref","first-page":"1055","DOI":"10.1080\/15476286.2016.1245268","article-title":"Full-length sequence assembly reveals circular RNAs with diverse non-GT\/AG splicing signals in rice","volume":"14","author":"Ye","year":"2017","journal-title":"RNA Biol"},{"key":"key\n\t\t\t\t2018111915582396600_ref32","doi-asserted-by":"crossref","first-page":"1191","DOI":"10.1007\/s00425-018-2857-2","article-title":"Transcriptome-wide identification and functional prediction of novel and flowering-related circular RNAs from trifoliate orange (Poncirus trifoliata L. Raf.)","volume":"247","author":"Zeng","year":"2018","journal-title":"Planta"},{"key":"key\n\t\t\t\t2018111915582396600_ref33","first-page":"1","article-title":"Identification and functional characterization of tomato circRNAs derived from genes involved in fruit pigment accumulation","volume":"7","author":"Tan","year":"2017","journal-title":"Sci Rep"},{"key":"key\n\t\t\t\t2018111915582396600_ref34","doi-asserted-by":"crossref","first-page":"132","DOI":"10.1016\/j.bbrc.2016.07.032","article-title":"Deciphering the roles of circRNAs on chilling injury in tomato","volume":"479","author":"Zuo","year":"2016","journal-title":"Biochem Biophys Res Commun"},{"key":"key\n\t\t\t\t2018111915582396600_ref35","doi-asserted-by":"crossref","first-page":"90","DOI":"10.1016\/j.postharvbio.2017.10.013","article-title":"Identification of circular RNAs and their targets during tomato fruit ripening","volume":"136","author":"Yin","year":"2018","journal-title":"Postharvest Biol Technol"},{"key":"key\n\t\t\t\t2018111915582396600_ref36","article-title":"Transcriptome-wide identification and characterization of potato circular RNAs in response to pectobacterium carotovorum subspecies brasiliense infection","volume":"19","author":"Zhou","year":"2018","journal-title":"Int J Mol Sci"},{"key":"key\n\t\t\t\t2018111915582396600_ref37","article-title":"Identification of circular RNAs and their targets in leaves of Triticum aestivum L. under dehydration stress. Front","volume":"7","author":"Wang","year":"2017","journal-title":"Plant Sci"},{"key":"key\n\t\t\t\t2018111915582396600_ref38","doi-asserted-by":"crossref","DOI":"10.1111\/nph.14901","article-title":"Circular RNAs mediated by transposons are associated with transcriptomic and phenotypic variation in maize","volume":"217","author":"Chen","year":"2018","journal-title":"New Phytol"},{"key":"key\n\t\t\t\t2018111915582396600_ref39","doi-asserted-by":"crossref","DOI":"10.1038\/nrm.2015.32","article-title":"The biogenesis and emerging roles of circular RNAs","volume":"17","author":"Chen","year":"2016","journal-title":"Nat Rev Mol Cell Biol"},{"key":"key\n\t\t\t\t2018111915582396600_ref40","doi-asserted-by":"crossref","first-page":"428","DOI":"10.1016\/j.molcel.2018.06.034","article-title":"The Biogenesis, functions, and challenges of circular RNAs","volume":"71","author":"Li","year":"2018","journal-title":"Mol Cell"},{"key":"key\n\t\t\t\t2018111915582396600_ref41","doi-asserted-by":"crossref","first-page":"384","DOI":"10.1038\/nature11993","article-title":"Natural RNA circles function as efficient microRNA sponges","volume":"495","author":"Hansen","year":"2013","journal-title":"Nature"},{"key":"key\n\t\t\t\t2018111915582396600_ref42","doi-asserted-by":"crossref","first-page":"792","DOI":"10.1016\/j.molcel.2013.08.017","article-title":"Circular intronic long noncoding RNAs","volume":"51","author":"Zhang","year":"2013","journal-title":"Mol Cell"},{"key":"key\n\t\t\t\t2018111915582396600_ref43","doi-asserted-by":"crossref","first-page":"256","DOI":"10.1038\/nsmb.2959","article-title":"Exon-intron circular RNAs regulate transcription in the nucleus","volume":"22","author":"Li","year":"2015","journal-title":"Nat Struct Mol Biol"},{"key":"key\n\t\t\t\t2018111915582396600_ref44","doi-asserted-by":"crossref","first-page":"55","DOI":"10.1016\/j.molcel.2014.08.019","article-title":"CircRNA biogenesis competes with pre-mRNA splicing","volume":"56","author":"Ashwal-Fluss","year":"2014","journal-title":"Mol Cell"},{"key":"key\n\t\t\t\t2018111915582396600_ref45","doi-asserted-by":"crossref","DOI":"10.1016\/j.jmb.2015.02.018","article-title":"Exon skipping is correlated with exon circularization","volume":"427","author":"Kelly","year":"2015","journal-title":"J Mol Biol"},{"key":"key\n\t\t\t\t2018111915582396600_ref46","doi-asserted-by":"crossref","DOI":"10.1038\/nplants.2017.53","article-title":"A circRNA from SEPALLATA3 regulates splicing of its cognate mRNA through R-loop formation","volume":"3","author":"Conn","year":"2017","journal-title":"Nat Plants"},{"key":"key\n\t\t\t\t2018111915582396600_ref47","doi-asserted-by":"crossref","first-page":"204","DOI":"10.1007\/s11427-017-9182-3","article-title":"A lariat-derived circular RNA is required for plant development in Arabidopsis","volume":"61","author":"Cheng","year":"2018","journal-title":"Sci China Life Sci"},{"key":"key\n\t\t\t\t2018111915582396600_ref48","doi-asserted-by":"crossref","DOI":"10.1146\/annurev.biochem.72.121801.161720","article-title":"Mechanisms of alternative pre-messenger RNA splicing","volume":"72","author":"Black","year":"2003","journal-title":"Annu Rev Biochem"},{"key":"key\n\t\t\t\t2018111915582396600_ref49","doi-asserted-by":"crossref","first-page":"12060","DOI":"10.1038\/ncomms12060","article-title":"Comprehensive identification of internal structure and alternative splicing events in circular RNAs","volume":"7","author":"Gao","year":"2016","journal-title":"Nat Commun"},{"key":"key\n\t\t\t\t2018111915582396600_ref50","doi-asserted-by":"crossref","DOI":"10.1016\/S0092-8674(00)00128-8","article-title":"Protein diversity from alternative splicing: a challenge for bioinformatics and post-genome biology","volume":"103","author":"Black","year":"2000","journal-title":"Cell"},{"key":"key\n\t\t\t\t2018111915582396600_ref51","doi-asserted-by":"crossref","DOI":"10.1016\/S0168-9525(00)02176-4","article-title":"Alternative splicing: increasing diversity in the proteomic world","volume":"17","author":"Graveley","year":"2001","journal-title":"Trends Genet"},{"key":"key\n\t\t\t\t2018111915582396600_ref52","doi-asserted-by":"crossref","DOI":"10.1101\/cshperspect.a003707","article-title":"Spliceosome structure and function","volume":"3","author":"Will","year":"2011","journal-title":"Biol Cold Spring Harb Perspect"},{"key":"key\n\t\t\t\t2018111915582396600_ref53","doi-asserted-by":"crossref","first-page":"389","DOI":"10.1016\/j.tig.2017.12.016","article-title":"Computational strategies for exploring circular RNAs","volume":"34","author":"Gao","year":"2018","journal-title":"Trends Genet"},{"key":"key\n\t\t\t\t2018111915582396600_ref54","doi-asserted-by":"crossref","DOI":"10.1016\/j.cell.2018.05.022","article-title":"A network of noncoding regulatory RNAs acts in the mammalian brain","volume":"174","author":"Kleaveland","year":"2018","journal-title":"Cell"},{"key":"key\n\t\t\t\t2018111915582396600_ref55","doi-asserted-by":"crossref","DOI":"10.1016\/j.molp.2017.03.003","article-title":"PlantcircBase: a database for plant circular RNAs","volume":"10","author":"Chu","year":"2017","journal-title":"Mol Plant"},{"key":"key\n\t\t\t\t2018111915582396600_ref56","first-page":"1","article-title":"AtCircDB: a tissue-specific database for Arabidopsis circular RNAs","author":"Ye","year":"2017","journal-title":"Brief Bioinform"},{"key":"key\n\t\t\t\t2018111915582396600_ref57","doi-asserted-by":"crossref","DOI":"10.1093\/bioinformatics\/btw496","article-title":"PcircRNA_finder: a software for circRNA prediction in plants","volume":"32","author":"Chen","year":"2016","journal-title":"Bioinformatics"},{"key":"key\n\t\t\t\t2018111915582396600_ref58","doi-asserted-by":"crossref","first-page":"679","DOI":"10.1038\/nrg.2016.114","article-title":"Detecting circular RNAs: bioinformatic and experimental challenges","volume":"17","author":"Szabo","year":"2016","journal-title":"Nat Rev Genet"},{"key":"key\n\t\t\t\t2018111915582396600_ref59","first-page":"8","article-title":"Detection and reconstruction of circular RNAs from transcriptomic data","volume":"2018","author":"Zheng","year":"1724","journal-title":"Circ RNAs"},{"key":"key\n\t\t\t\t2018111915582396600_ref60","doi-asserted-by":"crossref","first-page":"1","DOI":"10.14302\/issn.2832-5311.jpcd-18-1955","article-title":"Emerging Roles of Plant Circular RNAs","volume":"1","author":"Chu","year":"2018","journal-title":"J Plant Cel"}],"container-title":["Briefings in Bioinformatics"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/academic.oup.com\/bib\/advance-article-pdf\/doi\/10.1093\/bib\/bby111\/26576412\/bby111.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2023,9,6]],"date-time":"2023-09-06T04:37:15Z","timestamp":1693975035000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/bib\/advance-article\/doi\/10.1093\/bib\/bby111\/5164323"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2018,11,15]]},"references-count":60,"URL":"https:\/\/doi.org\/10.1093\/bib\/bby111","relation":{},"ISSN":["1467-5463","1477-4054"],"issn-type":[{"value":"1467-5463","type":"print"},{"value":"1477-4054","type":"electronic"}],"subject":[],"published":{"date-parts":[[2018,11,15]]}}}