{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,4,16]],"date-time":"2026-04-16T10:55:53Z","timestamp":1776336953275,"version":"3.51.2"},"reference-count":88,"publisher":"Oxford University Press (OUP)","issue":"D1","license":[{"start":{"date-parts":[[2021,11,1]],"date-time":"2021-11-01T00:00:00Z","timestamp":1635724800000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by-nc\/4.0\/"}],"funder":[{"name":"European Union's Horizon 2020 Research and Innovation Program","award":["101007438"],"award-info":[{"award-number":["101007438"]}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2022,1,7]]},"abstract":"<jats:title>Abstract<\/jats:title><jats:p>The Green Non-Coding Database (GreeNC) is one of the reference databases for the study of plant long non-coding RNAs (lncRNAs). Here we present our most recent update where 16 species have been updated, while 78 species have been added, resulting in the annotation of more than 495 000 lncRNAs. Moreover, sequence clustering was applied providing information about sequence conservation and gene families. The current version of the database is available at: http:\/\/greenc.sequentiabiotech.com\/wiki2\/Main_Page.<\/jats:p>","DOI":"10.1093\/nar\/gkab1014","type":"journal-article","created":{"date-parts":[[2021,10,13]],"date-time":"2021-10-13T01:05:05Z","timestamp":1634087105000},"page":"D1442-D1447","source":"Crossref","is-referenced-by-count":74,"title":["GreeNC 2.0: a comprehensive database of plant long non-coding RNAs"],"prefix":"10.1093","volume":"50","author":[{"given":"Marco","family":"Di\u00a0Marsico","sequence":"first","affiliation":[{"name":"Dipartimento di Scienze Agrarie, Alimentari e Ambientali, Universit\u00e0 degli Studi di Perugia, Borgo XX Giugno 74, 06121 Perugia, Italy"}]},{"given":"Andreu","family":"Paytuvi\u00a0Gallart","sequence":"additional","affiliation":[{"name":"Sequentia Biotech SL, Carrer de Pamplona 88, 08018, Barcelona, Spain"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-3324-5912","authenticated-orcid":false,"given":"Walter","family":"Sanseverino","sequence":"additional","affiliation":[{"name":"Sequentia Biotech SL, Carrer de Pamplona 88, 08018, Barcelona, Spain"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-9058-6994","authenticated-orcid":false,"given":"Riccardo","family":"Aiese\u00a0Cigliano","sequence":"additional","affiliation":[{"name":"Sequentia Biotech SL, Carrer de Pamplona 88, 08018, Barcelona, Spain"}]}],"member":"286","published-online":{"date-parts":[[2021,11,1]]},"reference":[{"key":"2022010507293075700_B1","doi-asserted-by":"crossref","first-page":"408","DOI":"10.3390\/plants9040408","article-title":"Research progress on plant long non-coding RNA","volume":"9","author":"Wu","year":"2020","journal-title":"Plants"},{"key":"2022010507293075700_B2","doi-asserted-by":"crossref","first-page":"155","DOI":"10.1038\/nrg2521","article-title":"Long non-coding RNAs: insights into functions","volume":"10","author":"Mercer","year":"2009","journal-title":"Nat. Rev. Genet."},{"key":"2022010507293075700_B3","doi-asserted-by":"crossref","first-page":"8","DOI":"10.3390\/diseases9010008","article-title":"The biological roles of lncRNAs and future prospects in clinical application","volume":"9","author":"Li","year":"2021","journal-title":"Diseases"},{"key":"2022010507293075700_B4","doi-asserted-by":"crossref","first-page":"1055","DOI":"10.1016\/j.molcel.2019.12.015","article-title":"R-loop mediated trans action of the APOLO long noncoding RNA","volume":"77","author":"Ariel","year":"2020","journal-title":"Mol. Cell"},{"key":"2022010507293075700_B5","doi-asserted-by":"crossref","first-page":"1743","DOI":"10.1104\/pp.18.00034","article-title":"The PILNCR1-miR399 regulatory module is important for low phosphate tolerance in maize","volume":"177","author":"Du","year":"2018","journal-title":"Plant Physiol."},{"key":"2022010507293075700_B6","doi-asserted-by":"crossref","first-page":"513","DOI":"10.1111\/tpj.13872","article-title":"CRISPR\/Cas9-mediated mutagenesis of lncRNA1459 alters tomato fruit ripening","volume":"94","author":"Li","year":"2018","journal-title":"Plant J."},{"key":"2022010507293075700_B7","doi-asserted-by":"crossref","first-page":"D1161","DOI":"10.1093\/nar\/gkv1215","article-title":"GREENC: a Wiki-based database of plant lncRNAs","volume":"44","author":"Paytuv\u00ed\u00a0Gallart","year":"2016","journal-title":"Nucleic Acids Res."},{"key":"2022010507293075700_B8","doi-asserted-by":"crossref","first-page":"1215","DOI":"10.1111\/tpj.14993","article-title":"A chromosome-scale reference genome of trifoliate orange (Poncirus trifoliata) provides insights into disease resistance, cold tolerance and genome evolution in Citrus","volume":"104","author":"Peng","year":"2020","journal-title":"Plant J."},{"key":"2022010507293075700_B9","doi-asserted-by":"crossref","first-page":"318","DOI":"10.1111\/pbi.12615","article-title":"A comprehensive draft genome sequence for lupin (Lupinus angustifolius), an emerging health food: insights into plant\u2013microbe interactions and legume evolution","volume":"15","author":"Hane","year":"2017","journal-title":"Plant Biotechnol. J."},{"key":"2022010507293075700_B10","doi-asserted-by":"crossref","DOI":"10.1101\/2020.09.15.298315","article-title":"A contiguous de novo genome assembly of sugar beet EL10 (Beta vulgaris L.)","author":"McGrath","year":"2020"},{"key":"2022010507293075700_B11","doi-asserted-by":"crossref","first-page":"1203","DOI":"10.1038\/s41587-020-0681-2","article-title":"A genome resource for green millet Setaria viridis enables discovery of agronomically valuable loci","volume":"38","author":"Mamidi","year":"2020","journal-title":"Nat. Biotechnol."},{"key":"2022010507293075700_B12","doi-asserted-by":"crossref","first-page":"10250","DOI":"10.1038\/s41598-019-46610-0","article-title":"A high-quality genome of Eragrostis curvula grass provides insights into Poaceae evolution and supports new strategies to enhance forage quality","volume":"9","author":"Carballo","year":"2019","journal-title":"Sci. Rep."},{"key":"2022010507293075700_B13","doi-asserted-by":"crossref","first-page":"257","DOI":"10.1186\/s12864-018-4656-3","article-title":"A manually annotated Actinidia chinensis var. chinensis (kiwifruit) genome highlights the challenges associated with draft genomes and gene prediction in plants","volume":"19","author":"Pilkington","year":"2018","journal-title":"BMC Genomics"},{"key":"2022010507293075700_B14","doi-asserted-by":"crossref","first-page":"1733","DOI":"10.1007\/s00122-019-03311-6","article-title":"A reference high-density genetic map of greater yam (Dioscorea alata L.)","volume":"132","author":"Cormier","year":"2019","journal-title":"Theor. Appl. Genet."},{"key":"2022010507293075700_B15","doi-asserted-by":"crossref","first-page":"1565","DOI":"10.1038\/s41588-018-0237-2","article-title":"Allele-defined genome of the autopolyploid sugarcane Saccharum spontaneum L","volume":"50","author":"Zhang","year":"2018","journal-title":"Nat. Genet."},{"key":"2022010507293075700_B16","doi-asserted-by":"crossref","first-page":"1815","DOI":"10.3389\/fpls.2019.01815","article-title":"An improved melon reference genome with single-molecule sequencing uncovers a recent burst of transposable elements with potential impact on genes","volume":"10","author":"Castanera","year":"2019","journal-title":"Front. Plant Sci."},{"key":"2022010507293075700_B17","doi-asserted-by":"crossref","first-page":"1437","DOI":"10.1007\/s00438-018-1473-y","article-title":"Characterization of a large sex determination region in Salix purpurea L. (Salicaceae)","volume":"293","author":"Zhou","year":"2018","journal-title":"Mol. Genet. Genomics"},{"key":"2022010507293075700_B18","doi-asserted-by":"crossref","first-page":"E4296","DOI":"10.1073\/pnas.1619928114","article-title":"Chromosome-level genome assembly and transcriptome of the green alga Chromochloris zofingiensis illuminates astaxanthin production","volume":"114","author":"Roth","year":"2017","journal-title":"Proc. Natl. Acad. Sci. U.S.A."},{"key":"2022010507293075700_B19","doi-asserted-by":"crossref","first-page":"16223","DOI":"10.1038\/nplants.2016.223","article-title":"Comparative genomics of two jute species and insight into fibre biogenesis","volume":"3","author":"Islam","year":"2017","journal-title":"Nat. Plants"},{"key":"2022010507293075700_B20","doi-asserted-by":"crossref","first-page":"1066","DOI":"10.1111\/tpj.14500","article-title":"Construction and comparison of three reference-quality genome assemblies for soybean","volume":"100","author":"Valliyodan","year":"2019","journal-title":"Plant J."},{"key":"2022010507293075700_B21","doi-asserted-by":"crossref","first-page":"170044","DOI":"10.1038\/sdata.2017.44","article-title":"Construction of a map-based reference genome sequence for barley, Hordeum vulgare L","volume":"4","author":"Beier","year":"2017","journal-title":"Sci. Data"},{"key":"2022010507293075700_B22","doi-asserted-by":"crossref","first-page":"655","DOI":"10.1126\/science.abg5289","article-title":"De novo assembly, annotation, and comparative analysis of 26 diverse maize genomes","volume":"373","author":"Hufford","year":"2021","journal-title":"Science"},{"key":"2022010507293075700_B23","doi-asserted-by":"crossref","first-page":"87","DOI":"10.1038\/nature11997","article-title":"Draft genome of the wheat A-genome progenitor Triticum urartu","volume":"496","author":"Ling","year":"2013","journal-title":"Nature"},{"key":"2022010507293075700_B24","doi-asserted-by":"crossref","first-page":"8069","DOI":"10.1038\/srep08069","article-title":"Draft genome sequence of adzuki bean, Vigna angularis","volume":"5","author":"Kang","year":"2015","journal-title":"Sci. Rep."},{"key":"2022010507293075700_B25","doi-asserted-by":"crossref","first-page":"240","DOI":"10.1038\/nbt.2491","article-title":"Draft genome sequence of chickpea (Cicer arietinum) provides a resource for trait improvement","volume":"31","author":"Varshney","year":"2013","journal-title":"Nat. Biotechnol."},{"key":"2022010507293075700_B26","doi-asserted-by":"crossref","first-page":"885","DOI":"10.1038\/s41588-019-0381-3","article-title":"Durum wheat genome highlights past domestication signatures and future improvement targets","volume":"51","author":"Maccaferri","year":"2019","journal-title":"Nat. Genet."},{"key":"2022010507293075700_B27","doi-asserted-by":"crossref","first-page":"e59001","DOI":"10.1371\/journal.pone.0059001","article-title":"Evolution of red algal plastid genomes: ancient architectures, introns, horizontal gene transfer, and taxonomic utility of plastid markers","volume":"8","author":"Janou\u0161kovec","year":"2013","journal-title":"PLoS One"},{"key":"2022010507293075700_B28","doi-asserted-by":"crossref","first-page":"21","DOI":"10.1007\/s00122-011-1563-2","article-title":"Genetic diversity and domestication history of African rice (Oryza glaberrima) as inferred from multiple gene sequences","volume":"123","author":"Li","year":"2011","journal-title":"TAG Theor. Appl. Genet. Theor. Angew. Genet."},{"key":"2022010507293075700_B29","doi-asserted-by":"crossref","first-page":"581","DOI":"10.1186\/1471-2164-15-581","article-title":"Genome and transcriptome sequencing identifies breeding targets in the orphan crop tef (Eragrostis tef)","volume":"15","author":"Cannarozzi","year":"2014","journal-title":"BMC Genomics"},{"key":"2022010507293075700_B30","doi-asserted-by":"crossref","first-page":"1025","DOI":"10.1111\/1755-0998.12604","article-title":"Genome assembly and annotation of Arabidopsis halleri, a model for heavy metal hyperaccumulation and evolutionary ecology","volume":"17","author":"Briskine","year":"2017","journal-title":"Mol. Ecol. Resour."},{"key":"2022010507293075700_B31","doi-asserted-by":"crossref","first-page":"14953","DOI":"10.1038\/ncomms14953","article-title":"Genome assembly with in vitro proximity ligation data and whole-genome triplication in lettuce","volume":"8","author":"Reyes-Chin-Wo","year":"2017","journal-title":"Nat. Commun."},{"key":"2022010507293075700_B32","doi-asserted-by":"crossref","first-page":"14023","DOI":"10.1038\/nplants.2014.23","article-title":"Genome expansion of Arabis alpina linked with retrotransposition and reduced symmetric DNA methylation","volume":"1","author":"Willing","year":"2015","journal-title":"Nat. Plants"},{"key":"2022010507293075700_B33","doi-asserted-by":"crossref","first-page":"E9413","DOI":"10.1073\/pnas.1708621114","article-title":"Genome of wild olive and the evolution of oil biosynthesis","volume":"114","author":"Unver","year":"2017","journal-title":"Proc. Natl. Acad. Sci. U.S.A."},{"key":"2022010507293075700_B34","doi-asserted-by":"crossref","first-page":"189","DOI":"10.1038\/nature10158","article-title":"Genome sequence and analysis of the tuber crop potato","volume":"475","author":"Xu","year":"2011","journal-title":"Nature"},{"key":"2022010507293075700_B35","doi-asserted-by":"crossref","first-page":"5443","DOI":"10.1038\/ncomms6443","article-title":"Genome sequence of mungbean and insights into evolution within Vigna species","volume":"5","author":"Kang","year":"2014","journal-title":"Nat. Commun."},{"key":"2022010507293075700_B36","doi-asserted-by":"crossref","first-page":"270","DOI":"10.1038\/ng.2877","article-title":"Genome sequence of the hot pepper provides insights into the evolution of pungency in Capsicum species","volume":"46","author":"Kim","year":"2014","journal-title":"Nat. Genet."},{"key":"2022010507293075700_B37","doi-asserted-by":"crossref","first-page":"498","DOI":"10.1038\/nature24486","article-title":"Genome sequence of the progenitor of the wheat D genome Aegilops tauschii","volume":"551","author":"Luo","year":"2017","journal-title":"Nature"},{"key":"2022010507293075700_B38","doi-asserted-by":"crossref","first-page":"653","DOI":"10.1038\/nature02398","article-title":"Genome sequence of the ultrasmall unicellular red alga Cyanidioschyzon merolae 10D","volume":"428","author":"Matsuzaki","year":"2004","journal-title":"Nature"},{"key":"2022010507293075700_B39","doi-asserted-by":"crossref","first-page":"R39","DOI":"10.1186\/gb-2014-15-2-r39","article-title":"Genome sequencing of the high oil crop sesame provides insight into oil biosynthesis","volume":"15","author":"Wang","year":"2014","journal-title":"Genome Biol."},{"key":"2022010507293075700_B40","doi-asserted-by":"crossref","first-page":"525","DOI":"10.1038\/s41588-020-0614-5","article-title":"Genomic diversifications of five Gossypium allopolyploid species and their impact on cotton improvement","volume":"52","author":"Chen","year":"2020","journal-title":"Nat. Genet."},{"key":"2022010507293075700_B41","doi-asserted-by":"crossref","first-page":"438","DOI":"10.1038\/s41586-020-03127-1","article-title":"Genomic mechanisms of climate adaptation in polyploid bioenergy switchgrass","volume":"590","author":"Lovell","year":"2021","journal-title":"Nature"},{"key":"2022010507293075700_B42","doi-asserted-by":"crossref","first-page":"3670","DOI":"10.1038\/s41467-020-17302-5","article-title":"Gradual polyploid genome evolution revealed by pan-genomic analysis of Brachypodium hybridum and its diploid progenitors","volume":"11","author":"Gordon","year":"2020","journal-title":"Nat. Commun."},{"key":"2022010507293075700_B43","doi-asserted-by":"crossref","first-page":"giaa050","DOI":"10.1093\/gigascience\/giaa050","article-title":"High-quality chromosome-scale assembly of the walnut (Juglans regia L.) reference genome","volume":"9","author":"Marrano","year":"2020","journal-title":"GigaScience"},{"key":"2022010507293075700_B44","doi-asserted-by":"crossref","first-page":"492","DOI":"10.1038\/s41467-019-14197-9","article-title":"High-quality genome sequence of white lupin provides insight into soil exploration and seed quality","volume":"11","author":"Hufnagel","year":"2020","journal-title":"Nat. Commun."},{"key":"2022010507293075700_B45","doi-asserted-by":"crossref","first-page":"287","DOI":"10.1016\/j.cell.2017.09.030","article-title":"Insights into Land Plant Evolution Garnered from the Marchantia polymorpha Genome","volume":"171","author":"Bowman","year":"2017","journal-title":"Cell"},{"key":"2022010507293075700_B46","doi-asserted-by":"crossref","first-page":"E6361","DOI":"10.1073\/pnas.1703088114","article-title":"Insights into the red algae and eukaryotic evolution from the genome of Porphyra umbilicalis (Bangiophyceae, Rhodophyta)","volume":"114","author":"Brawley","year":"2017","journal-title":"Proc. Natl. Acad. Sci. U.S.A."},{"key":"2022010507293075700_B47","doi-asserted-by":"crossref","first-page":"950","DOI":"10.1126\/science.1253435","article-title":"Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome","volume":"345","author":"Chalhoub","year":"2014","journal-title":"Science"},{"key":"2022010507293075700_B48","doi-asserted-by":"crossref","first-page":"17394","DOI":"10.1038\/srep17394","article-title":"Red clover (Trifolium pratense L.) draft genome provides a platform for trait improvement","volume":"5","author":"De\u00a0Vega","year":"2015","journal-title":"Sci. Rep."},{"key":"2022010507293075700_B49","doi-asserted-by":"crossref","first-page":"423","DOI":"10.1038\/nature11798","article-title":"Repeated polyploidization of Gossypium genomes and the evolution of spinnable cotton fibres","volume":"492","author":"Paterson","year":"2012","journal-title":"Nature"},{"key":"2022010507293075700_B50","doi-asserted-by":"crossref","first-page":"1616","DOI":"10.1038\/s41588-019-0518-4","article-title":"Resequencing of 414 cultivated and wild watermelon accessions identifies selection for fruit quality traits","volume":"51","author":"Guo","year":"2019","journal-title":"Nat. Genet."},{"key":"2022010507293075700_B51","doi-asserted-by":"crossref","first-page":"eaar7191","DOI":"10.1126\/science.aar7191","article-title":"Shifting the limits in wheat research and breeding using a fully annotated reference genome","volume":"361","author":"THE INTERNATIONAL WHEAT GENOME SEQUENCING CONSORTIUM (IWGSC)","year":"2018","journal-title":"Science"},{"key":"2022010507293075700_B52","doi-asserted-by":"crossref","first-page":"74","DOI":"10.1186\/s12915-017-0412-4","article-title":"Single-molecule sequencing and Hi-C-based proximity-guided assembly of amaranth (Amaranthus hypochondriacus) chromosomes provide insights into genome evolution","volume":"15","author":"Lightfoot","year":"2017","journal-title":"BMC Biol."},{"key":"2022010507293075700_B53","doi-asserted-by":"crossref","first-page":"508","DOI":"10.1038\/nature15714","article-title":"Single-molecule sequencing of the desiccation-tolerant grass Oropetium thomaeum","volume":"527","author":"VanBuren","year":"2015","journal-title":"Nature"},{"key":"2022010507293075700_B54","doi-asserted-by":"crossref","first-page":"63","DOI":"10.1038\/s41477-018-0337-0","article-title":"Stout camphor tree genome fills gaps in understanding of flowering plant genome evolution","volume":"5","author":"Chaw","year":"2019","journal-title":"Nat. Plants"},{"key":"2022010507293075700_B55","doi-asserted-by":"crossref","first-page":"e36426","DOI":"10.7554\/eLife.36426","article-title":"The Aquilegia genome provides insight into adaptive radiation and reveals an extraordinarily polymorphic chromosome with a unique history","volume":"7","author":"Filiault","year":"2018","journal-title":"eLife"},{"key":"2022010507293075700_B56","doi-asserted-by":"crossref","first-page":"476","DOI":"10.1038\/ng.807","article-title":"The Arabidopsis lyrata genome sequence and the basis of rapid genome size change","volume":"43","author":"Hu","year":"2011","journal-title":"Nat. Genet."},{"key":"2022010507293075700_B57","doi-asserted-by":"crossref","first-page":"213","DOI":"10.1038\/nature11241","article-title":"The banana (Musa acuminata) genome and the evolution of monocotyledonous plants","volume":"488","author":"D\u2019Hont","year":"2012","journal-title":"Nature"},{"key":"2022010507293075700_B58","doi-asserted-by":"crossref","first-page":"3930","DOI":"10.1038\/ncomms4930","article-title":"The Brassica oleracea genome reveals the asymmetrical evolution of polyploid genomes","volume":"5","author":"Liu","year":"2014","journal-title":"Nat. Commun."},{"key":"2022010507293075700_B59","doi-asserted-by":"crossref","first-page":"831","DOI":"10.1038\/ng.2669","article-title":"The Capsella rubella genome and the genomic consequences of rapid mating system evolution","volume":"45","author":"Slotte","year":"2013","journal-title":"Nat. Genet."},{"key":"2022010507293075700_B60","doi-asserted-by":"crossref","first-page":"448","DOI":"10.1016\/j.cell.2018.06.033","article-title":"The Chara genome: secondary complexity and implications for plant terrestrialization","volume":"174","author":"Nishiyama","year":"2018","journal-title":"Cell"},{"key":"2022010507293075700_B61","doi-asserted-by":"crossref","first-page":"1181","DOI":"10.1126\/science.1255274","article-title":"The coffee genome provides insight into the convergent evolution of caffeine biosynthesis","volume":"345","author":"Denoeud","year":"2014","journal-title":"Science"},{"key":"2022010507293075700_B62","doi-asserted-by":"crossref","first-page":"3706","DOI":"10.1038\/ncomms4706","article-title":"The emerging biofuel crop Camelina sativa retains a highly undifferentiated hexaploid genome structure","volume":"5","author":"Kagale","year":"2014","journal-title":"Nat. Commun."},{"key":"2022010507293075700_B63","doi-asserted-by":"crossref","first-page":"307","DOI":"10.1038\/nature21370","article-title":"The genome of Chenopodium quinoa","volume":"542","author":"Jarvis","year":"2017","journal-title":"Nature"},{"key":"2022010507293075700_B64","doi-asserted-by":"crossref","first-page":"767","DOI":"10.1111\/tpj.14349","article-title":"The genome of cowpea (Vigna unguiculata [L.] Walp.)","volume":"98","author":"Lonardi","year":"2019","journal-title":"Plant J."},{"key":"2022010507293075700_B65","doi-asserted-by":"crossref","first-page":"546","DOI":"10.1038\/nature12817","article-title":"The genome of the recently domesticated crop plant sugar beet (Beta vulgaris)","volume":"505","author":"Dohm","year":"2014","journal-title":"Nature"},{"key":"2022010507293075700_B66","doi-asserted-by":"crossref","first-page":"499","DOI":"10.1093\/dnares\/dsx020","article-title":"The genome sequence of sweet cherry (Prunus avium) for use in genomics-assisted breeding","volume":"24","author":"Shirasawa","year":"2017","journal-title":"DNA Res."},{"key":"2022010507293075700_B67","doi-asserted-by":"crossref","first-page":"19427","DOI":"10.1038\/srep19427","article-title":"The genome sequence of the outbreeding globe artichoke constructed de novo incorporating a phase-aware low-pass sequencing strategy of F1 progeny","volume":"6","author":"Scaglione","year":"2016","journal-title":"Sci. Rep."},{"key":"2022010507293075700_B68","doi-asserted-by":"crossref","first-page":"5213","DOI":"10.1038\/s41467-018-07669-x","article-title":"The genomic landscape of molecular responses to natural drought stress in Panicum hallii","volume":"9","author":"Lovell","year":"2018","journal-title":"Nat. Commun."},{"key":"2022010507293075700_B69","doi-asserted-by":"crossref","first-page":"463","DOI":"10.1038\/nature06148","article-title":"The grapevine genome sequence suggests ancestral hexaploidization in major angiosperm phyla","volume":"449","author":"Jaillon","year":"2007","journal-title":"Nature"},{"key":"2022010507293075700_B70","doi-asserted-by":"crossref","first-page":"1899","DOI":"10.1038\/s41467-017-01491-7","article-title":"The Kalancho\u00eb genome provides insights into convergent evolution and building blocks of crassulacean acid metabolism","volume":"8","author":"Yang","year":"2017","journal-title":"Nat. Commun."},{"key":"2022010507293075700_B71","doi-asserted-by":"crossref","first-page":"520","DOI":"10.1038\/nature10625","article-title":"The Medicago genome provides insight into the evolution of rhizobial symbioses","volume":"480","author":"Young","year":"2011","journal-title":"Nature"},{"key":"2022010507293075700_B72","doi-asserted-by":"crossref","first-page":"343","DOI":"10.1126\/science.aat4096","article-title":"The opium poppy genome and morphinan production","volume":"362","author":"Guo","year":"2018","journal-title":"Science"},{"key":"2022010507293075700_B73","doi-asserted-by":"crossref","first-page":"338","DOI":"10.1111\/tpj.13781","article-title":"The Sorghum bicolor reference genome: improved assembly, gene annotations, a transcriptome atlas, and signatures of genome organization","volume":"93","author":"McCormick","year":"2018","journal-title":"Plant J."},{"key":"2022010507293075700_B74","doi-asserted-by":"crossref","first-page":"148","DOI":"10.1038\/nature22380","article-title":"The sunflower genome provides insights into oil metabolism, flowering and Asterid evolution","volume":"546","author":"Badouin","year":"2017","journal-title":"Nature"},{"key":"2022010507293075700_B75","doi-asserted-by":"crossref","first-page":"D883","DOI":"10.1093\/nar\/gkl976","article-title":"The TIGR Rice Genome Annotation Resource: improvements and new features","volume":"35","author":"Ouyang","year":"2007","journal-title":"Nucleic Acids Res."},{"key":"2022010507293075700_B76","doi-asserted-by":"crossref","first-page":"79","DOI":"10.1038\/s41586-019-1852-5","article-title":"The water lily genome and the early evolution of flowering plants","volume":"577","author":"Zhang","year":"2020","journal-title":"Nature"},{"key":"2022010507293075700_B77","doi-asserted-by":"crossref","first-page":"455","DOI":"10.1111\/tpj.14538","article-title":"Transposons played a major role in the diversification between the closely related almond and peach genomes: results from the almond genome sequence","volume":"101","author":"Alioto","year":"2020","journal-title":"Plant J."},{"key":"2022010507293075700_B78","doi-asserted-by":"crossref","first-page":"79","DOI":"10.1186\/s13059-019-1686-3","article-title":"Whole genomes and transcriptomes reveal adaptation and domestication of pistachio","volume":"20","author":"Zeng","year":"2019","journal-title":"Genome Biol."},{"key":"2022010507293075700_B79","doi-asserted-by":"crossref","first-page":"1595","DOI":"10.1038\/ncomms2596","article-title":"Whole-genome sequencing of Oryza brachyantha reveals mechanisms underlying Oryza genome evolution","volume":"4","author":"Chen","year":"2013","journal-title":"Nat. Commun."},{"key":"2022010507293075700_B80","doi-asserted-by":"crossref","first-page":"93","DOI":"10.1126\/science.aan0032","article-title":"Wild emmer genome architecture and diversity elucidate wheat evolution and domestication","volume":"357","author":"Avni","year":"2017","journal-title":"Science"},{"key":"2022010507293075700_B81","doi-asserted-by":"crossref","first-page":"6133","DOI":"10.1073\/pnas.1700073114","article-title":"Wild tobacco genomes reveal the evolution of nicotine biosynthesis","volume":"114","author":"Xu","year":"2017","journal-title":"Proc. Natl. Acad. Sci. U.S.A."},{"key":"2022010507293075700_B82","doi-asserted-by":"crossref","first-page":"119","DOI":"10.1038\/s41559-017-0119","article-title":"Young inversion with multiple linked QTLs under selection in a hybrid zone","volume":"1","author":"Lee","year":"2017","journal-title":"Nat. Ecol. Evol."},{"key":"2022010507293075700_B83","doi-asserted-by":"crossref","first-page":"635","DOI":"10.1038\/nature11119","article-title":"The tomato genome sequence provides insights into fleshy fruit evolution","volume":"485","author":"Sato","year":"2012","journal-title":"Nature"},{"key":"2022010507293075700_B84","doi-asserted-by":"crossref","first-page":"133","DOI":"10.1534\/g3.114.015008","article-title":"High-resolution linkage map and chromosome-scale genome assembly for cassava (Manihot esculenta Crantz) from 10 populations","volume":"5","author":"International Cassava Genetic Map Consortium(ICGMC)","year":"2015","journal-title":"G3 Genes Genomes Genet."},{"key":"2022010507293075700_B85","doi-asserted-by":"crossref","first-page":"1275","DOI":"10.1038\/ng.475","article-title":"The genome of the cucumber, Cucumis sativus L","volume":"41","author":"Huang","year":"2009","journal-title":"Nat. Genet."},{"key":"2022010507293075700_B86","doi-asserted-by":"crossref","first-page":"11","DOI":"10.1186\/s13100-015-0041-9","article-title":"Repbase Update, a database of repetitive elements in eukaryotic genomes","volume":"6","author":"Bao","year":"2015","journal-title":"Mob. DNA"},{"key":"2022010507293075700_B87","doi-asserted-by":"crossref","first-page":"238","DOI":"10.1186\/s13059-019-1832-y","article-title":"OrthoFinder: phylogenetic orthology inference for comparative genomics","volume":"20","author":"Emms","year":"2019","journal-title":"Genome Biol."},{"key":"2022010507293075700_B88","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1038\/nature03016","article-title":"Neutral evolution of \u2018non-coding\u2019 complementary DNAs","volume":"431","author":"Wang","year":"2004","journal-title":"Nature"}],"container-title":["Nucleic Acids Research"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/academic.oup.com\/nar\/article-pdf\/50\/D1\/D1442\/42057523\/gkab1014.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/nar\/article-pdf\/50\/D1\/D1442\/42057523\/gkab1014.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2023,11,11]],"date-time":"2023-11-11T01:40:29Z","timestamp":1699666829000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/nar\/article\/50\/D1\/D1442\/6415108"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2021,11,1]]},"references-count":88,"journal-issue":{"issue":"D1","published-online":{"date-parts":[[2021,11,1]]},"published-print":{"date-parts":[[2022,1,7]]}},"URL":"https:\/\/doi.org\/10.1093\/nar\/gkab1014","relation":{},"ISSN":["0305-1048","1362-4962"],"issn-type":[{"value":"0305-1048","type":"print"},{"value":"1362-4962","type":"electronic"}],"subject":[],"published-other":{"date-parts":[[2022,1,7]]},"published":{"date-parts":[[2021,11,1]]}}}