{"id":"https://openalex.org/W2887970906","doi":"https://doi.org/10.1111/jipb.12708","title":"New lncRNA annotation reveals extensive functional divergence of the transcriptome in maize","display_name":"New lncRNA annotation reveals extensive functional divergence of the transcriptome in maize","publication_year":2018,"publication_date":"2018-08-17","ids":{"openalex":"https://openalex.org/W2887970906","doi":"https://doi.org/10.1111/jipb.12708","mag":"2887970906","pmid":"https://pubmed.ncbi.nlm.nih.gov/30117291"},"language":"en","primary_location":{"id":"doi:10.1111/jipb.12708","doi":"https://doi.org/10.1111/jipb.12708","is_oa":false,"landing_page_url":"https://doi.org/10.1111/jipb.12708","pdf_url":null,"source":{"id":"https://openalex.org/S58990993","display_name":"Journal of Integrative Plant Biology","issn_l":"0577-7496","issn":["0577-7496","1672-9072","1744-7909"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["cwts-core","dongbi-a","jufo-1","medline","norway-1","poland-100","russia-white-list-1"],"host_organization":"https://openalex.org/P4310320595","host_organization_name":"Wiley","host_organization_lineage":["https://openalex.org/P4310320595"],"host_organization_lineage_names":["Wiley"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Integrative Plant Biology","raw_type":"journal-article"},"volume":null,"type":"article","is_traditional":true,"indexed_in":["crossref","pubmed"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5039226949","display_name":"Linqian Han","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I204823248","display_name":"Huazhong Agricultural University","ror":"https://ror.org/023b72294","country_code":"CN","type":"education","lineage":["https://openalex.org/I204823248"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Linqian Han","raw_affiliation_strings":["National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan 430070, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan 430070, China","institution_ids":["https://openalex.org/I204823248"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5088742071","display_name":"Zhenna Mu","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I204823248","display_name":"Huazhong Agricultural University","ror":"https://ror.org/023b72294","country_code":"CN","type":"education","lineage":["https://openalex.org/I204823248"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Zhenna Mu","raw_affiliation_strings":["National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan 430070, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan 430070, China","institution_ids":["https://openalex.org/I204823248"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5006633019","display_name":"Zi Wei Luo","orcid":"https://orcid.org/0000-0001-6018-9368","observed_orcids":["https://orcid.org/0000-0001-6018-9368"]},"institutions":[{"id":"https://openalex.org/I204823248","display_name":"Huazhong Agricultural University","ror":"https://ror.org/023b72294","country_code":"CN","type":"education","lineage":["https://openalex.org/I204823248"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Zi Luo","raw_affiliation_strings":["National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan 430070, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan 430070, China","institution_ids":["https://openalex.org/I204823248"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5021018966","display_name":"Qingchun Pan","orcid":"https://orcid.org/0000-0001-8462-3165","observed_orcids":["https://orcid.org/0000-0001-8462-3165"]},"institutions":[{"id":"https://openalex.org/I204823248","display_name":"Huazhong Agricultural University","ror":"https://ror.org/023b72294","country_code":"CN","type":"education","lineage":["https://openalex.org/I204823248"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Qingchun Pan","raw_affiliation_strings":["National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan 430070, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan 430070, China","institution_ids":["https://openalex.org/I204823248"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5100712024","display_name":"Li Lin","orcid":"https://orcid.org/0000-0003-2783-1114","observed_orcids":["https://orcid.org/0000-0003-2783-1114"]},"institutions":[{"id":"https://openalex.org/I204823248","display_name":"Huazhong Agricultural University","ror":"https://ror.org/023b72294","country_code":"CN","type":"education","lineage":["https://openalex.org/I204823248"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Lin Li","raw_affiliation_strings":["National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan 430070, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan 430070, China","institution_ids":["https://openalex.org/I204823248"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5100712024"],"corresponding_institution_ids":["https://openalex.org/I204823248"],"apc_list":{"value":3000,"currency":"USD","value_usd":3000},"apc_paid":null,"fwci":0.9191,"has_fulltext":false,"cited_by_count":23,"citation_normalized_percentile":{"value":0.71803397,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":88,"max":98},"biblio":{"volume":"61","issue":"4","first_page":"394","last_page":"405"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10434","display_name":"Chromosomal and Genetic Variations","score":0.5853999853134155,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T10434","display_name":"Chromosomal and Genetic Variations","score":0.5853999853134155,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10515","display_name":"Cancer-related molecular mechanisms research","score":0.288100004196167,"subfield":{"id":"https://openalex.org/subfields/1306","display_name":"Cancer Research"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10184","display_name":"Plant Molecular Biology Research","score":0.07880000025033951,"subfield":{"id":"https://openalex.org/subfields/1110","display_name":"Plant Science"},"field":{"id":"https://openalex.org/fields/11","display_name":"Agricultural and Biological Sciences"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/long-non-coding-rna","display_name":"long non-coding RNA","score":0.9769999980926514},{"id":"https://openalex.org/keywords/maize","display_name":"maize","score":0.9259999990463257},{"id":"https://openalex.org/keywords/lncrna-annotation","display_name":"lncRNA annotation","score":0.8759999871253967},{"id":"https://openalex.org/keywords/teosinte","display_name":"teosinte","score":0.9079999923706055},{"id":"https://openalex.org/keywords/functional-divergence","display_name":"functional divergence","score":0.7689999938011169},{"id":"https://openalex.org/keywords/protein-coding-transcripts","display_name":"protein-coding transcripts","score":0.6890000104904175},{"id":"https://openalex.org/keywords/coexpression-network","display_name":"co-expression network","score":0.7710000276565552},{"id":"https://openalex.org/keywords/natural-selection","display_name":"natural selection","score":0.652999997138977},{"id":"https://openalex.org/keywords/transcriptome-complexity","display_name":"transcriptome complexity","score":0.6430000066757202},{"id":"https://openalex.org/keywords/gene-expression-regulation","display_name":"gene expression regulation","score":0.5090000033378601}],"concepts":[{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.8322190046310425},{"id":"https://openalex.org/C162317418","wikidata":"https://www.wikidata.org/wiki/Q252857","display_name":"Transcriptome","level":4,"score":0.7629029750823975},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.6740645170211792},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.6440770626068115},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.5540265440940857},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.47139838337898254},{"id":"https://openalex.org/C199216141","wikidata":"https://www.wikidata.org/wiki/Q4995178","display_name":"Conserved sequence","level":4,"score":0.4541170597076416},{"id":"https://openalex.org/C66746571","wikidata":"https://www.wikidata.org/wiki/Q1134833","display_name":"ENCODE","level":3,"score":0.4422200918197632},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.23756161332130432},{"id":"https://openalex.org/C167625842","wikidata":"https://www.wikidata.org/wiki/Q899763","display_name":"Peptide sequence","level":3,"score":0.058878958225250244}],"mesh":[{"descriptor_ui":"D000069600","descriptor_name":"Plant Breeding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000071278","descriptor_name":"Domestication","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003313","descriptor_name":"Zea mays","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D012333","descriptor_name":"RNA, Messenger","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012333","descriptor_name":"RNA, Messenger","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D016366","descriptor_name":"Open Reading Frames","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D017124","descriptor_name":"Conserved Sequence","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D018506","descriptor_name":"Gene Expression Regulation, Plant","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018749","descriptor_name":"RNA, Plant","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D018749","descriptor_name":"RNA, Plant","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D058977","descriptor_name":"Molecular Sequence Annotation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D062085","descriptor_name":"RNA, Long Noncoding","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D062085","descriptor_name":"RNA, Long Noncoding","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1111/jipb.12708","doi":"https://doi.org/10.1111/jipb.12708","is_oa":false,"landing_page_url":"https://doi.org/10.1111/jipb.12708","pdf_url":null,"source":{"id":"https://openalex.org/S58990993","display_name":"Journal of Integrative Plant Biology","issn_l":"0577-7496","issn":["0577-7496","1672-9072","1744-7909"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["cwts-core","dongbi-a","jufo-1","medline","norway-1","poland-100","russia-white-list-1"],"host_organization":"https://openalex.org/P4310320595","host_organization_name":"Wiley","host_organization_lineage":["https://openalex.org/P4310320595"],"host_organization_lineage_names":["Wiley"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Integrative Plant Biology","raw_type":"journal-article"},{"id":"pmid:30117291","doi":null,"is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/30117291","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of integrative plant biology","raw_type":"Journal Article"}],"best_oa_location":null,"sustainable_development_goals":[{"display_name":"Zero hunger","score":0.40450000762939453,"id":"https://metadata.un.org/sdg/2"}],"study_designs":[],"awards":[{"id":"https://openalex.org/G6765409","display_name":null,"funder_award_id":"2016YFD0100404","funder_id":"https://openalex.org/F4320335777","funder_display_name":"National Key Research and Development Program of China"}],"funders":[{"id":"https://openalex.org/F4320335777","display_name":"National Key Research and Development Program of China","ror":null}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":43,"referenced_works":["https://openalex.org/W1602695373","https://openalex.org/W1644820101","https://openalex.org/W1957964968","https://openalex.org/W1999574084","https://openalex.org/W2007250559","https://openalex.org/W2014704298","https://openalex.org/W2024467994","https://openalex.org/W2028654150","https://openalex.org/W2029868997","https://openalex.org/W2032566748","https://openalex.org/W2041369142","https://openalex.org/W2055966372","https://openalex.org/W2060161265","https://openalex.org/W2069240972","https://openalex.org/W2077438398","https://openalex.org/W2078880053","https://openalex.org/W2091161969","https://openalex.org/W2097065948","https://openalex.org/W2102649026","https://openalex.org/W2104693064","https://openalex.org/W2126419817","https://openalex.org/W2128756731","https://openalex.org/W2129375421","https://openalex.org/W2131271579","https://openalex.org/W2134597218","https://openalex.org/W2139939149","https://openalex.org/W2146849272","https://openalex.org/W2151710573","https://openalex.org/W2152379610","https://openalex.org/W2153268494","https://openalex.org/W2154431984","https://openalex.org/W2154825888","https://openalex.org/W2158722145","https://openalex.org/W2166810745","https://openalex.org/W2274744779","https://openalex.org/W2366276793","https://openalex.org/W2463761386","https://openalex.org/W2548085163","https://openalex.org/W2600278560","https://openalex.org/W2607186010","https://openalex.org/W2623168030","https://openalex.org/W2804344327","https://openalex.org/W2953103256"],"related_works":["https://openalex.org/W7118072488","https://openalex.org/W6929395426","https://openalex.org/W2154825888","https://openalex.org/W2354032602","https://openalex.org/W4317545819","https://openalex.org/W7118165650","https://openalex.org/W7163901379","https://openalex.org/W1897368039","https://openalex.org/W2926432631","https://openalex.org/W4412641011"],"abstract_inverted_index":{"Long":[0],"non-coding":[1],"RNAs":[2],"(lncRNAs),":[3],"whose":[4],"sequences":[5],"are":[6,92,119,146],"approximately":[7],"200":[8],"bp":[9],"or":[10],"longer":[11],"and":[12,66,75,96,108,171,176,185],"unlikely":[13],"to":[14,121,125,152,158],"encode":[15],"proteins,":[16],"may":[17],"play":[18],"an":[19,36],"important":[20],"role":[21],"in":[22,87,134,155],"eukaryotic":[23],"gene":[24],"regulation.":[25],"Although":[26],"the":[27,69,135,167,190,194],"latest":[28,168],"maize":[29,43,70,95,174,195],"(Zea":[30],"mays":[31],"L.)":[32],"reference":[33,71],"genome":[34],"provides":[35],"essential":[37],"genomic":[38,101],"resource,":[39],"genome-wide":[40,169],"annotations":[41],"of":[42,68,89,103,137,173,193],"lncRNAs":[44,86,118,145,151,175],"have":[45],"not":[46],"been":[47],"updated.":[48],"Here,":[49],"we":[50],"report":[51],"on":[52],"a":[53],"large":[54],"transcriptomic":[55],"dataset":[56],"collected":[57],"from":[58,77],"749":[59],"RNA":[60],"sequencing":[61],"experiments":[62],"across":[63],"different":[64],"tissues":[65],"stages":[67],"inbred":[72],"B73":[73],"line":[74],"60":[76],"its":[78],"wild":[79],"relative":[80],"teosinte.":[81,97],"We":[82,98],"identified":[83],"18,165":[84],"high-confidence":[85],"maize,":[88],"which":[90],"6,873":[91],"conserved":[93,104,117,144,183],"between":[94,181],"uncovered":[99],"distinct":[100],"characteristics":[102],"lncRNAs,":[105,107],"non-conserved":[106,150,186],"protein-coding":[109,126],"transcripts.":[110,127],"Intriguingly,":[111],"Shannon":[112],"entropy":[113],"analysis":[114,130,141,172],"showed":[115],"that":[116,143],"likely":[120,148],"be":[122,153],"expressed":[123],"similarly":[124],"Co-expression":[128],"network":[129],"revealed":[131],"significant":[132],"variation":[133],"degree":[136],"co-expression.":[138],"Furthermore,":[139],"selection":[140],"indicated":[142],"more":[147],"than":[149],"located":[154],"regions":[156],"subject":[157],"recent":[159],"selection,":[160],"indicating":[161],"evolutionary":[162],"differentiation.":[163],"Our":[164],"results":[165],"provide":[166],"annotation":[170],"uncover":[177],"potential":[178],"functional":[179],"divergence":[180],"protein-coding,":[182],"lncRNA,":[184],"lncRNA":[187],"genes,":[188],"demonstrating":[189],"high":[191],"complexity":[192],"transcriptome.":[196]},"counts_by_year":[{"year":2026,"cited_by_count":3},{"year":2025,"cited_by_count":3},{"year":2024,"cited_by_count":1},{"year":2023,"cited_by_count":6},{"year":2022,"cited_by_count":3},{"year":2021,"cited_by_count":3},{"year":2020,"cited_by_count":3},{"year":2019,"cited_by_count":1}],"updated_date":"2026-11-07T11:25:07.637180","created_date":"2018-08-22T00:00:00"}