Comprehensive Analysis of the COBRA-Like (COBL) Gene Family in Gossypium Identifies Two COBLs Potentially Associated with Fiber Quality
COBRA-Like (COBL) genes, which encode a plant-specific glycosylphosphatidylinositol (GPI) anchored protein, have been proven to be key regulators in the orientation of cell expansion and cellulose crystallinity status. Genome-wide analysis has been performed in A. thaliana, O. sativa, Z. mays and S....
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description | COBRA-Like (COBL) genes, which encode a plant-specific glycosylphosphatidylinositol (GPI) anchored protein, have been proven to be key regulators in the orientation of cell expansion and cellulose crystallinity status. Genome-wide analysis has been performed in A. thaliana, O. sativa, Z. mays and S. lycopersicum, but little in Gossypium. Here we identified 19, 18 and 33 candidate COBL genes from three sequenced cotton species, diploid cotton G. raimondii, G. arboreum and tetraploid cotton G. hirsutum acc. TM-1, respectively. These COBL members were anchored onto 10 chromosomes in G. raimondii and could be divided into two subgroups. Expression patterns of COBL genes showed highly developmental and spatial regulation in G. hirsutum acc. TM-1. Of them, GhCOBL9 and GhCOBL13 were preferentially expressed at the secondary cell wall stage of fiber development and had significantly co-upregulated expression with cellulose synthase genes GhCESA4, GhCESA7 and GhCESA8. Besides, GhCOBL9 Dt and GhCOBL13 Dt were co-localized with previously reported cotton fiber quality quantitative trait loci (QTLs) and the favorable allele types of GhCOBL9 Dt had significantly positive correlations with fiber quality traits, indicating that these two genes might play an important role in fiber development. |
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Genome-wide analysis has been performed in A. thaliana, O. sativa, Z. mays and S. lycopersicum, but little in Gossypium. Here we identified 19, 18 and 33 candidate COBL genes from three sequenced cotton species, diploid cotton G. raimondii, G. arboreum and tetraploid cotton G. hirsutum acc. TM-1, respectively. These COBL members were anchored onto 10 chromosomes in G. raimondii and could be divided into two subgroups. Expression patterns of COBL genes showed highly developmental and spatial regulation in G. hirsutum acc. TM-1. Of them, GhCOBL9 and GhCOBL13 were preferentially expressed at the secondary cell wall stage of fiber development and had significantly co-upregulated expression with cellulose synthase genes GhCESA4, GhCESA7 and GhCESA8. Besides, GhCOBL9 Dt and GhCOBL13 Dt were co-localized with previously reported cotton fiber quality quantitative trait loci (QTLs) and the favorable allele types of GhCOBL9 Dt had significantly positive correlations with fiber quality traits, indicating that these two genes might play an important role in fiber development.</description><identifier>ISSN: 1932-6203</identifier><identifier>EISSN: 1932-6203</identifier><identifier>DOI: 10.1371/journal.pone.0145725</identifier><identifier>PMID: 26710066</identifier><language>eng</language><publisher>United States: Public Library of Science</publisher><subject>Agricultural production ; Amino Acid Sequence ; Arabidopsis ; Biosynthesis ; Cell walls ; Cellulose ; Cellulose fibers ; Cellulose synthase ; Chromosome Mapping ; Chromosomes ; Conserved Sequence ; Cotton ; Cotton (Plant) ; Cotton Fiber ; Developmental stages ; Diploidy ; Education ; Engineering research ; Evolution & development ; Gene Duplication ; Gene expression ; Gene Expression Regulation, Developmental ; Gene Expression Regulation, Plant ; Genes ; Genes, Plant ; Genetic aspects ; Genetics ; Genomes ; Genomics ; Genotype & phenotype ; Germplasm ; Glycosylphosphatidylinositol ; Gossypium ; Gossypium - genetics ; Gossypium - growth & development ; Gossypium - metabolism ; Gossypium hirsutum ; Laboratories ; Mitochondrial DNA ; Molecular Sequence Data ; Multigene Family ; Oryza sativa ; Phylogeny ; Physiological aspects ; Plant development ; Plant Proteins - genetics ; Polymorphism, Single Nucleotide ; Proteins ; Quality ; Quantitative genetics ; Quantitative Trait Loci ; Regulators ; Sequence Homology, Amino Acid ; Species Specificity ; Subgroups ; Tetraploidy</subject><ispartof>PloS one, 2015-12, Vol.10 (12), p.e0145725-e0145725</ispartof><rights>COPYRIGHT 2015 Public Library of Science</rights><rights>2015 Niu et al. This is an open access article distributed under the terms of the Creative Commons Attribution License: http://creativecommons.org/licenses/by/4.0/ (the “License”), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License.</rights><rights>2015 Niu et al 2015 Niu et al</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c692t-d49fb4dc347cd12828d276c79d4fe7a32909aed33b86158dde7e0f91b53b59fe3</citedby><cites>FETCH-LOGICAL-c692t-d49fb4dc347cd12828d276c79d4fe7a32909aed33b86158dde7e0f91b53b59fe3</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC4692504/pdf/$$EPDF$$P50$$Gpubmedcentral$$Hfree_for_read</linktopdf><linktohtml>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC4692504/$$EHTML$$P50$$Gpubmedcentral$$Hfree_for_read</linktohtml><link.rule.ids>230,315,728,781,785,865,886,2103,2929,23870,27928,27929,53795,53797</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/26710066$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><contributor>Rong, Junkang</contributor><creatorcontrib>Niu, Erli</creatorcontrib><creatorcontrib>Shang, Xiaoguang</creatorcontrib><creatorcontrib>Cheng, Chaoze</creatorcontrib><creatorcontrib>Bao, Jianghao</creatorcontrib><creatorcontrib>Zeng, Yanda</creatorcontrib><creatorcontrib>Cai, Caiping</creatorcontrib><creatorcontrib>Du, Xiongming</creatorcontrib><creatorcontrib>Guo, Wangzhen</creatorcontrib><title>Comprehensive Analysis of the COBRA-Like (COBL) Gene Family in Gossypium Identifies Two COBLs Potentially Associated with Fiber Quality</title><title>PloS one</title><addtitle>PLoS One</addtitle><description>COBRA-Like (COBL) genes, which encode a plant-specific glycosylphosphatidylinositol (GPI) anchored protein, have been proven to be key regulators in the orientation of cell expansion and cellulose crystallinity status. Genome-wide analysis has been performed in A. thaliana, O. sativa, Z. mays and S. lycopersicum, but little in Gossypium. Here we identified 19, 18 and 33 candidate COBL genes from three sequenced cotton species, diploid cotton G. raimondii, G. arboreum and tetraploid cotton G. hirsutum acc. TM-1, respectively. These COBL members were anchored onto 10 chromosomes in G. raimondii and could be divided into two subgroups. Expression patterns of COBL genes showed highly developmental and spatial regulation in G. hirsutum acc. TM-1. Of them, GhCOBL9 and GhCOBL13 were preferentially expressed at the secondary cell wall stage of fiber development and had significantly co-upregulated expression with cellulose synthase genes GhCESA4, GhCESA7 and GhCESA8. Besides, GhCOBL9 Dt and GhCOBL13 Dt were co-localized with previously reported cotton fiber quality quantitative trait loci (QTLs) and the favorable allele types of GhCOBL9 Dt had significantly positive correlations with fiber quality traits, indicating that these two genes might play an important role in fiber development.</description><subject>Agricultural production</subject><subject>Amino Acid Sequence</subject><subject>Arabidopsis</subject><subject>Biosynthesis</subject><subject>Cell walls</subject><subject>Cellulose</subject><subject>Cellulose fibers</subject><subject>Cellulose synthase</subject><subject>Chromosome Mapping</subject><subject>Chromosomes</subject><subject>Conserved Sequence</subject><subject>Cotton</subject><subject>Cotton (Plant)</subject><subject>Cotton Fiber</subject><subject>Developmental stages</subject><subject>Diploidy</subject><subject>Education</subject><subject>Engineering research</subject><subject>Evolution & development</subject><subject>Gene 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Analysis of the COBRA-Like (COBL) Gene Family in Gossypium Identifies Two COBLs Potentially Associated with Fiber Quality</title><author>Niu, Erli ; Shang, Xiaoguang ; Cheng, Chaoze ; Bao, Jianghao ; Zeng, Yanda ; Cai, Caiping ; Du, Xiongming ; Guo, Wangzhen</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c692t-d49fb4dc347cd12828d276c79d4fe7a32909aed33b86158dde7e0f91b53b59fe3</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2015</creationdate><topic>Agricultural production</topic><topic>Amino Acid Sequence</topic><topic>Arabidopsis</topic><topic>Biosynthesis</topic><topic>Cell walls</topic><topic>Cellulose</topic><topic>Cellulose fibers</topic><topic>Cellulose synthase</topic><topic>Chromosome Mapping</topic><topic>Chromosomes</topic><topic>Conserved Sequence</topic><topic>Cotton</topic><topic>Cotton (Plant)</topic><topic>Cotton Fiber</topic><topic>Developmental 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Quality</atitle><jtitle>PloS one</jtitle><addtitle>PLoS One</addtitle><date>2015-12-28</date><risdate>2015</risdate><volume>10</volume><issue>12</issue><spage>e0145725</spage><epage>e0145725</epage><pages>e0145725-e0145725</pages><issn>1932-6203</issn><eissn>1932-6203</eissn><abstract>COBRA-Like (COBL) genes, which encode a plant-specific glycosylphosphatidylinositol (GPI) anchored protein, have been proven to be key regulators in the orientation of cell expansion and cellulose crystallinity status. Genome-wide analysis has been performed in A. thaliana, O. sativa, Z. mays and S. lycopersicum, but little in Gossypium. Here we identified 19, 18 and 33 candidate COBL genes from three sequenced cotton species, diploid cotton G. raimondii, G. arboreum and tetraploid cotton G. hirsutum acc. TM-1, respectively. These COBL members were anchored onto 10 chromosomes in G. raimondii and could be divided into two subgroups. Expression patterns of COBL genes showed highly developmental and spatial regulation in G. hirsutum acc. TM-1. Of them, GhCOBL9 and GhCOBL13 were preferentially expressed at the secondary cell wall stage of fiber development and had significantly co-upregulated expression with cellulose synthase genes GhCESA4, GhCESA7 and GhCESA8. Besides, GhCOBL9 Dt and GhCOBL13 Dt were co-localized with previously reported cotton fiber quality quantitative trait loci (QTLs) and the favorable allele types of GhCOBL9 Dt had significantly positive correlations with fiber quality traits, indicating that these two genes might play an important role in fiber development.</abstract><cop>United States</cop><pub>Public Library of Science</pub><pmid>26710066</pmid><doi>10.1371/journal.pone.0145725</doi><oa>free_for_read</oa></addata></record> |
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subjects | Agricultural production Amino Acid Sequence Arabidopsis Biosynthesis Cell walls Cellulose Cellulose fibers Cellulose synthase Chromosome Mapping Chromosomes Conserved Sequence Cotton Cotton (Plant) Cotton Fiber Developmental stages Diploidy Education Engineering research Evolution & development Gene Duplication Gene expression Gene Expression Regulation, Developmental Gene Expression Regulation, Plant Genes Genes, Plant Genetic aspects Genetics Genomes Genomics Genotype & phenotype Germplasm Glycosylphosphatidylinositol Gossypium Gossypium - genetics Gossypium - growth & development Gossypium - metabolism Gossypium hirsutum Laboratories Mitochondrial DNA Molecular Sequence Data Multigene Family Oryza sativa Phylogeny Physiological aspects Plant development Plant Proteins - genetics Polymorphism, Single Nucleotide Proteins Quality Quantitative genetics Quantitative Trait Loci Regulators Sequence Homology, Amino Acid Species Specificity Subgroups Tetraploidy |
title | Comprehensive Analysis of the COBRA-Like (COBL) Gene Family in Gossypium Identifies Two COBLs Potentially Associated with Fiber Quality |
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