A cluster of Ankyrin and Ankyrin-TPR repeat genes is associated with panicle branching diversity in rice
The number of grains per panicle is an important yield-related trait in cereals which depends in part on panicle branching complexity. One component of this complexity is the number of secondary branches per panicle. Previously, a GWAS site associated with secondary branch and spikelet numbers per p...
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| Veröffentlicht in: | PLoS genetics 2021-06, Vol.17 (6), p.e1009594-e1009594 |
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| creator | Khong, Giang Ngan Le, Nhu Thi Pham, Mai Thi Adam, Helene Gauron, Carole Le, Hoa Quang Pham, Dung Tien Colonges, Kelly Pham, Xuan Hoi Do, Vinh Nang Lebrun, Michel Jouannic, Stefan |
| description | The number of grains per panicle is an important yield-related trait in cereals which depends in part on panicle branching complexity. One component of this complexity is the number of secondary branches per panicle. Previously, a GWAS site associated with secondary branch and spikelet numbers per panicle in rice was identified. Here we combined gene capture, bi-parental genetic population analysis, expression profiling and transgenic approaches in order to investigate the functional significance of a cluster of 6 ANK and ANK-TPR genes within the QTL. Four of the ANK and ANK-TPR genes present a differential expression associated with panicle secondary branch number in contrasted accessions. These differential expression patterns correlate in the different alleles of these genes with specific deletions of potential cis-regulatory sequences in their promoters. Two of these genes were confirmed through functional analysis as playing a role in the control of panicle architecture. Our findings indicate that secondary branching diversity in the rice panicle is governed in part by differentially expressed genes within this cluster encoding ANK and ANK-TPR domain proteins that may act as positive or negative regulators of panicle meristem's identity transition from indeterminate to determinate state. |
| doi_str_mv | 10.1371/journal.pgen.1009594 |
| format | Article |
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One component of this complexity is the number of secondary branches per panicle. Previously, a GWAS site associated with secondary branch and spikelet numbers per panicle in rice was identified. Here we combined gene capture, bi-parental genetic population analysis, expression profiling and transgenic approaches in order to investigate the functional significance of a cluster of 6 ANK and ANK-TPR genes within the QTL. Four of the ANK and ANK-TPR genes present a differential expression associated with panicle secondary branch number in contrasted accessions. These differential expression patterns correlate in the different alleles of these genes with specific deletions of potential cis-regulatory sequences in their promoters. Two of these genes were confirmed through functional analysis as playing a role in the control of panicle architecture. Our findings indicate that secondary branching diversity in the rice panicle is governed in part by differentially expressed genes within this cluster encoding ANK and ANK-TPR domain proteins that may act as positive or negative regulators of panicle meristem's identity transition from indeterminate to determinate state.</description><identifier>ISSN: 1553-7404</identifier><identifier>ISSN: 1553-7390</identifier><identifier>EISSN: 1553-7404</identifier><identifier>DOI: 10.1371/journal.pgen.1009594</identifier><identifier>PMID: 34097698</identifier><language>eng</language><publisher>San Francisco: Public Library of Science</publisher><subject>Ankyrins ; Binding sites ; Biology and Life Sciences ; Branching ; Cereals ; Development ; Genes ; Genetic analysis ; Genetic aspects ; Genetics ; Genomes ; Haplotypes ; Life Sciences ; Membrane proteins ; Meristems ; Morphology ; Physiological aspects ; Plant growth ; Plants ; Population genetics ; Population studies ; Proteins ; Quantitative trait loci ; Regulatory sequences ; Research and Analysis Methods ; Rice ; Transcription factors</subject><ispartof>PLoS genetics, 2021-06, Vol.17 (6), p.e1009594-e1009594</ispartof><rights>COPYRIGHT 2021 Public Library of Science</rights><rights>2021 Khong et al. 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Our findings indicate that secondary branching diversity in the rice panicle is governed in part by differentially expressed genes within this cluster encoding ANK and ANK-TPR domain proteins that may act as positive or negative regulators of panicle meristem's identity transition from indeterminate to determinate state.</description><subject>Ankyrins</subject><subject>Binding sites</subject><subject>Biology and Life Sciences</subject><subject>Branching</subject><subject>Cereals</subject><subject>Development</subject><subject>Genes</subject><subject>Genetic analysis</subject><subject>Genetic aspects</subject><subject>Genetics</subject><subject>Genomes</subject><subject>Haplotypes</subject><subject>Life Sciences</subject><subject>Membrane proteins</subject><subject>Meristems</subject><subject>Morphology</subject><subject>Physiological aspects</subject><subject>Plant growth</subject><subject>Plants</subject><subject>Population genetics</subject><subject>Population 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cluster of Ankyrin and Ankyrin-TPR repeat genes is associated with panicle branching diversity in rice</title><author>Khong, Giang Ngan ; Le, Nhu Thi ; Pham, Mai Thi ; Adam, Helene ; Gauron, Carole ; Le, Hoa Quang ; Pham, Dung Tien ; Colonges, Kelly ; Pham, Xuan Hoi ; Do, Vinh Nang ; Lebrun, Michel ; Jouannic, Stefan</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c737t-df6cb1f48251334b0e28f7ad9bb85caf915ea9ab02e6737cdd63a1730ce336783</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2021</creationdate><topic>Ankyrins</topic><topic>Binding sites</topic><topic>Biology and Life Sciences</topic><topic>Branching</topic><topic>Cereals</topic><topic>Development</topic><topic>Genes</topic><topic>Genetic analysis</topic><topic>Genetic aspects</topic><topic>Genetics</topic><topic>Genomes</topic><topic>Haplotypes</topic><topic>Life Sciences</topic><topic>Membrane proteins</topic><topic>Meristems</topic><topic>Morphology</topic><topic>Physiological aspects</topic><topic>Plant growth</topic><topic>Plants</topic><topic>Population genetics</topic><topic>Population studies</topic><topic>Proteins</topic><topic>Quantitative trait loci</topic><topic>Regulatory sequences</topic><topic>Research and Analysis Methods</topic><topic>Rice</topic><topic>Transcription factors</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Khong, Giang Ngan</creatorcontrib><creatorcontrib>Le, Nhu Thi</creatorcontrib><creatorcontrib>Pham, Mai Thi</creatorcontrib><creatorcontrib>Adam, Helene</creatorcontrib><creatorcontrib>Gauron, Carole</creatorcontrib><creatorcontrib>Le, Hoa Quang</creatorcontrib><creatorcontrib>Pham, Dung Tien</creatorcontrib><creatorcontrib>Colonges, Kelly</creatorcontrib><creatorcontrib>Pham, Xuan Hoi</creatorcontrib><creatorcontrib>Do, Vinh Nang</creatorcontrib><creatorcontrib>Lebrun, 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branching complexity. 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| subjects | Ankyrins Binding sites Biology and Life Sciences Branching Cereals Development Genes Genetic analysis Genetic aspects Genetics Genomes Haplotypes Life Sciences Membrane proteins Meristems Morphology Physiological aspects Plant growth Plants Population genetics Population studies Proteins Quantitative trait loci Regulatory sequences Research and Analysis Methods Rice Transcription factors |
| title | A cluster of Ankyrin and Ankyrin-TPR repeat genes is associated with panicle branching diversity in rice |
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