Genome-wide identification and characterization of auxin response factor (ARF) family genes related to flower and fruit development in papaya (Carica papaya L.)
Identifieur interne : 000622 ( Main/Exploration ); précédent : 000621; suivant : 000623Genome-wide identification and characterization of auxin response factor (ARF) family genes related to flower and fruit development in papaya (Carica papaya L.)
Auteurs : Kaidong Liu ; Changchun Yuan ; Haili Li ; Wanhuang Lin ; Yanjun Yang [République populaire de Chine] ; Chenjia Shen [République populaire de Chine] ; Xiaolin Zheng [République populaire de Chine]Source :
- BMC Genomics [ 1471-2164 ] ; 2015.
Abstract
Auxin and auxin signaling are involved in a series of developmental processes in plants. Auxin Response Factors (ARFs) is reported to modulate the expression of target genes by binding to auxin response elements (AuxREs) and influence the transcriptional activation of down-stream target genes. However, how ARF genes function in flower development and fruit ripening of papaya (
We analyzed
Our study provided comprehensive information on
The online version of this article (doi:10.1186/s12864-015-2182-0) contains supplementary material, which is available to authorized users.
Url:
DOI: 10.1186/s12864-015-2182-0
PubMed: 26541414
PubMed Central: 4635992
Affiliations:
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<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">Genome-wide identification and characterization of <italic>auxin response factor</italic> (<italic>ARF</italic>) family genes related to flower and fruit development in papaya (<italic>Carica papaya</italic> L.)</title><author><name sortKey="Liu, Kaidong" sort="Liu, Kaidong" uniqKey="Liu K" first="Kaidong" last="Liu">Kaidong Liu</name><affiliation><nlm:aff id="Aff1">College of Bioscience and Technology, Hunan Agricultural University, Changsha, Hunan 410128 China</nlm:aff><wicri:noCountry code="subfield">Hunan 410128 China</wicri:noCountry></affiliation><affiliation><nlm:aff id="Aff4">Life Science and Technology School, Lingnan Normal University, Zhanjiang, Guangdong 524048 China</nlm:aff><wicri:noCountry code="subfield">Guangdong 524048 China</wicri:noCountry></affiliation></author><author><name sortKey="Yuan, Changchun" sort="Yuan, Changchun" uniqKey="Yuan C" first="Changchun" last="Yuan">Changchun Yuan</name><affiliation><nlm:aff id="Aff4">Life Science and Technology School, Lingnan Normal University, Zhanjiang, Guangdong 524048 China</nlm:aff><wicri:noCountry code="subfield">Guangdong 524048 China</wicri:noCountry></affiliation></author><author><name sortKey="Li, Haili" sort="Li, Haili" uniqKey="Li H" first="Haili" last="Li">Haili Li</name><affiliation><nlm:aff id="Aff4">Life Science and Technology School, Lingnan Normal University, Zhanjiang, Guangdong 524048 China</nlm:aff><wicri:noCountry code="subfield">Guangdong 524048 China</wicri:noCountry></affiliation></author><author><name sortKey="Lin, Wanhuang" sort="Lin, Wanhuang" uniqKey="Lin W" first="Wanhuang" last="Lin">Wanhuang Lin</name><affiliation><nlm:aff id="Aff1">College of Bioscience and Technology, Hunan Agricultural University, Changsha, Hunan 410128 China</nlm:aff><wicri:noCountry code="subfield">Hunan 410128 China</wicri:noCountry></affiliation></author><author><name sortKey="Yang, Yanjun" sort="Yang, Yanjun" uniqKey="Yang Y" first="Yanjun" last="Yang">Yanjun Yang</name><affiliation wicri:level="3"><nlm:aff id="Aff3">College of Life and Environmental Sciences, Hangzhou Normal University, Hangzhou, 310036 China</nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>College of Life and Environmental Sciences, Hangzhou Normal University, Hangzhou</wicri:regionArea><placeName><settlement type="city">Hangzhou</settlement><region type="province">Zhejiang</region></placeName></affiliation></author><author><name sortKey="Shen, Chenjia" sort="Shen, Chenjia" uniqKey="Shen C" first="Chenjia" last="Shen">Chenjia Shen</name><affiliation wicri:level="3"><nlm:aff id="Aff3">College of Life and Environmental Sciences, Hangzhou Normal University, Hangzhou, 310036 China</nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>College of Life and Environmental Sciences, Hangzhou Normal University, Hangzhou</wicri:regionArea><placeName><settlement type="city">Hangzhou</settlement><region type="province">Zhejiang</region></placeName></affiliation></author><author><name sortKey="Zheng, Xiaolin" sort="Zheng, Xiaolin" uniqKey="Zheng X" first="Xiaolin" last="Zheng">Xiaolin Zheng</name><affiliation wicri:level="3"><nlm:aff id="Aff2">College of Food Science and Biotechnology, Zhejiang Gongshang University, Hangzhou, 310035 China</nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>College of Food Science and Biotechnology, Zhejiang Gongshang University, Hangzhou</wicri:regionArea><placeName><settlement type="city">Hangzhou</settlement><region type="province">Zhejiang</region></placeName></affiliation></author></titleStmt><publicationStmt><idno type="wicri:source">PMC</idno><idno type="pmid">26541414</idno><idno type="pmc">4635992</idno><idno type="url">http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4635992</idno><idno type="RBID">PMC:4635992</idno><idno type="doi">10.1186/s12864-015-2182-0</idno><date when="2015">2015</date><idno type="wicri:Area/Pmc/Corpus">000595</idno><idno type="wicri:Area/Pmc/Curation">000594</idno><idno type="wicri:Area/Pmc/Checkpoint">000486</idno><idno type="wicri:Area/Ncbi/Merge">001D85</idno><idno type="wicri:Area/Ncbi/Curation">001D85</idno><idno type="wicri:Area/Ncbi/Checkpoint">001D85</idno><idno type="wicri:Area/Main/Merge">000622</idno><idno type="wicri:Area/Main/Curation">000622</idno><idno type="wicri:Area/Main/Exploration">000622</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en" level="a" type="main">Genome-wide identification and characterization of <italic>auxin response factor</italic> (<italic>ARF</italic>) family genes related to flower and fruit development in papaya (<italic>Carica papaya</italic> L.)</title><author><name sortKey="Liu, Kaidong" sort="Liu, Kaidong" uniqKey="Liu K" first="Kaidong" last="Liu">Kaidong Liu</name><affiliation><nlm:aff id="Aff1">College of Bioscience and Technology, Hunan Agricultural University, Changsha, Hunan 410128 China</nlm:aff><wicri:noCountry code="subfield">Hunan 410128 China</wicri:noCountry></affiliation><affiliation><nlm:aff id="Aff4">Life Science and Technology School, Lingnan Normal University, Zhanjiang, Guangdong 524048 China</nlm:aff><wicri:noCountry code="subfield">Guangdong 524048 China</wicri:noCountry></affiliation></author><author><name sortKey="Yuan, Changchun" sort="Yuan, Changchun" uniqKey="Yuan C" first="Changchun" last="Yuan">Changchun Yuan</name><affiliation><nlm:aff id="Aff4">Life Science and Technology School, Lingnan Normal University, Zhanjiang, Guangdong 524048 China</nlm:aff><wicri:noCountry code="subfield">Guangdong 524048 China</wicri:noCountry></affiliation></author><author><name sortKey="Li, Haili" sort="Li, Haili" uniqKey="Li H" first="Haili" last="Li">Haili Li</name><affiliation><nlm:aff id="Aff4">Life Science and Technology School, Lingnan Normal University, Zhanjiang, Guangdong 524048 China</nlm:aff><wicri:noCountry code="subfield">Guangdong 524048 China</wicri:noCountry></affiliation></author><author><name sortKey="Lin, Wanhuang" sort="Lin, Wanhuang" uniqKey="Lin W" first="Wanhuang" last="Lin">Wanhuang Lin</name><affiliation><nlm:aff id="Aff1">College of Bioscience and Technology, Hunan Agricultural University, Changsha, Hunan 410128 China</nlm:aff><wicri:noCountry code="subfield">Hunan 410128 China</wicri:noCountry></affiliation></author><author><name sortKey="Yang, Yanjun" sort="Yang, Yanjun" uniqKey="Yang Y" first="Yanjun" last="Yang">Yanjun Yang</name><affiliation wicri:level="3"><nlm:aff id="Aff3">College of Life and Environmental Sciences, Hangzhou Normal University, Hangzhou, 310036 China</nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>College of Life and Environmental Sciences, Hangzhou Normal University, Hangzhou</wicri:regionArea><placeName><settlement type="city">Hangzhou</settlement><region type="province">Zhejiang</region></placeName></affiliation></author><author><name sortKey="Shen, Chenjia" sort="Shen, Chenjia" uniqKey="Shen C" first="Chenjia" last="Shen">Chenjia Shen</name><affiliation wicri:level="3"><nlm:aff id="Aff3">College of Life and Environmental Sciences, Hangzhou Normal University, Hangzhou, 310036 China</nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>College of Life and Environmental Sciences, Hangzhou Normal University, Hangzhou</wicri:regionArea><placeName><settlement type="city">Hangzhou</settlement><region type="province">Zhejiang</region></placeName></affiliation></author><author><name sortKey="Zheng, Xiaolin" sort="Zheng, Xiaolin" uniqKey="Zheng X" first="Xiaolin" last="Zheng">Xiaolin Zheng</name><affiliation wicri:level="3"><nlm:aff id="Aff2">College of Food Science and Biotechnology, Zhejiang Gongshang University, Hangzhou, 310035 China</nlm:aff><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>College of Food Science and Biotechnology, Zhejiang Gongshang University, Hangzhou</wicri:regionArea><placeName><settlement type="city">Hangzhou</settlement><region type="province">Zhejiang</region></placeName></affiliation></author></analytic><series><title level="j">BMC Genomics</title><idno type="eISSN">1471-2164</idno><imprint><date when="2015">2015</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><sec><title>Background</title><p>Auxin and auxin signaling are involved in a series of developmental processes in plants. Auxin Response Factors (ARFs) is reported to modulate the expression of target genes by binding to auxin response elements (AuxREs) and influence the transcriptional activation of down-stream target genes. However, how ARF genes function in flower development and fruit ripening of papaya (<italic>Carica papaya</italic> L.) is largely unknown. In this study, a comprehensive characterization and expression profiling analysis of 11 <italic>C. papaya ARF</italic> (<italic>CpARF</italic>) genes was performed using the newly updated papaya reference genome data.</p></sec><sec><title>Results</title><p>We analyzed <italic>CpARF e</italic>xpression patterns at different developmental stages. <italic>CpARF1</italic>, <italic>CpARF2</italic>, <italic>CpARF4</italic>, <italic>CpARF5</italic>, and <italic>CpARF10</italic> showed the highest expression at the initial stage of flower development, but decreased during the following developmental stages. <italic>CpARF6</italic> expression increased during the developmental process and reached its peak level at the final stage of flower development. The expression of <italic>CpARF1</italic> increased significantly during the fruit ripening stages. Many AuxREs were included in the promoters of two ethylene signaling genes (<italic>CpETR1</italic> and <italic>CpETR2</italic>) and three ethylene-synthesis-related genes (<italic>CpACS1</italic>, <italic>CpACS2</italic>, and <italic>CpACO1</italic>), suggesting that CpARFs might be involved in fruit ripening via the regulation of ethylene signaling.</p></sec><sec><title>Conclusions</title><p>Our study provided comprehensive information on <italic>ARF</italic> family in papaya, including gene structures, chromosome locations, phylogenetic relationships, and expression patterns. The involvement of <italic>CpARF</italic> gene expression changes in flower and fruit development allowed us to understand the role of ARF-mediated auxin signaling in the maturation of reproductive organs in papaya.</p></sec><sec><title>Electronic supplementary material</title><p>The online version of this article (doi:10.1186/s12864-015-2182-0) contains supplementary material, which is available to authorized users.</p></sec></div></front><back><div1 type="bibliography"><listBibl><biblStruct><analytic><author><name sortKey="Woodward, Aw" uniqKey="Woodward A">AW Woodward</name></author><author><name sortKey="Bartel, B" uniqKey="Bartel B">B Bartel</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Ljung, K" uniqKey="Ljung K">K Ljung</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Kumar, R" uniqKey="Kumar R">R Kumar</name></author><author><name sortKey="Tyagi, Ak" uniqKey="Tyagi A">AK Tyagi</name></author><author><name 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Chine</li></country><region><li>Zhejiang</li></region><settlement><li>Hangzhou</li></settlement></list><tree><noCountry><name sortKey="Li, Haili" sort="Li, Haili" uniqKey="Li H" first="Haili" last="Li">Haili Li</name><name sortKey="Lin, Wanhuang" sort="Lin, Wanhuang" uniqKey="Lin W" first="Wanhuang" last="Lin">Wanhuang Lin</name><name sortKey="Liu, Kaidong" sort="Liu, Kaidong" uniqKey="Liu K" first="Kaidong" last="Liu">Kaidong Liu</name><name sortKey="Yuan, Changchun" sort="Yuan, Changchun" uniqKey="Yuan C" first="Changchun" last="Yuan">Changchun Yuan</name></noCountry><country name="République populaire de Chine"><region name="Zhejiang"><name sortKey="Yang, Yanjun" sort="Yang, Yanjun" uniqKey="Yang Y" first="Yanjun" last="Yang">Yanjun Yang</name></region><name sortKey="Shen, Chenjia" sort="Shen, Chenjia" uniqKey="Shen C" first="Chenjia" last="Shen">Chenjia Shen</name><name sortKey="Zheng, Xiaolin" sort="Zheng, Xiaolin" uniqKey="Zheng X" first="Xiaolin" last="Zheng">Xiaolin 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