Genome-wide identification of sweet orange (Citrus sinensis) histone modification gene families and their expression analysis during the fruit development and fruit-blue mold infection process.
Identifieur interne : 000144 ( PubMed/Curation ); précédent : 000143; suivant : 000145Genome-wide identification of sweet orange (Citrus sinensis) histone modification gene families and their expression analysis during the fruit development and fruit-blue mold infection process.
Auteurs : Jidi Xu [République populaire de Chine] ; Haidan Xu [République populaire de Chine] ; Yuanlong Liu [République populaire de Chine] ; Xia Wang [République populaire de Chine] ; Qiang Xu [République populaire de Chine] ; Xiuxin Deng [République populaire de Chine]Source :
- Frontiers in plant science ; 2015.
Abstract
In eukaryotes, histone acetylation and methylation have been known to be involved in regulating diverse developmental processes and plant defense. These histone modification events are controlled by a series of histone modification gene families. To date, there is no study regarding genome-wide characterization of histone modification related genes in citrus species. Based on the two recent sequenced sweet orange genome databases, a total of 136 CsHMs (Citrus sinensis histone modification genes), including 47 CsHMTs (histone methyltransferase genes), 23 CsHDMs (histone demethylase genes), 50 CsHATs (histone acetyltransferase genes), and 16 CsHDACs (histone deacetylase genes) were identified. These genes were categorized to 11 gene families. A comprehensive analysis of these 11 gene families was performed with chromosome locations, phylogenetic comparison, gene structures, and conserved domain compositions of proteins. In order to gain an insight into the potential roles of these genes in citrus fruit development, 42 CsHMs with high mRNA abundance in fruit tissues were selected to further analyze their expression profiles at six stages of fruit development. Interestingly, a numbers of genes were expressed highly in flesh of ripening fruit and some of them showed the increasing expression levels along with the fruit development. Furthermore, we analyzed the expression patterns of all 136 CsHMs response to the infection of blue mold (Penicillium digitatum), which is the most devastating pathogen in citrus post-harvest process. The results indicated that 20 of them showed the strong alterations of their expression levels during the fruit-pathogen infection. In conclusion, this study presents a comprehensive analysis of the histone modification gene families in sweet orange and further elucidates their behaviors during the fruit development and the blue mold infection responses.
DOI: 10.3389/fpls.2015.00607
PubMed: 26300904
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Laboratory of Horticultural Plant Biology (Ministry of Education), Huazhong Agricultural University Wuhan, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Key Laboratory of Horticultural Plant Biology (Ministry of Education), Huazhong Agricultural University Wuhan</wicri:regionArea></affiliation></author><author><name sortKey="Xu, Qiang" sort="Xu, Qiang" uniqKey="Xu Q" first="Qiang" last="Xu">Qiang Xu</name><affiliation wicri:level="1"><nlm:affiliation>Key Laboratory of Horticultural Plant Biology (Ministry of Education), Huazhong Agricultural University Wuhan, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Key Laboratory of Horticultural Plant Biology (Ministry of Education), Huazhong Agricultural University Wuhan</wicri:regionArea></affiliation></author><author><name sortKey="Deng, Xiuxin" sort="Deng, Xiuxin" uniqKey="Deng X" first="Xiuxin" last="Deng">Xiuxin 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infection process.</title><author><name sortKey="Xu, Jidi" sort="Xu, Jidi" uniqKey="Xu J" first="Jidi" last="Xu">Jidi Xu</name><affiliation wicri:level="1"><nlm:affiliation>Key Laboratory of Horticultural Plant Biology (Ministry of Education), Huazhong Agricultural University Wuhan, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Key Laboratory of Horticultural Plant Biology (Ministry of Education), Huazhong Agricultural University Wuhan</wicri:regionArea></affiliation></author><author><name sortKey="Xu, Haidan" sort="Xu, Haidan" uniqKey="Xu H" first="Haidan" last="Xu">Haidan Xu</name><affiliation wicri:level="1"><nlm:affiliation>Key Laboratory of Horticultural Plant Biology (Ministry of Education), Huazhong Agricultural University Wuhan, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Key Laboratory of Horticultural Plant Biology (Ministry of Education), Huazhong Agricultural University Wuhan</wicri:regionArea></affiliation></author><author><name sortKey="Liu, Yuanlong" sort="Liu, Yuanlong" uniqKey="Liu Y" first="Yuanlong" last="Liu">Yuanlong Liu</name><affiliation wicri:level="1"><nlm:affiliation>Key Laboratory of Horticultural Plant Biology (Ministry of Education), Huazhong Agricultural University Wuhan, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Key Laboratory of Horticultural Plant Biology (Ministry of Education), Huazhong Agricultural University Wuhan</wicri:regionArea></affiliation></author><author><name sortKey="Wang, Xia" sort="Wang, Xia" uniqKey="Wang X" first="Xia" last="Wang">Xia Wang</name><affiliation wicri:level="1"><nlm:affiliation>Key Laboratory of Horticultural Plant Biology (Ministry of Education), Huazhong Agricultural University Wuhan, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Key Laboratory of Horticultural Plant Biology (Ministry of Education), Huazhong Agricultural University Wuhan</wicri:regionArea></affiliation></author><author><name sortKey="Xu, Qiang" sort="Xu, Qiang" uniqKey="Xu Q" first="Qiang" last="Xu">Qiang Xu</name><affiliation wicri:level="1"><nlm:affiliation>Key Laboratory of Horticultural Plant Biology (Ministry of Education), Huazhong Agricultural University Wuhan, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Key Laboratory of Horticultural Plant Biology (Ministry of Education), Huazhong Agricultural University Wuhan</wicri:regionArea></affiliation></author><author><name sortKey="Deng, Xiuxin" sort="Deng, Xiuxin" uniqKey="Deng X" first="Xiuxin" last="Deng">Xiuxin Deng</name><affiliation wicri:level="1"><nlm:affiliation>Key Laboratory of Horticultural Plant Biology (Ministry of Education), Huazhong Agricultural University Wuhan, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Key Laboratory of Horticultural Plant Biology (Ministry of Education), Huazhong Agricultural University Wuhan</wicri:regionArea></affiliation></author></analytic><series><title level="j">Frontiers in plant science</title><imprint><date when="2015" type="published">2015</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">In eukaryotes, histone acetylation and methylation have been known to be involved in regulating diverse developmental processes and plant defense. These histone modification events are controlled by a series of histone modification gene families. To date, there is no study regarding genome-wide characterization of histone modification related genes in citrus species. Based on the two recent sequenced sweet orange genome databases, a total of 136 CsHMs (Citrus sinensis histone modification genes), including 47 CsHMTs (histone methyltransferase genes), 23 CsHDMs (histone demethylase genes), 50 CsHATs (histone acetyltransferase genes), and 16 CsHDACs (histone deacetylase genes) were identified. These genes were categorized to 11 gene families. A comprehensive analysis of these 11 gene families was performed with chromosome locations, phylogenetic comparison, gene structures, and conserved domain compositions of proteins. In order to gain an insight into the potential roles of these genes in citrus fruit development, 42 CsHMs with high mRNA abundance in fruit tissues were selected to further analyze their expression profiles at six stages of fruit development. Interestingly, a numbers of genes were expressed highly in flesh of ripening fruit and some of them showed the increasing expression levels along with the fruit development. Furthermore, we analyzed the expression patterns of all 136 CsHMs response to the infection of blue mold (Penicillium digitatum), which is the most devastating pathogen in citrus post-harvest process. The results indicated that 20 of them showed the strong alterations of their expression levels during the fruit-pathogen infection. In conclusion, this study presents a comprehensive analysis of the histone modification gene families in sweet orange and further elucidates their behaviors during the fruit development and the blue mold infection responses.</div></front></TEI><pubmed><MedlineCitation Status="PubMed-not-MEDLINE" Owner="NLM"><PMID Version="1">26300904</PMID><DateCreated><Year>2015</Year><Month>8</Month><Day>24</Day></DateCreated><DateCompleted><Year>2015</Year><Month>08</Month><Day>24</Day></DateCompleted><DateRevised><Year>2015</Year><Month>8</Month><Day>26</Day></DateRevised><Article PubModel="Electronic-eCollection"><Journal><JournalIssue CitedMedium="Print"><Volume>6</Volume><PubDate><Year>2015</Year></PubDate></JournalIssue><Title>Frontiers in plant science</Title><ISOAbbreviation>Front Plant Sci</ISOAbbreviation></Journal><ArticleTitle>Genome-wide identification of sweet orange (Citrus sinensis) histone modification gene families and their expression analysis during the fruit development and fruit-blue mold infection process.</ArticleTitle><Pagination><MedlinePgn>607</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.3389/fpls.2015.00607</ELocationID><Abstract><AbstractText>In eukaryotes, histone acetylation and methylation have been known to be involved in regulating diverse developmental processes and plant defense. These histone modification events are controlled by a series of histone modification gene families. To date, there is no study regarding genome-wide characterization of histone modification related genes in citrus species. Based on the two recent sequenced sweet orange genome databases, a total of 136 CsHMs (Citrus sinensis histone modification genes), including 47 CsHMTs (histone methyltransferase genes), 23 CsHDMs (histone demethylase genes), 50 CsHATs (histone acetyltransferase genes), and 16 CsHDACs (histone deacetylase genes) were identified. These genes were categorized to 11 gene families. A comprehensive analysis of these 11 gene families was performed with chromosome locations, phylogenetic comparison, gene structures, and conserved domain compositions of proteins. In order to gain an insight into the potential roles of these genes in citrus fruit development, 42 CsHMs with high mRNA abundance in fruit tissues were selected to further analyze their expression profiles at six stages of fruit development. Interestingly, a numbers of genes were expressed highly in flesh of ripening fruit and some of them showed the increasing expression levels along with the fruit development. Furthermore, we analyzed the expression patterns of all 136 CsHMs response to the infection of blue mold (Penicillium digitatum), which is the most devastating pathogen in citrus post-harvest process. The results indicated that 20 of them showed the strong alterations of their expression levels during the fruit-pathogen infection. In conclusion, this study presents a comprehensive analysis of the histone modification gene families in sweet orange and further elucidates their behaviors during the fruit development and the blue mold infection responses.</AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Xu</LastName><ForeName>Jidi</ForeName><Initials>J</Initials><AffiliationInfo><Affiliation>Key Laboratory of Horticultural Plant Biology (Ministry of Education), Huazhong Agricultural University Wuhan, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Xu</LastName><ForeName>Haidan</ForeName><Initials>H</Initials><AffiliationInfo><Affiliation>Key Laboratory of Horticultural Plant Biology (Ministry of Education), Huazhong Agricultural University Wuhan, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Liu</LastName><ForeName>Yuanlong</ForeName><Initials>Y</Initials><AffiliationInfo><Affiliation>Key Laboratory of Horticultural Plant Biology (Ministry of Education), Huazhong Agricultural University Wuhan, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Wang</LastName><ForeName>Xia</ForeName><Initials>X</Initials><AffiliationInfo><Affiliation>Key Laboratory of Horticultural Plant Biology (Ministry of Education), Huazhong Agricultural University Wuhan, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Xu</LastName><ForeName>Qiang</ForeName><Initials>Q</Initials><AffiliationInfo><Affiliation>Key Laboratory of Horticultural Plant Biology (Ministry of Education), Huazhong Agricultural University Wuhan, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Deng</LastName><ForeName>Xiuxin</ForeName><Initials>X</Initials><AffiliationInfo><Affiliation>Key Laboratory of Horticultural Plant Biology (Ministry of Education), Huazhong Agricultural University Wuhan, China.</Affiliation></AffiliationInfo></Author></AuthorList><Language>ENG</Language><PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType></PublicationTypeList><ArticleDate DateType="Electronic"><Year>2015</Year><Month>Aug</Month><Day>05</Day></ArticleDate></Article><MedlineJournalInfo><Country>Switzerland</Country><MedlineTA>Front Plant Sci</MedlineTA><NlmUniqueID>101568200</NlmUniqueID><ISSNLinking>1664-462X</ISSNLinking></MedlineJournalInfo><OtherID Source="NLM">PMC4525380</OtherID><KeywordList Owner="NOTNLM"><Keyword MajorTopicYN="N">Citrus sinensis</Keyword><Keyword MajorTopicYN="N">blue mold</Keyword><Keyword MajorTopicYN="N">epigenetics</Keyword><Keyword MajorTopicYN="N">fruit development</Keyword><Keyword MajorTopicYN="N">histone modifications</Keyword></KeywordList></MedlineCitation><PubmedData><History><PubMedPubDate PubStatus="received"><Year>2015</Year><Month>5</Month><Day>07</Day></PubMedPubDate><PubMedPubDate PubStatus="accepted"><Year>2015</Year><Month>7</Month><Day>23</Day></PubMedPubDate><PubMedPubDate PubStatus="entrez"><Year>2015</Year><Month>8</Month><Day>25</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="pubmed"><Year>2015</Year><Month>8</Month><Day>25</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="medline"><Year>2015</Year><Month>8</Month><Day>25</Day><Hour>6</Hour><Minute>1</Minute></PubMedPubDate></History><PublicationStatus>epublish</PublicationStatus><ArticleIdList><ArticleId IdType="pubmed">26300904</ArticleId><ArticleId IdType="doi">10.3389/fpls.2015.00607</ArticleId><ArticleId IdType="pmc">PMC4525380</ArticleId></ArticleIdList></PubmedData></pubmed></record>Pour manipuler ce document sous Unix (Dilib)
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