Comparative transcripts profiling reveals new insight into molecular processes regulating lycopene accumulation in a sweet orange (Citrus sinensis) red-flesh mutant.
Identifieur interne : 000947 ( PubMed/Checkpoint ); précédent : 000946; suivant : 000948Comparative transcripts profiling reveals new insight into molecular processes regulating lycopene accumulation in a sweet orange (Citrus sinensis) red-flesh mutant.
Auteurs : Qiang Xu [République populaire de Chine] ; Keqin Yu ; Andan Zhu ; Junli Ye ; Qing Liu ; Jianchen Zhang ; Xiuxin DengSource :
- BMC genomics [ 1471-2164 ] ; 2009.
English descriptors
- KwdEn :
- Carotenoids (metabolism), Chlorophyll (metabolism), Citrus sinensis (anatomy & histology), Citrus sinensis (genetics), Citrus sinensis (metabolism), DNA, Antisense (genetics), Fruit (anatomy & histology), Fruit (genetics), Fruit (metabolism), Gene Expression Profiling, Gene Expression Regulation, Plant, Genes, Plant (genetics), Genomics, Mutation, Photosynthesis, Pigmentation, RNA, Messenger (genetics), Sequence Analysis, DNA, Transcription, Genetic.
- MESH :
- chemical , genetics : DNA, Antisense, RNA, Messenger.
- chemical , metabolism : Carotenoids, Chlorophyll.
- anatomy & histology : Citrus sinensis, Fruit.
- genetics : Citrus sinensis, Fruit, Genes, Plant.
- metabolism : Citrus sinensis, Fruit.
- Gene Expression Profiling, Gene Expression Regulation, Plant, Genomics, Mutation, Photosynthesis, Pigmentation, Sequence Analysis, DNA, Transcription, Genetic.
Abstract
Interest in lycopene metabolism and regulation is growing rapidly because accumulative studies have suggested an important role for lycopene in human health promotion. However, little is known about the molecular processes regulating lycopene accumulation in fruits other than tomato so far.
DOI: 10.1186/1471-2164-10-540
PubMed: 19922663
Affiliations:
Links toward previous steps (curation, corpus...)
Links to Exploration step
pubmed:19922663Le document en format XML
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last="Zhu">Andan Zhu</name></author><author><name sortKey="Ye, Junli" sort="Ye, Junli" uniqKey="Ye J" first="Junli" last="Ye">Junli Ye</name></author><author><name sortKey="Liu, Qing" sort="Liu, Qing" uniqKey="Liu Q" first="Qing" last="Liu">Qing Liu</name></author><author><name sortKey="Zhang, Jianchen" sort="Zhang, Jianchen" uniqKey="Zhang J" first="Jianchen" last="Zhang">Jianchen Zhang</name></author><author><name sortKey="Deng, Xiuxin" sort="Deng, Xiuxin" uniqKey="Deng X" first="Xiuxin" last="Deng">Xiuxin Deng</name></author></titleStmt><publicationStmt><idno type="wicri:source">PubMed</idno><date when="2009">2009</date><idno type="RBID">pubmed:19922663</idno><idno type="pmid">19922663</idno><idno type="doi">10.1186/1471-2164-10-540</idno><idno type="wicri:Area/PubMed/Corpus">000908</idno><idno type="wicri:Area/PubMed/Curation">000908</idno><idno type="wicri:Area/PubMed/Checkpoint">000908</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en">Comparative transcripts profiling reveals new insight into molecular processes regulating lycopene accumulation in a sweet orange (Citrus sinensis) red-flesh mutant.</title><author><name sortKey="Xu, Qiang" sort="Xu, Qiang" uniqKey="Xu Q" first="Qiang" last="Xu">Qiang Xu</name><affiliation wicri:level="1"><nlm:affiliation>National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan, Hubei, PR China. xuqiang@mail.hzau.edu.cn</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan, Hubei</wicri:regionArea><wicri:noRegion>Hubei</wicri:noRegion></affiliation></author><author><name sortKey="Yu, Keqin" sort="Yu, Keqin" uniqKey="Yu K" first="Keqin" last="Yu">Keqin Yu</name></author><author><name sortKey="Zhu, Andan" sort="Zhu, Andan" uniqKey="Zhu A" first="Andan" last="Zhu">Andan Zhu</name></author><author><name sortKey="Ye, Junli" sort="Ye, Junli" uniqKey="Ye J" first="Junli" last="Ye">Junli Ye</name></author><author><name sortKey="Liu, Qing" sort="Liu, Qing" uniqKey="Liu Q" first="Qing" last="Liu">Qing Liu</name></author><author><name sortKey="Zhang, Jianchen" sort="Zhang, Jianchen" uniqKey="Zhang J" first="Jianchen" last="Zhang">Jianchen Zhang</name></author><author><name sortKey="Deng, Xiuxin" sort="Deng, Xiuxin" uniqKey="Deng X" first="Xiuxin" last="Deng">Xiuxin Deng</name></author></analytic><series><title level="j">BMC genomics</title><idno type="eISSN">1471-2164</idno><imprint><date when="2009" type="published">2009</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Carotenoids (metabolism)</term><term>Chlorophyll (metabolism)</term><term>Citrus sinensis (anatomy & histology)</term><term>Citrus sinensis (genetics)</term><term>Citrus sinensis (metabolism)</term><term>DNA, Antisense (genetics)</term><term>Fruit (anatomy & histology)</term><term>Fruit (genetics)</term><term>Fruit (metabolism)</term><term>Gene Expression Profiling</term><term>Gene Expression Regulation, Plant</term><term>Genes, Plant (genetics)</term><term>Genomics</term><term>Mutation</term><term>Photosynthesis</term><term>Pigmentation</term><term>RNA, Messenger (genetics)</term><term>Sequence Analysis, DNA</term><term>Transcription, Genetic</term></keywords><keywords scheme="MESH" type="chemical" qualifier="genetics" xml:lang="en"><term>DNA, Antisense</term><term>RNA, Messenger</term></keywords><keywords scheme="MESH" type="chemical" qualifier="metabolism" xml:lang="en"><term>Carotenoids</term><term>Chlorophyll</term></keywords><keywords scheme="MESH" qualifier="anatomy & histology" xml:lang="en"><term>Citrus sinensis</term><term>Fruit</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Citrus sinensis</term><term>Fruit</term><term>Genes, Plant</term></keywords><keywords scheme="MESH" qualifier="metabolism" xml:lang="en"><term>Citrus sinensis</term><term>Fruit</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Gene Expression Profiling</term><term>Gene Expression Regulation, Plant</term><term>Genomics</term><term>Mutation</term><term>Photosynthesis</term><term>Pigmentation</term><term>Sequence Analysis, DNA</term><term>Transcription, Genetic</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Interest in lycopene metabolism and regulation is growing rapidly because accumulative studies have suggested an important role for lycopene in human health promotion. However, little is known about the molecular processes regulating lycopene accumulation in fruits other than tomato so far.</div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">19922663</PMID><DateCreated><Year>2009</Year><Month>11</Month><Day>27</Day></DateCreated><DateCompleted><Year>2010</Year><Month>01</Month><Day>18</Day></DateCompleted><DateRevised><Year>2014</Year><Month>12</Month><Day>4</Day></DateRevised><Article PubModel="Electronic"><Journal><ISSN IssnType="Electronic">1471-2164</ISSN><JournalIssue CitedMedium="Internet"><Volume>10</Volume><PubDate><Year>2009</Year><Month>Nov</Month><Day>18</Day></PubDate></JournalIssue><Title>BMC genomics</Title><ISOAbbreviation>BMC Genomics</ISOAbbreviation></Journal><ArticleTitle>Comparative transcripts profiling reveals new insight into molecular processes regulating lycopene accumulation in a sweet orange (Citrus sinensis) red-flesh mutant.</ArticleTitle><Pagination><MedlinePgn>540</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1186/1471-2164-10-540</ELocationID><Abstract><AbstractText Label="BACKGROUND" NlmCategory="BACKGROUND">Interest in lycopene metabolism and regulation is growing rapidly because accumulative studies have suggested an important role for lycopene in human health promotion. However, little is known about the molecular processes regulating lycopene accumulation in fruits other than tomato so far.</AbstractText><AbstractText Label="RESULTS" NlmCategory="RESULTS">On a spontaneous sweet orange bud mutant with abnormal lycopene accumulation in fruits and its wild type, comparative transcripts profiling was performed using Massively Parallel Signature Sequencing (MPSS). A total of 6,877,027 and 6,275,309 reliable signatures were obtained for the wild type (WT) and the mutant (MT), respectively. Interpretation of the MPSS signatures revealed that the total number of transcribed gene in MT is 18,106, larger than that in WT 17,670, suggesting that newly initiated transcription occurs in the MT. Further comparison of the transcripts abundance between MT and WT revealed that 3,738 genes show more than two fold expression difference, and 582 genes are up- or down-regulated at 0.05% significance level by more than three fold difference. Functional assignments of the differentially expressed genes indicated that 26 reliable metabolic pathways are altered in the mutant; the most noticeable ones are carotenoid biosynthesis, photosynthesis, and citrate cycle. These data suggest that enhanced photosynthesis and partial impairment of lycopene downstream flux are critical for the formation of lycopene accumulation trait in the mutant.</AbstractText><AbstractText Label="CONCLUSION" NlmCategory="CONCLUSIONS">This study provided a global picture of the gene expression changes in a sweet orange red-flesh mutant as compared to the wild type. Interpretation of the differentially expressed genes revealed new insight into the molecular processes regulating lycopene accumulation in the sweet orange red-flesh mutant.</AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Xu</LastName><ForeName>Qiang</ForeName><Initials>Q</Initials><AffiliationInfo><Affiliation>National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan, Hubei, PR China. xuqiang@mail.hzau.edu.cn</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Yu</LastName><ForeName>Keqin</ForeName><Initials>K</Initials></Author><Author ValidYN="Y"><LastName>Zhu</LastName><ForeName>Andan</ForeName><Initials>A</Initials></Author><Author ValidYN="Y"><LastName>Ye</LastName><ForeName>Junli</ForeName><Initials>J</Initials></Author><Author ValidYN="Y"><LastName>Liu</LastName><ForeName>Qing</ForeName><Initials>Q</Initials></Author><Author ValidYN="Y"><LastName>Zhang</LastName><ForeName>Jianchen</ForeName><Initials>J</Initials></Author><Author ValidYN="Y"><LastName>Deng</LastName><ForeName>Xiuxin</ForeName><Initials>X</Initials></Author></AuthorList><Language>ENG</Language><PublicationTypeList><PublicationType UI="D003160">Comparative Study</PublicationType><PublicationType UI="D016428">Journal Article</PublicationType><PublicationType UI="D013485">Research Support, Non-U.S. Gov't</PublicationType></PublicationTypeList><ArticleDate DateType="Electronic"><Year>2009</Year><Month>Nov</Month><Day>18</Day></ArticleDate></Article><MedlineJournalInfo><Country>England</Country><MedlineTA>BMC Genomics</MedlineTA><NlmUniqueID>100965258</NlmUniqueID><ISSNLinking>1471-2164</ISSNLinking></MedlineJournalInfo><ChemicalList><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D016373">DNA, Antisense</NameOfSubstance></Chemical><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D012333">RNA, Messenger</NameOfSubstance></Chemical><Chemical><RegistryNumber>1406-65-1</RegistryNumber><NameOfSubstance UI="D002734">Chlorophyll</NameOfSubstance></Chemical><Chemical><RegistryNumber>36-88-4</RegistryNumber><NameOfSubstance UI="D002338">Carotenoids</NameOfSubstance></Chemical><Chemical><RegistryNumber>SB0N2N0WV6</RegistryNumber><NameOfSubstance UI="C015329">lycopene</NameOfSubstance></Chemical></ChemicalList><CitationSubset>IM</CitationSubset><CommentsCorrectionsList><CommentsCorrections RefType="Cites"><RefSource>Plant Cell. 1999 Feb;11(2):145-57</RefSource><PMID Version="1">9927635</PMID></CommentsCorrections><CommentsCorrections RefType="Cites"><RefSource>Nutr Rev. 1998 Feb;56(2 Pt 1):35-51</RefSource><PMID Version="1">9529899</PMID></CommentsCorrections><CommentsCorrections RefType="Cites"><RefSource>Mol Biol Cell. 1999 Jun;10(6):1859-72</RefSource><PMID Version="1">10359602</PMID></CommentsCorrections><CommentsCorrections RefType="Cites"><RefSource>Nucleic Acids Res. 2000 Jan 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Plant</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D017343" MajorTopicYN="N">Genes, Plant</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D023281" MajorTopicYN="N">Genomics</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D009154" MajorTopicYN="Y">Mutation</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D010788" MajorTopicYN="N">Photosynthesis</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D010858" MajorTopicYN="Y">Pigmentation</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D012333" MajorTopicYN="N">RNA, Messenger</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D017422" MajorTopicYN="N">Sequence Analysis, DNA</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D014158" MajorTopicYN="N">Transcription, Genetic</DescriptorName></MeshHeading></MeshHeadingList><OtherID Source="NLM">PMC2784484</OtherID></MedlineCitation><PubmedData><History><PubMedPubDate PubStatus="received"><Year>2009</Year><Month>4</Month><Day>21</Day></PubMedPubDate><PubMedPubDate PubStatus="accepted"><Year>2009</Year><Month>11</Month><Day>18</Day></PubMedPubDate><PubMedPubDate PubStatus="entrez"><Year>2009</Year><Month>11</Month><Day>20</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="pubmed"><Year>2009</Year><Month>11</Month><Day>20</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="medline"><Year>2010</Year><Month>1</Month><Day>19</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate></History><PublicationStatus>epublish</PublicationStatus><ArticleIdList><ArticleId IdType="pubmed">19922663</ArticleId><ArticleId IdType="pii">1471-2164-10-540</ArticleId><ArticleId IdType="doi">10.1186/1471-2164-10-540</ArticleId><ArticleId IdType="pmc">PMC2784484</ArticleId></ArticleIdList></PubmedData></pubmed><affiliations><list><country><li>République populaire de Chine</li></country></list><tree><noCountry><name sortKey="Deng, Xiuxin" sort="Deng, Xiuxin" uniqKey="Deng X" first="Xiuxin" last="Deng">Xiuxin Deng</name><name sortKey="Liu, Qing" sort="Liu, Qing" uniqKey="Liu Q" first="Qing" last="Liu">Qing Liu</name><name sortKey="Ye, Junli" sort="Ye, Junli" uniqKey="Ye J" first="Junli" last="Ye">Junli Ye</name><name sortKey="Yu, Keqin" sort="Yu, Keqin" uniqKey="Yu K" first="Keqin" last="Yu">Keqin Yu</name><name sortKey="Zhang, Jianchen" sort="Zhang, Jianchen" uniqKey="Zhang J" first="Jianchen" last="Zhang">Jianchen Zhang</name><name sortKey="Zhu, Andan" sort="Zhu, Andan" uniqKey="Zhu A" first="Andan" last="Zhu">Andan Zhu</name></noCountry><country name="République populaire de Chine"><noRegion><name sortKey="Xu, Qiang" sort="Xu, Qiang" uniqKey="Xu Q" first="Qiang" last="Xu">Qiang 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