PoplarV1, Main, Exploration, bibRecord, 000E70

Genome-wide Identification of Jatropha curcas MAPK, MAPKK, and MAPKKK Gene Families and Their Expression Profile Under Cold Stress.

Identifieur interne : 000E70 ( Main/Exploration ); précédent : 000E69; suivant : 000E71

Genome-wide Identification of Jatropha curcas MAPK, MAPKK, and MAPKKK Gene Families and Their Expression Profile Under Cold Stress.

Auteurs : Haibo Wang [République populaire de Chine] ; Ming Gong [République populaire de Chine] ; Junyun Guo [République populaire de Chine] ; Hu Xin [République populaire de Chine] ; Yong Gao [République populaire de Chine] ; Chao Liu [République populaire de Chine] ; Dongqin Dai [République populaire de Chine] ; Lizhou Tang [République populaire de Chine]

Source :

Scientific reports [ 2045-2322 ] ; 2018.

RBID : pubmed:30385801

Descripteurs français

English descriptors

KwdEn :
- Amino Acid Sequence (MeSH), Chromosome Mapping (MeSH), Cold-Shock Response (genetics), Conserved Sequence (genetics), Gene Duplication (genetics), Gene Expression Regulation, Plant (MeSH), Genome, Plant (genetics), Jatropha (genetics), Jatropha (growth & development), MAP Kinase Kinase 1 (genetics), MAP Kinase Kinase Kinases (genetics), Mitogen-Activated Protein Kinase Kinases (genetics), Multigene Family (MeSH), Phylogeny (MeSH), Sequence Alignment (MeSH).
MESH :
- chemical , genetics : MAP Kinase Kinase 1, MAP Kinase Kinase Kinases, Mitogen-Activated Protein Kinase Kinases.
- genetics : Cold-Shock Response, Conserved Sequence, Gene Duplication, Genome, Plant, Jatropha.
- growth & development : Jatropha.
- Amino Acid Sequence, Chromosome Mapping, Gene Expression Regulation, Plant, Multigene Family, Phylogeny, Sequence Alignment.

Abstract

Mitogen-activated protein kinase (MAPK) cascades are fundamental signal transduction modules in all eukaryotic organisms, controlling cell division, growth, development, and hormone signaling. Additionally, they can be activated in response to a variety of biotic and abiotic stressors. Although the evolution and expression patterns of MAPK cascade families have been systematically investigated in several model plants (e.g., Arabidopsis, rice, and poplar), we still know very little about MAPK, MAPKK, and MAPKKK families in Jatropha curcas, an economically important species. Therefore, this study performed genome-wide identification and transcriptional expression analysis of these three families in J. curcas. We identified 12 J. curcas MAPK (JcMAPKs), 5 JcMAPKKs, and 65 JcMAPKKKs. Phylogenetic analysis classified all JcMAPKs and JcMAPKKs into four subgroups, whereas JcMAPKKKs were grouped into three subfamilies (MEKK, RAF, and ZIK). Similarities in exon/intron structures supported the evolutionary relationships within subgroups and subfamilies. Conserved motif analysis indicated that all J. curcas MAPK cascades possessed typical, 200-300 amino-acid protein kinase domains. MAPK cascade genes were presented throughout all 11 chromosomes. Gene duplication analysis suggested that after JcMAPK and JcMAPKKK diverged, 3 and 19 tandem duplicates occurred under strong purifying selection. Furthermore, RNA-seq and qRT-PCR analyses revealed that some MAPK cascade genes are predominantly expressed in specific tissues. Moreover, their expression levels significantly increased under cold treatment. Our results should provide insight into the roles of MAPK cascade genes in regulating J. curcas stress responses and in hormonal signal transduction. Furthermore, these data have important applications in the genetic improvement of J. curcas.

DOI: 10.1038/s41598-018-34614-1
PubMed: 30385801
PubMed Central: PMC6212503

Affiliations:

République populaire de Chine

Links toward previous steps (curation, corpus...)

to stream Main, to step Corpus: 000B92
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Le document en format XML

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<author><name sortKey="Tang, Lizhou" sort="Tang, Lizhou" uniqKey="Tang L" first="Lizhou" last="Tang">Lizhou Tang</name>
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<profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Amino Acid Sequence (MeSH)</term>
<term>Chromosome Mapping (MeSH)</term>
<term>Cold-Shock Response (genetics)</term>
<term>Conserved Sequence (genetics)</term>
<term>Gene Duplication (genetics)</term>
<term>Gene Expression Regulation, Plant (MeSH)</term>
<term>Genome, Plant (genetics)</term>
<term>Jatropha (genetics)</term>
<term>Jatropha (growth & development)</term>
<term>MAP Kinase Kinase 1 (genetics)</term>
<term>MAP Kinase Kinase Kinases (genetics)</term>
<term>Mitogen-Activated Protein Kinase Kinases (genetics)</term>
<term>Multigene Family (MeSH)</term>
<term>Phylogeny (MeSH)</term>
<term>Sequence Alignment (MeSH)</term>
</keywords>
<keywords scheme="KwdFr" xml:lang="fr"><term>Alignement de séquences (MeSH)</term>
<term>Cartographie chromosomique (MeSH)</term>
<term>Duplication de gène (génétique)</term>
<term>Famille multigénique (MeSH)</term>
<term>Génome végétal (génétique)</term>
<term>Jatropha (croissance et développement)</term>
<term>Jatropha (génétique)</term>
<term>MAP Kinase Kinase 1 (génétique)</term>
<term>MAP Kinase Kinase Kinases (génétique)</term>
<term>Mitogen-Activated Protein Kinase Kinases (génétique)</term>
<term>Phylogenèse (MeSH)</term>
<term>Régulation de l'expression des gènes végétaux (MeSH)</term>
<term>Réponse au choc froid (génétique)</term>
<term>Séquence conservée (génétique)</term>
<term>Séquence d'acides aminés (MeSH)</term>
</keywords>
<keywords scheme="MESH" type="chemical" qualifier="genetics" xml:lang="en"><term>MAP Kinase Kinase 1</term>
<term>MAP Kinase Kinase Kinases</term>
<term>Mitogen-Activated Protein Kinase Kinases</term>
</keywords>
<keywords scheme="MESH" qualifier="croissance et développement" xml:lang="fr"><term>Jatropha</term>
</keywords>
<keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Cold-Shock Response</term>
<term>Conserved Sequence</term>
<term>Gene Duplication</term>
<term>Genome, Plant</term>
<term>Jatropha</term>
</keywords>
<keywords scheme="MESH" qualifier="growth & development" xml:lang="en"><term>Jatropha</term>
</keywords>
<keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>Duplication de gène</term>
<term>Génome végétal</term>
<term>Jatropha</term>
<term>MAP Kinase Kinase 1</term>
<term>MAP Kinase Kinase Kinases</term>
<term>Mitogen-Activated Protein Kinase Kinases</term>
<term>Réponse au choc froid</term>
<term>Séquence conservée</term>
</keywords>
<keywords scheme="MESH" xml:lang="en"><term>Amino Acid Sequence</term>
<term>Chromosome Mapping</term>
<term>Gene Expression Regulation, Plant</term>
<term>Multigene Family</term>
<term>Phylogeny</term>
<term>Sequence Alignment</term>
</keywords>
<keywords scheme="MESH" xml:lang="fr"><term>Alignement de séquences</term>
<term>Cartographie chromosomique</term>
<term>Famille multigénique</term>
<term>Phylogenèse</term>
<term>Régulation de l'expression des gènes végétaux</term>
<term>Séquence d'acides aminés</term>
</keywords>
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<front><div type="abstract" xml:lang="en">Mitogen-activated protein kinase (MAPK) cascades are fundamental signal transduction modules in all eukaryotic organisms, controlling cell division, growth, development, and hormone signaling. Additionally, they can be activated in response to a variety of biotic and abiotic stressors. Although the evolution and expression patterns of MAPK cascade families have been systematically investigated in several model plants (e.g., Arabidopsis, rice, and poplar), we still know very little about MAPK, MAPKK, and MAPKKK families in Jatropha curcas, an economically important species. Therefore, this study performed genome-wide identification and transcriptional expression analysis of these three families in J. curcas. We identified 12 J. curcas MAPK (JcMAPKs), 5 JcMAPKKs, and 65 JcMAPKKKs. Phylogenetic analysis classified all JcMAPKs and JcMAPKKs into four subgroups, whereas JcMAPKKKs were grouped into three subfamilies (MEKK, RAF, and ZIK). Similarities in exon/intron structures supported the evolutionary relationships within subgroups and subfamilies. Conserved motif analysis indicated that all J. curcas MAPK cascades possessed typical, 200-300 amino-acid protein kinase domains. MAPK cascade genes were presented throughout all 11 chromosomes. Gene duplication analysis suggested that after JcMAPK and JcMAPKKK diverged, 3 and 19 tandem duplicates occurred under strong purifying selection. Furthermore, RNA-seq and qRT-PCR analyses revealed that some MAPK cascade genes are predominantly expressed in specific tissues. Moreover, their expression levels significantly increased under cold treatment. Our results should provide insight into the roles of MAPK cascade genes in regulating J. curcas stress responses and in hormonal signal transduction. Furthermore, these data have important applications in the genetic improvement of J. curcas.</div>
</front>
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<DateCompleted><Year>2019</Year>
<Month>10</Month>
<Day>22</Day>
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<Month>10</Month>
<Day>22</Day>
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<Article PubModel="Electronic"><Journal><ISSN IssnType="Electronic">2045-2322</ISSN>
<JournalIssue CitedMedium="Internet"><Volume>8</Volume>
<Issue>1</Issue>
<PubDate><Year>2018</Year>
<Month>11</Month>
<Day>01</Day>
</PubDate>
</JournalIssue>
<Title>Scientific reports</Title>
<ISOAbbreviation>Sci Rep</ISOAbbreviation>
</Journal>
<ArticleTitle>Genome-wide Identification of Jatropha curcas MAPK, MAPKK, and MAPKKK Gene Families and Their Expression Profile Under Cold Stress.</ArticleTitle>
<Pagination><MedlinePgn>16163</MedlinePgn>
</Pagination>
<ELocationID EIdType="doi" ValidYN="Y">10.1038/s41598-018-34614-1</ELocationID>
<Abstract><AbstractText>Mitogen-activated protein kinase (MAPK) cascades are fundamental signal transduction modules in all eukaryotic organisms, controlling cell division, growth, development, and hormone signaling. Additionally, they can be activated in response to a variety of biotic and abiotic stressors. Although the evolution and expression patterns of MAPK cascade families have been systematically investigated in several model plants (e.g., Arabidopsis, rice, and poplar), we still know very little about MAPK, MAPKK, and MAPKKK families in Jatropha curcas, an economically important species. Therefore, this study performed genome-wide identification and transcriptional expression analysis of these three families in J. curcas. We identified 12 J. curcas MAPK (JcMAPKs), 5 JcMAPKKs, and 65 JcMAPKKKs. Phylogenetic analysis classified all JcMAPKs and JcMAPKKs into four subgroups, whereas JcMAPKKKs were grouped into three subfamilies (MEKK, RAF, and ZIK). Similarities in exon/intron structures supported the evolutionary relationships within subgroups and subfamilies. Conserved motif analysis indicated that all J. curcas MAPK cascades possessed typical, 200-300 amino-acid protein kinase domains. MAPK cascade genes were presented throughout all 11 chromosomes. Gene duplication analysis suggested that after JcMAPK and JcMAPKKK diverged, 3 and 19 tandem duplicates occurred under strong purifying selection. Furthermore, RNA-seq and qRT-PCR analyses revealed that some MAPK cascade genes are predominantly expressed in specific tissues. Moreover, their expression levels significantly increased under cold treatment. Our results should provide insight into the roles of MAPK cascade genes in regulating J. curcas stress responses and in hormonal signal transduction. Furthermore, these data have important applications in the genetic improvement of J. curcas.</AbstractText>
</Abstract>
<AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Wang</LastName>
<ForeName>Haibo</ForeName>
<Initials>H</Initials>
<AffiliationInfo><Affiliation>Center for Yunnan Plateau Biological Resources Protection and Utilization, Qujing Normal University, Qujing, Yunnan, 655011, China.</Affiliation>
</AffiliationInfo>
<AffiliationInfo><Affiliation>Key Laboratory of Yunnan Province Universities of the Diversity and Ecological Adaptive Evolution for Animals and Plants on YunGui Plateau, Qujing Normal University, Qujing, Yunnan, 655011, China.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Gong</LastName>
<ForeName>Ming</ForeName>
<Initials>M</Initials>
<AffiliationInfo><Affiliation>School of Life Sciences, Yunnan Normal University, Kunming, Yunnan, 650500, China.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Guo</LastName>
<ForeName>Junyun</ForeName>
<Initials>J</Initials>
<AffiliationInfo><Affiliation>College of Biological Resource and Food Engineering, Qujing Normal University, Qujing, Yunnan, 655011, China.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Xin</LastName>
<ForeName>Hu</ForeName>
<Initials>H</Initials>
<AffiliationInfo><Affiliation>Academy of Forestry, Southwest Forestry University, Kunming, Yunnan, 650224, China.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Gao</LastName>
<ForeName>Yong</ForeName>
<Initials>Y</Initials>
<AffiliationInfo><Affiliation>Center for Yunnan Plateau Biological Resources Protection and Utilization, Qujing Normal University, Qujing, Yunnan, 655011, China.</Affiliation>
</AffiliationInfo>
<AffiliationInfo><Affiliation>Key Laboratory of Yunnan Province Universities of the Diversity and Ecological Adaptive Evolution for Animals and Plants on YunGui Plateau, Qujing Normal University, Qujing, Yunnan, 655011, China.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Liu</LastName>
<ForeName>Chao</ForeName>
<Initials>C</Initials>
<AffiliationInfo><Affiliation>Center for Yunnan Plateau Biological Resources Protection and Utilization, Qujing Normal University, Qujing, Yunnan, 655011, China.</Affiliation>
</AffiliationInfo>
<AffiliationInfo><Affiliation>Key Laboratory of Yunnan Province Universities of the Diversity and Ecological Adaptive Evolution for Animals and Plants on YunGui Plateau, Qujing Normal University, Qujing, Yunnan, 655011, China.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Dai</LastName>
<ForeName>Dongqin</ForeName>
<Initials>D</Initials>
<AffiliationInfo><Affiliation>Center for Yunnan Plateau Biological Resources Protection and Utilization, Qujing Normal University, Qujing, Yunnan, 655011, China.</Affiliation>
</AffiliationInfo>
<AffiliationInfo><Affiliation>Key Laboratory of Yunnan Province Universities of the Diversity and Ecological Adaptive Evolution for Animals and Plants on YunGui Plateau, Qujing Normal University, Qujing, Yunnan, 655011, China.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Tang</LastName>
<ForeName>Lizhou</ForeName>
<Initials>L</Initials>
<AffiliationInfo><Affiliation>Center for Yunnan Plateau Biological Resources Protection and Utilization, Qujing Normal University, Qujing, Yunnan, 655011, China. lizhoutang@126.com.</Affiliation>
</AffiliationInfo>
<AffiliationInfo><Affiliation>Key Laboratory of Yunnan Province Universities of the Diversity and Ecological Adaptive Evolution for Animals and Plants on YunGui Plateau, Qujing Normal University, Qujing, Yunnan, 655011, China. lizhoutang@126.com.</Affiliation>
</AffiliationInfo>
</Author>
</AuthorList>
<Language>eng</Language>
<PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType>
<PublicationType UI="D013485">Research Support, Non-U.S. Gov't</PublicationType>
</PublicationTypeList>
<ArticleDate DateType="Electronic"><Year>2018</Year>
<Month>11</Month>
<Day>01</Day>
</ArticleDate>
</Article>
<MedlineJournalInfo><Country>England</Country>
<MedlineTA>Sci Rep</MedlineTA>
<NlmUniqueID>101563288</NlmUniqueID>
<ISSNLinking>2045-2322</ISSNLinking>
</MedlineJournalInfo>
<ChemicalList><Chemical><RegistryNumber>EC 2.7.11.25</RegistryNumber>
<NameOfSubstance UI="D020930">MAP Kinase Kinase Kinases</NameOfSubstance>
</Chemical>
<Chemical><RegistryNumber>EC 2.7.12.2</RegistryNumber>
<NameOfSubstance UI="D048369">MAP Kinase Kinase 1</NameOfSubstance>
</Chemical>
<Chemical><RegistryNumber>EC 2.7.12.2</RegistryNumber>
<NameOfSubstance UI="D020929">Mitogen-Activated Protein Kinase Kinases</NameOfSubstance>
</Chemical>
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<CitationSubset>IM</CitationSubset>
<MeshHeadingList><MeshHeading><DescriptorName UI="D000595" MajorTopicYN="N">Amino Acid Sequence</DescriptorName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D002874" MajorTopicYN="N">Chromosome Mapping</DescriptorName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D058639" MajorTopicYN="N">Cold-Shock Response</DescriptorName>
<QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D017124" MajorTopicYN="N">Conserved Sequence</DescriptorName>
<QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D020440" MajorTopicYN="N">Gene Duplication</DescriptorName>
<QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D018506" MajorTopicYN="N">Gene Expression Regulation, Plant</DescriptorName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D018745" MajorTopicYN="N">Genome, Plant</DescriptorName>
<QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D031286" MajorTopicYN="N">Jatropha</DescriptorName>
<QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName>
<QualifierName UI="Q000254" MajorTopicYN="N">growth & development</QualifierName>
</MeshHeading>
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<MeshHeading><DescriptorName UI="D005810" MajorTopicYN="N">Multigene Family</DescriptorName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D010802" MajorTopicYN="N">Phylogeny</DescriptorName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D016415" MajorTopicYN="N">Sequence Alignment</DescriptorName>
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<PubMedPubDate PubStatus="accepted"><Year>2018</Year>
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<affiliations><list><country><li>République populaire de Chine</li>
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<tree><country name="République populaire de Chine"><noRegion><name sortKey="Wang, Haibo" sort="Wang, Haibo" uniqKey="Wang H" first="Haibo" last="Wang">Haibo Wang</name>
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<name sortKey="Dai, Dongqin" sort="Dai, Dongqin" uniqKey="Dai D" first="Dongqin" last="Dai">Dongqin Dai</name>
<name sortKey="Dai, Dongqin" sort="Dai, Dongqin" uniqKey="Dai D" first="Dongqin" last="Dai">Dongqin Dai</name>
<name sortKey="Gao, Yong" sort="Gao, Yong" uniqKey="Gao Y" first="Yong" last="Gao">Yong Gao</name>
<name sortKey="Gao, Yong" sort="Gao, Yong" uniqKey="Gao Y" first="Yong" last="Gao">Yong Gao</name>
<name sortKey="Gong, Ming" sort="Gong, Ming" uniqKey="Gong M" first="Ming" last="Gong">Ming Gong</name>
<name sortKey="Guo, Junyun" sort="Guo, Junyun" uniqKey="Guo J" first="Junyun" last="Guo">Junyun Guo</name>
<name sortKey="Liu, Chao" sort="Liu, Chao" uniqKey="Liu C" first="Chao" last="Liu">Chao Liu</name>
<name sortKey="Liu, Chao" sort="Liu, Chao" uniqKey="Liu C" first="Chao" last="Liu">Chao Liu</name>
<name sortKey="Tang, Lizhou" sort="Tang, Lizhou" uniqKey="Tang L" first="Lizhou" last="Tang">Lizhou Tang</name>
<name sortKey="Tang, Lizhou" sort="Tang, Lizhou" uniqKey="Tang L" first="Lizhou" last="Tang">Lizhou Tang</name>
<name sortKey="Wang, Haibo" sort="Wang, Haibo" uniqKey="Wang H" first="Haibo" last="Wang">Haibo Wang</name>
<name sortKey="Xin, Hu" sort="Xin, Hu" uniqKey="Xin H" first="Hu" last="Xin">Hu Xin</name>
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Genome-wide Identification of Jatropha curcas MAPK, MAPKK, and MAPKKK Gene Families and Their Expression Profile Under Cold Stress.

Genome-wide Identification of Jatropha curcas MAPK, MAPKK, and MAPKKK Gene Families and Their Expression Profile Under Cold Stress.

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