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Genome-Wide Characterization of the sHsp Gene Family in Salix suchowensis Reveals Its Functions under Different Abiotic Stresses.

Identifieur interne : 000737 ( Main/Exploration ); précédent : 000736; suivant : 000738

Genome-Wide Characterization of the sHsp Gene Family in Salix suchowensis Reveals Its Functions under Different Abiotic Stresses.

Auteurs : Jianbo Li [République populaire de Chine] ; Jin Zhang [République populaire de Chine] ; Huixia Jia [République populaire de Chine] ; Zhiqiang Yue [République populaire de Chine] ; Mengzhu Lu [République populaire de Chine] ; Xuebing Xin [République populaire de Chine] ; Jianjun Hu [République populaire de Chine]

Source :

RBID : pubmed:30347736

Descripteurs français

English descriptors

Abstract

Small heat shock proteins (sHsps) function mainly as molecular chaperones that play vital roles in response to diverse stresses, especially high temperature. However, little is known about the molecular characteristics and evolutionary history of the sHsp family in Salix suchowensis, an important bioenergy woody plant. In this study, 35 non-redundant sHsp genes were identified in S. suchowensis, and they were divided into four subfamilies (C, CP, PX, and MT) based on their phylogenetic relationships and predicted subcellular localization. Though the gene structure and conserved motif were relatively conserved, the sequences of the Hsp20 domain were diversified. Eight paralogous pairs were identified in the Ssu-sHsp family, in which five pairs were generated by tandem duplication events. Ka/Ks analysis indicated that Ssu-sHsps had undergone purifying selection. The expression profiles analysis showed Ssu-Hsps tissue-specific expression patterns, and they were induced by at least one abiotic stress. The expression correlation between two paralogous pairs (Ssu-sHsp22.2-CV/23.0-CV and 23.8-MT/25.6-MT) were less than 0.6, indicating that they were divergent during the evolution. Various cis-acting elements related to stress responses, hormone or development, were detected in the promoter of Ssu-sHsps. Furthermore, the co-expression network revealed the potential mechanism of Ssu-sHsps under stress tolerance and development. These results provide a foundation for further functional research on the Ssu-sHsp gene family in S. suchowensis.

DOI: 10.3390/ijms19103246
PubMed: 30347736
PubMed Central: PMC6214038


Affiliations:


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Le document en format XML

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<title xml:lang="en">Genome-Wide Characterization of the
<i>sHsp</i>
Gene Family in
<i>Salix suchowensis</i>
Reveals Its Functions under Different Abiotic Stresses.</title>
<author>
<name sortKey="Li, Jianbo" sort="Li, Jianbo" uniqKey="Li J" first="Jianbo" last="Li">Jianbo Li</name>
<affiliation wicri:level="1">
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<country xml:lang="fr">République populaire de Chine</country>
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<nlm:affiliation>State Key Laboratory of Tree Genetics and Breeding, Chinese Academy of Forestry, Beijing 100091, China. huixia__jia@126.com.</nlm:affiliation>
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<nlm:affiliation>State Key Laboratory of Tree Genetics and Breeding, Chinese Academy of Forestry, Beijing 100091, China. lumz@caf.ac.cn.</nlm:affiliation>
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<country xml:lang="fr">République populaire de Chine</country>
<wicri:regionArea>Key Laboratory of Tree Breeding and Cultivation of National Forestry and Grassland Administration, Research Institute of Forestry, Chinese Academy of Forestry, Beijing 100091</wicri:regionArea>
<placeName>
<settlement type="city">Pékin</settlement>
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<affiliation wicri:level="1">
<nlm:affiliation>Collaborative Innovation Center of Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing 210037, China. lumz@caf.ac.cn.</nlm:affiliation>
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<keywords scheme="KwdEn" xml:lang="en">
<term>Evolution, Molecular (MeSH)</term>
<term>Heat-Shock Proteins (genetics)</term>
<term>Heat-Shock Proteins (metabolism)</term>
<term>Heat-Shock Response (MeSH)</term>
<term>Phylogeny (MeSH)</term>
<term>Plant Proteins (genetics)</term>
<term>Plant Proteins (metabolism)</term>
<term>Salix (classification)</term>
<term>Salix (genetics)</term>
<term>Salt Stress (MeSH)</term>
</keywords>
<keywords scheme="KwdFr" xml:lang="fr">
<term>Phylogenèse (MeSH)</term>
<term>Protéines du choc thermique (génétique)</term>
<term>Protéines du choc thermique (métabolisme)</term>
<term>Protéines végétales (génétique)</term>
<term>Protéines végétales (métabolisme)</term>
<term>Réaction de choc thermique (MeSH)</term>
<term>Salix (classification)</term>
<term>Salix (génétique)</term>
<term>Stress salin (MeSH)</term>
<term>Évolution moléculaire (MeSH)</term>
</keywords>
<keywords scheme="MESH" type="chemical" qualifier="genetics" xml:lang="en">
<term>Heat-Shock Proteins</term>
<term>Plant Proteins</term>
</keywords>
<keywords scheme="MESH" type="chemical" qualifier="metabolism" xml:lang="en">
<term>Heat-Shock Proteins</term>
<term>Plant Proteins</term>
</keywords>
<keywords scheme="MESH" qualifier="classification" xml:lang="en">
<term>Salix</term>
</keywords>
<keywords scheme="MESH" qualifier="genetics" xml:lang="en">
<term>Salix</term>
</keywords>
<keywords scheme="MESH" qualifier="génétique" xml:lang="fr">
<term>Protéines du choc thermique</term>
<term>Protéines végétales</term>
<term>Salix</term>
</keywords>
<keywords scheme="MESH" qualifier="métabolisme" xml:lang="fr">
<term>Protéines du choc thermique</term>
<term>Protéines végétales</term>
</keywords>
<keywords scheme="MESH" xml:lang="en">
<term>Evolution, Molecular</term>
<term>Heat-Shock Response</term>
<term>Phylogeny</term>
<term>Salt Stress</term>
</keywords>
<keywords scheme="MESH" xml:lang="fr">
<term>Phylogenèse</term>
<term>Réaction de choc thermique</term>
<term>Stress salin</term>
<term>Évolution moléculaire</term>
</keywords>
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<front>
<div type="abstract" xml:lang="en">Small heat shock proteins (sHsps) function mainly as molecular chaperones that play vital roles in response to diverse stresses, especially high temperature. However, little is known about the molecular characteristics and evolutionary history of the
<i>sHsp</i>
family in
<i>Salix suchowensis,</i>
an important bioenergy woody plant. In this study, 35 non-redundant
<i>sHsp</i>
genes were identified in
<i>S. suchowensis</i>
, and they were divided into four subfamilies (C, CP, PX, and MT) based on their phylogenetic relationships and predicted subcellular localization. Though the gene structure and conserved motif were relatively conserved, the sequences of the Hsp20 domain were diversified. Eight paralogous pairs were identified in the
<i>Ssu</i>
-
<i>sHsp</i>
family, in which five pairs were generated by tandem duplication events.
<i>K</i>
a/
<i>K</i>
s analysis indicated that
<i>Ssu</i>
-
<i>sHsps</i>
had undergone purifying selection. The expression profiles analysis showed
<i>Ssu-Hsps</i>
tissue-specific expression patterns, and they were induced by at least one abiotic stress. The expression correlation between two paralogous pairs (
<i>Ssu</i>
-
<i>sHsp22</i>
.
<i>2</i>
-
<i>CV</i>
/
<i>23</i>
.
<i>0</i>
-
<i>CV</i>
and
<i>23</i>
.
<i>8</i>
-
<i>MT</i>
/
<i>25.6</i>
-
<i>MT</i>
) were less than 0.6, indicating that they were divergent during the evolution. Various
<i>cis</i>
-acting elements related to stress responses, hormone or development, were detected in the promoter of
<i>Ssu</i>
-
<i>sHsps</i>
. Furthermore, the co-expression network revealed the potential mechanism of
<i>Ssu</i>
-s
<i>Hsps</i>
under stress tolerance and development. These results provide a foundation for further functional research on the
<i>Ssu</i>
-
<i>sHsp</i>
gene family in
<i>S. suchowensis</i>
.</div>
</front>
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<pubmed>
<MedlineCitation Status="MEDLINE" Owner="NLM">
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<DateCompleted>
<Year>2019</Year>
<Month>01</Month>
<Day>21</Day>
</DateCompleted>
<DateRevised>
<Year>2019</Year>
<Month>01</Month>
<Day>21</Day>
</DateRevised>
<Article PubModel="Electronic">
<Journal>
<ISSN IssnType="Electronic">1422-0067</ISSN>
<JournalIssue CitedMedium="Internet">
<Volume>19</Volume>
<Issue>10</Issue>
<PubDate>
<Year>2018</Year>
<Month>Oct</Month>
<Day>19</Day>
</PubDate>
</JournalIssue>
<Title>International journal of molecular sciences</Title>
<ISOAbbreviation>Int J Mol Sci</ISOAbbreviation>
</Journal>
<ArticleTitle>Genome-Wide Characterization of the
<i>sHsp</i>
Gene Family in
<i>Salix suchowensis</i>
Reveals Its Functions under Different Abiotic Stresses.</ArticleTitle>
<ELocationID EIdType="pii" ValidYN="Y">E3246</ELocationID>
<ELocationID EIdType="doi" ValidYN="Y">10.3390/ijms19103246</ELocationID>
<Abstract>
<AbstractText>Small heat shock proteins (sHsps) function mainly as molecular chaperones that play vital roles in response to diverse stresses, especially high temperature. However, little is known about the molecular characteristics and evolutionary history of the
<i>sHsp</i>
family in
<i>Salix suchowensis,</i>
an important bioenergy woody plant. In this study, 35 non-redundant
<i>sHsp</i>
genes were identified in
<i>S. suchowensis</i>
, and they were divided into four subfamilies (C, CP, PX, and MT) based on their phylogenetic relationships and predicted subcellular localization. Though the gene structure and conserved motif were relatively conserved, the sequences of the Hsp20 domain were diversified. Eight paralogous pairs were identified in the
<i>Ssu</i>
-
<i>sHsp</i>
family, in which five pairs were generated by tandem duplication events.
<i>K</i>
a/
<i>K</i>
s analysis indicated that
<i>Ssu</i>
-
<i>sHsps</i>
had undergone purifying selection. The expression profiles analysis showed
<i>Ssu-Hsps</i>
tissue-specific expression patterns, and they were induced by at least one abiotic stress. The expression correlation between two paralogous pairs (
<i>Ssu</i>
-
<i>sHsp22</i>
.
<i>2</i>
-
<i>CV</i>
/
<i>23</i>
.
<i>0</i>
-
<i>CV</i>
and
<i>23</i>
.
<i>8</i>
-
<i>MT</i>
/
<i>25.6</i>
-
<i>MT</i>
) were less than 0.6, indicating that they were divergent during the evolution. Various
<i>cis</i>
-acting elements related to stress responses, hormone or development, were detected in the promoter of
<i>Ssu</i>
-
<i>sHsps</i>
. Furthermore, the co-expression network revealed the potential mechanism of
<i>Ssu</i>
-s
<i>Hsps</i>
under stress tolerance and development. These results provide a foundation for further functional research on the
<i>Ssu</i>
-
<i>sHsp</i>
gene family in
<i>S. suchowensis</i>
.</AbstractText>
</Abstract>
<AuthorList CompleteYN="Y">
<Author ValidYN="Y">
<LastName>Li</LastName>
<ForeName>Jianbo</ForeName>
<Initials>J</Initials>
<AffiliationInfo>
<Affiliation>State Key Laboratory of Tree Genetics and Breeding, Chinese Academy of Forestry, Beijing 100091, China. Lijb2017@caf.ac.cn.</Affiliation>
</AffiliationInfo>
<AffiliationInfo>
<Affiliation>Experimental Center of Forestry in North China, Chinese Academy of Forestry, Beijing 102300, China. Lijb2017@caf.ac.cn.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y">
<LastName>Zhang</LastName>
<ForeName>Jin</ForeName>
<Initials>J</Initials>
<Identifier Source="ORCID">0000-0002-8397-5078</Identifier>
<AffiliationInfo>
<Affiliation>State Key Laboratory of Tree Genetics and Breeding, Chinese Academy of Forestry, Beijing 100091, China. zhang007jin@163.com.</Affiliation>
</AffiliationInfo>
<AffiliationInfo>
<Affiliation>Key Laboratory of Tree Breeding and Cultivation of National Forestry and Grassland Administration, Research Institute of Forestry, Chinese Academy of Forestry, Beijing 100091, China. zhang007jin@163.com.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y">
<LastName>Jia</LastName>
<ForeName>Huixia</ForeName>
<Initials>H</Initials>
<AffiliationInfo>
<Affiliation>State Key Laboratory of Tree Genetics and Breeding, Chinese Academy of Forestry, Beijing 100091, China. huixia__jia@126.com.</Affiliation>
</AffiliationInfo>
<AffiliationInfo>
<Affiliation>Key Laboratory of Tree Breeding and Cultivation of National Forestry and Grassland Administration, Research Institute of Forestry, Chinese Academy of Forestry, Beijing 100091, China. huixia__jia@126.com.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y">
<LastName>Yue</LastName>
<ForeName>Zhiqiang</ForeName>
<Initials>Z</Initials>
<AffiliationInfo>
<Affiliation>State Key Laboratory of Tree Genetics and Breeding, Chinese Academy of Forestry, Beijing 100091, China. yue7210@sina.com.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y">
<LastName>Lu</LastName>
<ForeName>Mengzhu</ForeName>
<Initials>M</Initials>
<AffiliationInfo>
<Affiliation>State Key Laboratory of Tree Genetics and Breeding, Chinese Academy of Forestry, Beijing 100091, China. lumz@caf.ac.cn.</Affiliation>
</AffiliationInfo>
<AffiliationInfo>
<Affiliation>Key Laboratory of Tree Breeding and Cultivation of National Forestry and Grassland Administration, Research Institute of Forestry, Chinese Academy of Forestry, Beijing 100091, China. lumz@caf.ac.cn.</Affiliation>
</AffiliationInfo>
<AffiliationInfo>
<Affiliation>Collaborative Innovation Center of Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing 210037, China. lumz@caf.ac.cn.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y">
<LastName>Xin</LastName>
<ForeName>Xuebing</ForeName>
<Initials>X</Initials>
<AffiliationInfo>
<Affiliation>Experimental Center of Forestry in North China, Chinese Academy of Forestry, Beijing 102300, China. xinxb01@163.com.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y">
<LastName>Hu</LastName>
<ForeName>Jianjun</ForeName>
<Initials>J</Initials>
<AffiliationInfo>
<Affiliation>State Key Laboratory of Tree Genetics and Breeding, Chinese Academy of Forestry, Beijing 100091, China. hujj@caf.ac.cn.</Affiliation>
</AffiliationInfo>
<AffiliationInfo>
<Affiliation>Key Laboratory of Tree Breeding and Cultivation of National Forestry and Grassland Administration, Research Institute of Forestry, Chinese Academy of Forestry, Beijing 100091, China. hujj@caf.ac.cn.</Affiliation>
</AffiliationInfo>
<AffiliationInfo>
<Affiliation>Collaborative Innovation Center of Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing 210037, China. hujj@caf.ac.cn.</Affiliation>
</AffiliationInfo>
</Author>
</AuthorList>
<Language>eng</Language>
<GrantList CompleteYN="Y">
<Grant>
<GrantID>CAFYBB2018ZY001-9</GrantID>
<Agency>Chinese Academy of Forestry</Agency>
<Country></Country>
</Grant>
<Grant>
<GrantID>CAFYBB2018ZY001-9</GrantID>
<Agency>Chinese Academy of Forestry</Agency>
<Country></Country>
</Grant>
<Grant>
<GrantID>31570669</GrantID>
<Agency>National Natural Science Foundation of China</Agency>
<Country></Country>
</Grant>
<Grant>
<GrantID>31571947</GrantID>
<Agency>National Natural Science Foundation of China</Agency>
<Country></Country>
</Grant>
</GrantList>
<PublicationTypeList>
<PublicationType UI="D016428">Journal Article</PublicationType>
</PublicationTypeList>
<ArticleDate DateType="Electronic">
<Year>2018</Year>
<Month>10</Month>
<Day>19</Day>
</ArticleDate>
</Article>
<MedlineJournalInfo>
<Country>Switzerland</Country>
<MedlineTA>Int J Mol Sci</MedlineTA>
<NlmUniqueID>101092791</NlmUniqueID>
<ISSNLinking>1422-0067</ISSNLinking>
</MedlineJournalInfo>
<ChemicalList>
<Chemical>
<RegistryNumber>0</RegistryNumber>
<NameOfSubstance UI="D006360">Heat-Shock Proteins</NameOfSubstance>
</Chemical>
<Chemical>
<RegistryNumber>0</RegistryNumber>
<NameOfSubstance UI="D010940">Plant Proteins</NameOfSubstance>
</Chemical>
</ChemicalList>
<CitationSubset>IM</CitationSubset>
<MeshHeadingList>
<MeshHeading>
<DescriptorName UI="D019143" MajorTopicYN="N">Evolution, Molecular</DescriptorName>
</MeshHeading>
<MeshHeading>
<DescriptorName UI="D006360" MajorTopicYN="N">Heat-Shock Proteins</DescriptorName>
<QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName>
<QualifierName UI="Q000378" MajorTopicYN="N">metabolism</QualifierName>
</MeshHeading>
<MeshHeading>
<DescriptorName UI="D018869" MajorTopicYN="Y">Heat-Shock Response</DescriptorName>
</MeshHeading>
<MeshHeading>
<DescriptorName UI="D010802" MajorTopicYN="N">Phylogeny</DescriptorName>
</MeshHeading>
<MeshHeading>
<DescriptorName UI="D010940" MajorTopicYN="N">Plant Proteins</DescriptorName>
<QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName>
<QualifierName UI="Q000378" MajorTopicYN="N">metabolism</QualifierName>
</MeshHeading>
<MeshHeading>
<DescriptorName UI="D032108" MajorTopicYN="N">Salix</DescriptorName>
<QualifierName UI="Q000145" MajorTopicYN="N">classification</QualifierName>
<QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName>
</MeshHeading>
<MeshHeading>
<DescriptorName UI="D000077323" MajorTopicYN="Y">Salt Stress</DescriptorName>
</MeshHeading>
</MeshHeadingList>
<KeywordList Owner="NOTNLM">
<Keyword MajorTopicYN="N">Salix suchowensis</Keyword>
<Keyword MajorTopicYN="N">expression analysis</Keyword>
<Keyword MajorTopicYN="N">gene structure</Keyword>
<Keyword MajorTopicYN="N">phylogenetic analysis</Keyword>
<Keyword MajorTopicYN="N">small heat shock proteins (sHsp)</Keyword>
</KeywordList>
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<Year>2018</Year>
<Month>10</Month>
<Day>15</Day>
</PubMedPubDate>
<PubMedPubDate PubStatus="accepted">
<Year>2018</Year>
<Month>10</Month>
<Day>16</Day>
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<Year>2019</Year>
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