Genome-wide analysis of lectin receptor-like kinases family from potato (Solanum tuberosum L.).
Identifieur interne : 000181 ( Main/Exploration ); précédent : 000180; suivant : 000182Genome-wide analysis of lectin receptor-like kinases family from potato (Solanum tuberosum L.).
Auteurs : Weina Zhang [République populaire de Chine] ; Zhongjian Chen [République populaire de Chine] ; Yichen Kang [République populaire de Chine] ; Yanling Fan [République populaire de Chine] ; Yuhui Liu [République populaire de Chine] ; Xinyu Yang [République populaire de Chine] ; Mingfu Shi [République populaire de Chine] ; Kai Yao [République populaire de Chine] ; Shuhao Qin [République populaire de Chine]Source :
- PeerJ [ 2167-8359 ] ; 2020.
Abstract
Lectin receptor-like kinases (LecRLKs) are involved in responses to diverse environmental stresses and pathogenic microbes. A comprehensive acknowledgment of the family members in potato (Solanum tuberosum) genome is largely limited until now. In total, 113 potato LecRLKs (StLecRLKs) were first identified, including 85 G-type, 26 L-type and 2 C-type members. Based on phylogenetic analysis, StLecRLKs were sub-grouped into seven clades, including C-type, L-type, G-I, G-II, G-III G-IV and G-V. Chromosomal distribution and gene duplication analysis revealed the expansion of StLecRLKs occurred majorly through tandem duplication although the whole-genome duplication (WGD)/segmental duplication events were found. Cis-elements in the StLecRLKs promoter region responded mainly to signals of defense and stress, phytohormone, biotic or abiotic stress. Moreover, expressional investigations indicated that the family members of the clades L-type, G-I, G-IV and G-V were responsive to both bacterial and fungal infection. Based on qRT-PCR analysis, the expressions of PGSC0003DMP400055136 and PGSC0003DMP400067047 were strongly induced in all treatments by both Fusarium sulphureum (Fs) and Phytophthora infestans (Pi) inoculation. The present study provides valuable information for LecRLKs gene family in potato genome, and establishes a foundation for further research into the functional analysis.
DOI: 10.7717/peerj.9310
PubMed: 32566405
PubMed Central: PMC7293193
Affiliations:
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Lanzhou</wicri:regionArea><wicri:noRegion>Lanzhou</wicri:noRegion></affiliation></author><author><name sortKey="Chen, Zhongjian" sort="Chen, Zhongjian" uniqKey="Chen Z" first="Zhongjian" last="Chen">Zhongjian Chen</name><affiliation wicri:level="3"><nlm:affiliation>Agro-biological Gene Research Center, Guangdong Academy of Agricultural Sciences, Guangzhou, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Agro-biological Gene Research Center, Guangdong Academy of Agricultural Sciences, Guangzhou</wicri:regionArea><placeName><settlement type="city">Jiangmen</settlement><region type="province">Guangdong</region></placeName></affiliation></author><author><name sortKey="Kang, Yichen" sort="Kang, Yichen" uniqKey="Kang Y" first="Yichen" last="Kang">Yichen Kang</name><affiliation wicri:level="1"><nlm:affiliation>College of Horticulture, Gansu Agricultural University, Lanzhou, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>College of Horticulture, Gansu Agricultural University, Lanzhou</wicri:regionArea><wicri:noRegion>Lanzhou</wicri:noRegion></affiliation></author><author><name sortKey="Fan, Yanling" sort="Fan, Yanling" uniqKey="Fan Y" first="Yanling" last="Fan">Yanling Fan</name><affiliation wicri:level="1"><nlm:affiliation>College of Horticulture, Gansu Agricultural University, Lanzhou, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>College of Horticulture, Gansu Agricultural University, Lanzhou</wicri:regionArea><wicri:noRegion>Lanzhou</wicri:noRegion></affiliation></author><author><name sortKey="Liu, Yuhui" sort="Liu, Yuhui" uniqKey="Liu Y" first="Yuhui" last="Liu">Yuhui Liu</name><affiliation wicri:level="1"><nlm:affiliation>Gansu Key Laboratory of Crop Improvement and Germplasm Enhancement, Gansu Agricultural University, Lanzhou, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>Gansu Key Laboratory of Crop Improvement and Germplasm Enhancement, Gansu Agricultural University, Lanzhou</wicri:regionArea><wicri:noRegion>Lanzhou</wicri:noRegion></affiliation></author><author><name sortKey="Yang, Xinyu" sort="Yang, Xinyu" uniqKey="Yang X" first="Xinyu" last="Yang">Xinyu Yang</name><affiliation wicri:level="1"><nlm:affiliation>College of Horticulture, Gansu Agricultural University, Lanzhou, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>College of Horticulture, Gansu Agricultural University, Lanzhou</wicri:regionArea><wicri:noRegion>Lanzhou</wicri:noRegion></affiliation></author><author><name sortKey="Shi, Mingfu" sort="Shi, Mingfu" uniqKey="Shi M" first="Mingfu" last="Shi">Mingfu Shi</name><affiliation wicri:level="1"><nlm:affiliation>College of Horticulture, Gansu Agricultural University, Lanzhou, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>College of Horticulture, Gansu Agricultural University, Lanzhou</wicri:regionArea><wicri:noRegion>Lanzhou</wicri:noRegion></affiliation></author><author><name sortKey="Yao, Kai" sort="Yao, Kai" uniqKey="Yao K" first="Kai" last="Yao">Kai Yao</name><affiliation wicri:level="1"><nlm:affiliation>College of Horticulture, Gansu Agricultural University, Lanzhou, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>College of Horticulture, Gansu Agricultural University, Lanzhou</wicri:regionArea><wicri:noRegion>Lanzhou</wicri:noRegion></affiliation></author><author><name sortKey="Qin, Shuhao" sort="Qin, Shuhao" uniqKey="Qin S" first="Shuhao" last="Qin">Shuhao Qin</name><affiliation wicri:level="1"><nlm:affiliation>College of Horticulture, Gansu Agricultural University, Lanzhou, China.</nlm:affiliation><country xml:lang="fr">République populaire de Chine</country><wicri:regionArea>College of Horticulture, Gansu Agricultural University, Lanzhou</wicri:regionArea><wicri:noRegion>Lanzhou</wicri:noRegion></affiliation></author></analytic><series><title level="j">PeerJ</title><idno type="ISSN">2167-8359</idno><imprint><date when="2020" type="published">2020</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Lectin receptor-like kinases (LecRLKs) are involved in responses to diverse environmental stresses and pathogenic microbes. A comprehensive acknowledgment of the family members in potato (<i>Solanum tuberosum</i>) genome is largely limited until now. In total, 113 potato LecRLKs (<i>St</i>LecRLKs) were first identified, including 85 G-type, 26 L-type and 2 C-type members. Based on phylogenetic analysis, <i>St</i>LecRLKs were sub-grouped into seven clades, including C-type, L-type, G-I, G-II, G-III G-IV and G-V. Chromosomal distribution and gene duplication analysis revealed the expansion of <i>St</i>LecRLKs occurred majorly through tandem duplication although the whole-genome duplication (WGD)/segmental duplication events were found. <i>Cis</i>-elements in the <i>St</i>LecRLKs promoter region responded mainly to signals of defense and stress, phytohormone, biotic or abiotic stress. Moreover, expressional investigations indicated that the family members of the clades L-type, G-I, G-IV and G-V were responsive to both bacterial and fungal infection. Based on qRT-PCR analysis, the expressions of PGSC0003DMP400055136 and PGSC0003DMP400067047 were strongly induced in all treatments by both <i>Fusarium sulphureum</i> (<i>Fs</i>) and <i>Phytophthora infestans</i> (<i>Pi</i>) inoculation. The present study provides valuable information for LecRLKs gene family in potato genome, and establishes a foundation for further research into the functional analysis.</div></front></TEI><pubmed><MedlineCitation Status="PubMed-not-MEDLINE" Owner="NLM"><PMID Version="1">32566405</PMID><DateRevised><Year>2020</Year><Month>09</Month><Day>28</Day></DateRevised><Article PubModel="Electronic-eCollection"><Journal><ISSN IssnType="Print">2167-8359</ISSN><JournalIssue CitedMedium="Print"><Volume>8</Volume><PubDate><Year>2020</Year></PubDate></JournalIssue><Title>PeerJ</Title><ISOAbbreviation>PeerJ</ISOAbbreviation></Journal><ArticleTitle>Genome-wide analysis of lectin receptor-like kinases family from potato (<i>Solanum tuberosum</i> L.).</ArticleTitle><Pagination><MedlinePgn>e9310</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.7717/peerj.9310</ELocationID><Abstract><AbstractText>Lectin receptor-like kinases (LecRLKs) are involved in responses to diverse environmental stresses and pathogenic microbes. A comprehensive acknowledgment of the family members in potato (<i>Solanum tuberosum</i>) genome is largely limited until now. In total, 113 potato LecRLKs (<i>St</i>LecRLKs) were first identified, including 85 G-type, 26 L-type and 2 C-type members. Based on phylogenetic analysis, <i>St</i>LecRLKs were sub-grouped into seven clades, including C-type, L-type, G-I, G-II, G-III G-IV and G-V. Chromosomal distribution and gene duplication analysis revealed the expansion of <i>St</i>LecRLKs occurred majorly through tandem duplication although the whole-genome duplication (WGD)/segmental duplication events were found. <i>Cis</i>-elements in the <i>St</i>LecRLKs promoter region responded mainly to signals of defense and stress, phytohormone, biotic or abiotic stress. Moreover, expressional investigations indicated that the family members of the clades L-type, G-I, G-IV and G-V were responsive to both bacterial and fungal infection. Based on qRT-PCR analysis, the expressions of PGSC0003DMP400055136 and PGSC0003DMP400067047 were strongly induced in all treatments by both <i>Fusarium sulphureum</i> (<i>Fs</i>) and <i>Phytophthora infestans</i> (<i>Pi</i>) inoculation. The present study provides valuable information for LecRLKs gene family in potato genome, and establishes a foundation for further research into the functional analysis.</AbstractText><CopyrightInformation>© 2020 Zhang et al.</CopyrightInformation></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Zhang</LastName><ForeName>Weina</ForeName><Initials>W</Initials><AffiliationInfo><Affiliation>College of Horticulture, Gansu Agricultural University, Lanzhou, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Chen</LastName><ForeName>Zhongjian</ForeName><Initials>Z</Initials><AffiliationInfo><Affiliation>Agro-biological Gene Research Center, Guangdong Academy of Agricultural Sciences, Guangzhou, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Kang</LastName><ForeName>Yichen</ForeName><Initials>Y</Initials><AffiliationInfo><Affiliation>College of Horticulture, Gansu Agricultural University, Lanzhou, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Fan</LastName><ForeName>Yanling</ForeName><Initials>Y</Initials><AffiliationInfo><Affiliation>College of Horticulture, Gansu Agricultural University, Lanzhou, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Liu</LastName><ForeName>Yuhui</ForeName><Initials>Y</Initials><AffiliationInfo><Affiliation>Gansu Key Laboratory of Crop Improvement and Germplasm Enhancement, Gansu Agricultural University, Lanzhou, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Yang</LastName><ForeName>Xinyu</ForeName><Initials>X</Initials><AffiliationInfo><Affiliation>College of Horticulture, Gansu Agricultural University, Lanzhou, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Shi</LastName><ForeName>Mingfu</ForeName><Initials>M</Initials><AffiliationInfo><Affiliation>College of Horticulture, Gansu Agricultural University, Lanzhou, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Yao</LastName><ForeName>Kai</ForeName><Initials>K</Initials><AffiliationInfo><Affiliation>College of Horticulture, Gansu Agricultural University, Lanzhou, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Qin</LastName><ForeName>Shuhao</ForeName><Initials>S</Initials><AffiliationInfo><Affiliation>College of Horticulture, Gansu Agricultural University, Lanzhou, China.</Affiliation></AffiliationInfo></Author></AuthorList><Language>eng</Language><PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType></PublicationTypeList><ArticleDate DateType="Electronic"><Year>2020</Year><Month>06</Month><Day>10</Day></ArticleDate></Article><MedlineJournalInfo><Country>United States</Country><MedlineTA>PeerJ</MedlineTA><NlmUniqueID>101603425</NlmUniqueID><ISSNLinking>2167-8359</ISSNLinking></MedlineJournalInfo><KeywordList Owner="NOTNLM"><Keyword MajorTopicYN="N">Expressional pattern</Keyword><Keyword MajorTopicYN="N">Fungal disease resistance</Keyword><Keyword MajorTopicYN="N">Gene duplication</Keyword><Keyword MajorTopicYN="N">Lectin receptor-like kinase (LecRLKs)</Keyword><Keyword MajorTopicYN="N">Potato</Keyword><Keyword MajorTopicYN="N">RNA-seq-based-transcriptomics</Keyword></KeywordList><CoiStatement>The authors declare that they have no competing interests.</CoiStatement></MedlineCitation><PubmedData><History><PubMedPubDate PubStatus="received"><Year>2019</Year><Month>10</Month><Day>07</Day></PubMedPubDate><PubMedPubDate PubStatus="accepted"><Year>2020</Year><Month>05</Month><Day>17</Day></PubMedPubDate><PubMedPubDate PubStatus="entrez"><Year>2020</Year><Month>6</Month><Day>23</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="pubmed"><Year>2020</Year><Month>6</Month><Day>23</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate 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