Identification and characterization of differentially expressed genes during incompatible interaction between the foliar rust Melampsora larici-populina and poplar.
Identifieur interne : 000078 ( PubMed/Corpus ); précédent : 000077; suivant : 000079Identification and characterization of differentially expressed genes during incompatible interaction between the foliar rust Melampsora larici-populina and poplar.
Auteurs : Z J Chen ; Z M Cao ; Z D YuSource :
- Genetics and molecular research : GMR [ 1676-5680 ] ; 2014.
English descriptors
- KwdEn :
- Basidiomycota (physiology), Computational Biology (methods), Disease Resistance (genetics), Expressed Sequence Tags (MeSH), Gene Expression Profiling (MeSH), Gene Expression Regulation, Plant (MeSH), Host-Pathogen Interactions (genetics), Molecular Sequence Annotation (MeSH), Plant Diseases (genetics), Plant Diseases (microbiology), Populus (genetics), Populus (microbiology), Reproducibility of Results (MeSH).
- MESH :
- genetics : Disease Resistance, Host-Pathogen Interactions, Plant Diseases, Populus.
- methods : Computational Biology.
- microbiology : Plant Diseases, Populus.
- physiology : Basidiomycota.
- Expressed Sequence Tags, Gene Expression Profiling, Gene Expression Regulation, Plant, Molecular Sequence Annotation, Reproducibility of Results.
Abstract
Poplars are extensively cultivated worldwide, and their susceptibility to the foliar rust fungus leads to considerable damages in plantations. To better understand the molecular basis of poplar responses to the foliar rust, suppression subtractive hybridization was used to identify the potential important or novel genes involved in the Populus szechuanica infection by Melampsora larici-populina. A total of 515 expressed sequence tags (ESTs) with high quality were obtained and clustered into 66 contigs and 75 singletons to give a set of 141 uniESTs. The nucleotide Basic Local Alignment Search Tool (BLASTn) program was used to search for homologous sequences of the uniESTs in the GenBank database. Among them, 92.9% showed homology to the poplar genome, and 2% showed similarity to the rust fungus genome. In addition, homology to known genes was analyzed by the BLASTx algorithm, and approximately 50% of the uniESTs were significantly homologous to genes encoding proteins with known functions. Based on a reverse transcription-polymerase chain reaction (PCR) and quantitative PCR approach, five uniESTs were analyzed, and the results showed that the expression level of the thaumatin-like gene was highest at 72 h post-inoculation, and the pathogenesis-related protein 1 gene was highest at 48 h post-inoculation. The information generated in this study provides new clues to aid in the understanding of incompatibility between poplar and the foliar rust.
DOI: 10.4238/2014.March.24.12
PubMed: 24737433
Links to Exploration step
pubmed:24737433Le document en format XML
<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">Identification and characterization of differentially expressed genes during incompatible interaction between the foliar rust Melampsora larici-populina and poplar.</title><author><name sortKey="Chen, Z J" sort="Chen, Z J" uniqKey="Chen Z" first="Z J" last="Chen">Z J Chen</name><affiliation><nlm:affiliation>College of Forestry, Northwest A&F University, Yangling, Shaanxi, China.</nlm:affiliation></affiliation></author><author><name sortKey="Cao, Z M" sort="Cao, Z M" uniqKey="Cao Z" first="Z M" last="Cao">Z M Cao</name><affiliation><nlm:affiliation>College of Forestry, Northwest A&F University, Yangling, Shaanxi, China zmcao@nwsuaf.edu.cn.</nlm:affiliation></affiliation></author><author><name sortKey="Yu, Z D" sort="Yu, Z D" uniqKey="Yu Z" first="Z D" last="Yu">Z D Yu</name><affiliation><nlm:affiliation>College of Forestry, Northwest A&F University, Yangling, Shaanxi, China.</nlm:affiliation></affiliation></author></titleStmt><publicationStmt><idno type="wicri:source">PubMed</idno><date when="2014">2014</date><idno type="RBID">pubmed:24737433</idno><idno type="pmid">24737433</idno><idno type="doi">10.4238/2014.March.24.12</idno><idno type="wicri:Area/PubMed/Corpus">000078</idno><idno type="wicri:explorRef" wicri:stream="PubMed" wicri:step="Corpus" wicri:corpus="PubMed">000078</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en">Identification and characterization of differentially expressed genes during incompatible interaction between the foliar rust Melampsora larici-populina and poplar.</title><author><name sortKey="Chen, Z J" sort="Chen, Z J" uniqKey="Chen Z" first="Z J" last="Chen">Z J Chen</name><affiliation><nlm:affiliation>College of Forestry, Northwest A&F University, Yangling, Shaanxi, China.</nlm:affiliation></affiliation></author><author><name sortKey="Cao, Z M" sort="Cao, Z M" uniqKey="Cao Z" first="Z M" last="Cao">Z M Cao</name><affiliation><nlm:affiliation>College of Forestry, Northwest A&F University, Yangling, Shaanxi, China zmcao@nwsuaf.edu.cn.</nlm:affiliation></affiliation></author><author><name sortKey="Yu, Z D" sort="Yu, Z D" uniqKey="Yu Z" first="Z D" last="Yu">Z D Yu</name><affiliation><nlm:affiliation>College of Forestry, Northwest A&F University, Yangling, Shaanxi, China.</nlm:affiliation></affiliation></author></analytic><series><title level="j">Genetics and molecular research : GMR</title><idno type="eISSN">1676-5680</idno><imprint><date when="2014" type="published">2014</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Basidiomycota (physiology)</term><term>Computational Biology (methods)</term><term>Disease Resistance (genetics)</term><term>Expressed Sequence Tags (MeSH)</term><term>Gene Expression Profiling (MeSH)</term><term>Gene Expression Regulation, Plant (MeSH)</term><term>Host-Pathogen Interactions (genetics)</term><term>Molecular Sequence Annotation (MeSH)</term><term>Plant Diseases (genetics)</term><term>Plant Diseases (microbiology)</term><term>Populus (genetics)</term><term>Populus (microbiology)</term><term>Reproducibility of Results (MeSH)</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Disease Resistance</term><term>Host-Pathogen Interactions</term><term>Plant Diseases</term><term>Populus</term></keywords><keywords scheme="MESH" qualifier="methods" xml:lang="en"><term>Computational Biology</term></keywords><keywords scheme="MESH" qualifier="microbiology" xml:lang="en"><term>Plant Diseases</term><term>Populus</term></keywords><keywords scheme="MESH" qualifier="physiology" xml:lang="en"><term>Basidiomycota</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Expressed Sequence Tags</term><term>Gene Expression Profiling</term><term>Gene Expression Regulation, Plant</term><term>Molecular Sequence Annotation</term><term>Reproducibility of Results</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Poplars are extensively cultivated worldwide, and their susceptibility to the foliar rust fungus leads to considerable damages in plantations. To better understand the molecular basis of poplar responses to the foliar rust, suppression subtractive hybridization was used to identify the potential important or novel genes involved in the Populus szechuanica infection by Melampsora larici-populina. A total of 515 expressed sequence tags (ESTs) with high quality were obtained and clustered into 66 contigs and 75 singletons to give a set of 141 uniESTs. The nucleotide Basic Local Alignment Search Tool (BLASTn) program was used to search for homologous sequences of the uniESTs in the GenBank database. Among them, 92.9% showed homology to the poplar genome, and 2% showed similarity to the rust fungus genome. In addition, homology to known genes was analyzed by the BLASTx algorithm, and approximately 50% of the uniESTs were significantly homologous to genes encoding proteins with known functions. Based on a reverse transcription-polymerase chain reaction (PCR) and quantitative PCR approach, five uniESTs were analyzed, and the results showed that the expression level of the thaumatin-like gene was highest at 72 h post-inoculation, and the pathogenesis-related protein 1 gene was highest at 48 h post-inoculation. The information generated in this study provides new clues to aid in the understanding of incompatibility between poplar and the foliar rust. </div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">24737433</PMID><DateCompleted><Year>2014</Year><Month>11</Month><Day>06</Day></DateCompleted><DateRevised><Year>2014</Year><Month>04</Month><Day>16</Day></DateRevised><Article PubModel="Electronic"><Journal><ISSN IssnType="Electronic">1676-5680</ISSN><JournalIssue CitedMedium="Internet"><Volume>13</Volume><Issue>1</Issue><PubDate><Year>2014</Year><Month>Mar</Month><Day>24</Day></PubDate></JournalIssue><Title>Genetics and molecular research : GMR</Title><ISOAbbreviation>Genet Mol Res</ISOAbbreviation></Journal><ArticleTitle>Identification and characterization of differentially expressed genes during incompatible interaction between the foliar rust Melampsora larici-populina and poplar.</ArticleTitle><Pagination><MedlinePgn>2082-93</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.4238/2014.March.24.12</ELocationID><Abstract><AbstractText>Poplars are extensively cultivated worldwide, and their susceptibility to the foliar rust fungus leads to considerable damages in plantations. To better understand the molecular basis of poplar responses to the foliar rust, suppression subtractive hybridization was used to identify the potential important or novel genes involved in the Populus szechuanica infection by Melampsora larici-populina. A total of 515 expressed sequence tags (ESTs) with high quality were obtained and clustered into 66 contigs and 75 singletons to give a set of 141 uniESTs. The nucleotide Basic Local Alignment Search Tool (BLASTn) program was used to search for homologous sequences of the uniESTs in the GenBank database. Among them, 92.9% showed homology to the poplar genome, and 2% showed similarity to the rust fungus genome. In addition, homology to known genes was analyzed by the BLASTx algorithm, and approximately 50% of the uniESTs were significantly homologous to genes encoding proteins with known functions. Based on a reverse transcription-polymerase chain reaction (PCR) and quantitative PCR approach, five uniESTs were analyzed, and the results showed that the expression level of the thaumatin-like gene was highest at 72 h post-inoculation, and the pathogenesis-related protein 1 gene was highest at 48 h post-inoculation. The information generated in this study provides new clues to aid in the understanding of incompatibility between poplar and the foliar rust. </AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Chen</LastName><ForeName>Z J</ForeName><Initials>ZJ</Initials><AffiliationInfo><Affiliation>College of Forestry, Northwest A&F University, Yangling, Shaanxi, China.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Cao</LastName><ForeName>Z M</ForeName><Initials>ZM</Initials><AffiliationInfo><Affiliation>College of Forestry, Northwest A&F University, Yangling, Shaanxi, China zmcao@nwsuaf.edu.cn.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Yu</LastName><ForeName>Z D</ForeName><Initials>ZD</Initials><AffiliationInfo><Affiliation>College of Forestry, Northwest A&F University, Yangling, Shaanxi, China.</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>2014</Year><Month>03</Month><Day>24</Day></ArticleDate></Article><MedlineJournalInfo><Country>Brazil</Country><MedlineTA>Genet Mol Res</MedlineTA><NlmUniqueID>101169387</NlmUniqueID><ISSNLinking>1676-5680</ISSNLinking></MedlineJournalInfo><CitationSubset>IM</CitationSubset><MeshHeadingList><MeshHeading><DescriptorName UI="D001487" MajorTopicYN="N">Basidiomycota</DescriptorName><QualifierName UI="Q000502" MajorTopicYN="Y">physiology</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D019295" MajorTopicYN="N">Computational Biology</DescriptorName><QualifierName UI="Q000379" MajorTopicYN="N">methods</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D060467" MajorTopicYN="N">Disease Resistance</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D020224" MajorTopicYN="N">Expressed Sequence Tags</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D020869" MajorTopicYN="N">Gene Expression Profiling</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D018506" MajorTopicYN="Y">Gene Expression Regulation, Plant</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D054884" MajorTopicYN="N">Host-Pathogen Interactions</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D058977" MajorTopicYN="N">Molecular Sequence Annotation</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D010935" MajorTopicYN="N">Plant Diseases</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName><QualifierName UI="Q000382" MajorTopicYN="Y">microbiology</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D032107" MajorTopicYN="N">Populus</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName><QualifierName UI="Q000382" MajorTopicYN="Y">microbiology</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D015203" MajorTopicYN="N">Reproducibility of Results</DescriptorName></MeshHeading></MeshHeadingList></MedlineCitation><PubmedData><History><PubMedPubDate PubStatus="entrez"><Year>2014</Year><Month>4</Month><Day>17</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="pubmed"><Year>2014</Year><Month>4</Month><Day>17</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="medline"><Year>2014</Year><Month>11</Month><Day>7</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate></History><PublicationStatus>epublish</PublicationStatus><ArticleIdList><ArticleId IdType="pubmed">24737433</ArticleId><ArticleId IdType="pii">gmr3512</ArticleId><ArticleId IdType="doi">10.4238/2014.March.24.12</ArticleId></ArticleIdList></PubmedData></pubmed></record>Pour manipuler ce document sous Unix (Dilib)
EXPLOR_STEP=$WICRI_ROOT/Bois/explor/MelampsoraV2/Data/PubMed/Corpus
HfdSelect -h $EXPLOR_STEP/biblio.hfd -nk 000078 | SxmlIndent | more
Ou
HfdSelect -h $EXPLOR_AREA/Data/PubMed/Corpus/biblio.hfd -nk 000078 | SxmlIndent | more
Pour mettre un lien sur cette page dans le réseau Wicri
{{Explor lien
|wiki= Bois
|area= MelampsoraV2
|flux= PubMed
|étape= Corpus
|type= RBID
|clé= pubmed:24737433
|texte= Identification and characterization of differentially expressed genes during incompatible interaction between the foliar rust Melampsora larici-populina and poplar.
}}
Pour générer des pages wiki
HfdIndexSelect -h $EXPLOR_AREA/Data/PubMed/Corpus/RBID.i -Sk "pubmed:24737433" \
| HfdSelect -Kh $EXPLOR_AREA/Data/PubMed/Corpus/biblio.hfd \
| NlmPubMed2Wicri -a MelampsoraV2
| This area was generated with Dilib version V0.6.38. |  |