Transcriptome sequencing of transgenic poplar (Populus × euramericana 'Guariento') expressing multiple resistance genes.
Identifieur interne : 001F90 ( Main/Exploration ); précédent : 001F89; suivant : 001F91Transcriptome sequencing of transgenic poplar (Populus × euramericana 'Guariento') expressing multiple resistance genes.
Auteurs : Weixi Zhang ; Yanguang Chu ; Changjun Ding ; Bingyu Zhang ; Qinjun Huang ; Zanmin Hu ; Rongfeng Huang ; Yingchuan Tian ; Xiaohua SuSource :
- BMC genetics [ 1471-2156 ] ; 2014.
Descripteurs français
- KwdFr :
- MESH :
English descriptors
- KwdEn :
- MESH :
- chemical : Sodium Chloride.
- genetics : Plants, Genetically Modified, Populus, Stress, Physiological.
- Animals, Droughts, Floods, Genome, Plant, Herbivory, Insecta, Phylogeny, Transcriptome.
Abstract
BACKGROUND
Transgenic poplar (Populus × euramericana 'Guariento') plants harboring five exogenous, stress-related genes exhibit increased tolerance to multiple stresses including drought, salt, waterlogging, and insect feeding, but the complex mechanisms underlying stress tolerance in these plants have not been elucidated. Here, we analyzed the differences in the transcriptomes of the transgenic poplar line D5-20 and the non-transgenic line D5-0 using high-throughput transcriptome sequencing techniques and elucidated the functions of the differentially expressed genes using various functional annotation methods.
RESULTS
We generated 11.80 Gb of sequencing data containing 63, 430, 901 sequences, with an average length of 200 bp. The processed sequences were mapped to reference genome sequences of Populus trichocarpa. An average of 62.30% and 61.48% sequences could be aligned with the reference genomes for D5-20 and D5-0, respectively. We detected 11,352 (D5-20) and 11,372 expressed genes (D5-0), 7,624 (56.61%; D5-20) and 7,453 (65.54%; D5-0) of which could be functionally annotated. A total of 782 differentially expressed genes in D5-20 were identified compared with D5-0, including 628 up-regulated and 154 down-regulated genes. In addition, 196 genes with putative functions related to stress responses were also annotated. Gene Ontology (GO) analysis revealed that 346 differentially expressed genes are mainly involved in 67 biological functions, such as DNA binding and nucleus. KEGG annotation revealed that 36 genes (21 up-regulated and 15 down-regulated) were enriched in 51 biological pathways, 9 of which are linked to glucose metabolism. KOG functional classification revealed that 475 genes were enriched in 23 types of KOG functions.
CONCLUSION
These results suggest that the transferred exogenous genes altered the expression of stress (biotic and abiotic) response genes, which were distributed in different metabolic pathways and were linked to some extent. Our results provide a theoretic basis for investigating the functional mechanisms of exogenous genes in transgenic plants.
DOI: 10.1186/1471-2156-15-S1-S7
PubMed: 25079970
PubMed Central: PMC4118631
Affiliations:
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<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">Transcriptome sequencing of transgenic poplar (Populus × euramericana 'Guariento') expressing multiple resistance genes.</title><author><name sortKey="Zhang, Weixi" sort="Zhang, Weixi" uniqKey="Zhang W" first="Weixi" last="Zhang">Weixi Zhang</name></author><author><name sortKey="Chu, Yanguang" sort="Chu, Yanguang" uniqKey="Chu Y" first="Yanguang" last="Chu">Yanguang Chu</name></author><author><name sortKey="Ding, Changjun" sort="Ding, Changjun" uniqKey="Ding C" first="Changjun" last="Ding">Changjun Ding</name></author><author><name sortKey="Zhang, Bingyu" sort="Zhang, Bingyu" uniqKey="Zhang B" first="Bingyu" last="Zhang">Bingyu Zhang</name></author><author><name sortKey="Huang, Qinjun" sort="Huang, Qinjun" uniqKey="Huang Q" first="Qinjun" last="Huang">Qinjun Huang</name></author><author><name sortKey="Hu, Zanmin" sort="Hu, Zanmin" uniqKey="Hu Z" first="Zanmin" last="Hu">Zanmin Hu</name></author><author><name sortKey="Huang, Rongfeng" sort="Huang, Rongfeng" uniqKey="Huang R" first="Rongfeng" last="Huang">Rongfeng Huang</name></author><author><name sortKey="Tian, Yingchuan" sort="Tian, Yingchuan" uniqKey="Tian Y" first="Yingchuan" last="Tian">Yingchuan Tian</name></author><author><name sortKey="Su, Xiaohua" sort="Su, Xiaohua" uniqKey="Su X" first="Xiaohua" last="Su">Xiaohua Su</name></author></titleStmt><publicationStmt><idno type="wicri:source">PubMed</idno><date when="2014">2014</date><idno type="RBID">pubmed:25079970</idno><idno type="pmid">25079970</idno><idno type="doi">10.1186/1471-2156-15-S1-S7</idno><idno type="pmc">PMC4118631</idno><idno type="wicri:Area/Main/Corpus">002061</idno><idno type="wicri:explorRef" wicri:stream="Main" wicri:step="Corpus" wicri:corpus="PubMed">002061</idno><idno type="wicri:Area/Main/Curation">002061</idno><idno type="wicri:explorRef" wicri:stream="Main" wicri:step="Curation">002061</idno><idno type="wicri:Area/Main/Exploration">002061</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en">Transcriptome sequencing of transgenic poplar (Populus × euramericana 'Guariento') expressing multiple resistance genes.</title><author><name sortKey="Zhang, Weixi" sort="Zhang, Weixi" uniqKey="Zhang W" first="Weixi" last="Zhang">Weixi Zhang</name></author><author><name sortKey="Chu, Yanguang" sort="Chu, Yanguang" uniqKey="Chu Y" first="Yanguang" last="Chu">Yanguang Chu</name></author><author><name sortKey="Ding, Changjun" sort="Ding, Changjun" uniqKey="Ding C" first="Changjun" last="Ding">Changjun Ding</name></author><author><name sortKey="Zhang, Bingyu" sort="Zhang, Bingyu" uniqKey="Zhang B" first="Bingyu" last="Zhang">Bingyu Zhang</name></author><author><name sortKey="Huang, Qinjun" sort="Huang, Qinjun" uniqKey="Huang Q" first="Qinjun" last="Huang">Qinjun Huang</name></author><author><name sortKey="Hu, Zanmin" sort="Hu, Zanmin" uniqKey="Hu Z" first="Zanmin" last="Hu">Zanmin Hu</name></author><author><name sortKey="Huang, Rongfeng" sort="Huang, Rongfeng" uniqKey="Huang R" first="Rongfeng" last="Huang">Rongfeng Huang</name></author><author><name sortKey="Tian, Yingchuan" sort="Tian, Yingchuan" uniqKey="Tian Y" first="Yingchuan" last="Tian">Yingchuan Tian</name></author><author><name sortKey="Su, Xiaohua" sort="Su, Xiaohua" uniqKey="Su X" first="Xiaohua" last="Su">Xiaohua Su</name></author></analytic><series><title level="j">BMC genetics</title><idno type="eISSN">1471-2156</idno><imprint><date when="2014" type="published">2014</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Animals (MeSH)</term><term>Droughts (MeSH)</term><term>Floods (MeSH)</term><term>Genome, Plant (MeSH)</term><term>Herbivory (MeSH)</term><term>Insecta (MeSH)</term><term>Phylogeny (MeSH)</term><term>Plants, Genetically Modified (genetics)</term><term>Populus (genetics)</term><term>Sodium Chloride (MeSH)</term><term>Stress, Physiological (genetics)</term><term>Transcriptome (MeSH)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>Animaux (MeSH)</term><term>Chlorure de sodium (MeSH)</term><term>Génome végétal (MeSH)</term><term>Herbivorie (MeSH)</term><term>Inondations (MeSH)</term><term>Insectes (MeSH)</term><term>Phylogenèse (MeSH)</term><term>Populus (génétique)</term><term>Stress physiologique (génétique)</term><term>Sécheresses (MeSH)</term><term>Transcriptome (MeSH)</term><term>Végétaux génétiquement modifiés (génétique)</term></keywords><keywords scheme="MESH" type="chemical" xml:lang="en"><term>Sodium Chloride</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Plants, Genetically Modified</term><term>Populus</term><term>Stress, Physiological</term></keywords><keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>Populus</term><term>Stress physiologique</term><term>Végétaux génétiquement modifiés</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Animals</term><term>Droughts</term><term>Floods</term><term>Genome, Plant</term><term>Herbivory</term><term>Insecta</term><term>Phylogeny</term><term>Transcriptome</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Animaux</term><term>Chlorure de sodium</term><term>Génome végétal</term><term>Herbivorie</term><term>Inondations</term><term>Insectes</term><term>Phylogenèse</term><term>Sécheresses</term><term>Transcriptome</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><p><b>BACKGROUND</b></p><p>Transgenic poplar (Populus × euramericana 'Guariento') plants harboring five exogenous, stress-related genes exhibit increased tolerance to multiple stresses including drought, salt, waterlogging, and insect feeding, but the complex mechanisms underlying stress tolerance in these plants have not been elucidated. Here, we analyzed the differences in the transcriptomes of the transgenic poplar line D5-20 and the non-transgenic line D5-0 using high-throughput transcriptome sequencing techniques and elucidated the functions of the differentially expressed genes using various functional annotation methods.</p></div><div type="abstract" xml:lang="en"><p><b>RESULTS</b></p><p>We generated 11.80 Gb of sequencing data containing 63, 430, 901 sequences, with an average length of 200 bp. The processed sequences were mapped to reference genome sequences of Populus trichocarpa. An average of 62.30% and 61.48% sequences could be aligned with the reference genomes for D5-20 and D5-0, respectively. We detected 11,352 (D5-20) and 11,372 expressed genes (D5-0), 7,624 (56.61%; D5-20) and 7,453 (65.54%; D5-0) of which could be functionally annotated. A total of 782 differentially expressed genes in D5-20 were identified compared with D5-0, including 628 up-regulated and 154 down-regulated genes. In addition, 196 genes with putative functions related to stress responses were also annotated. Gene Ontology (GO) analysis revealed that 346 differentially expressed genes are mainly involved in 67 biological functions, such as DNA binding and nucleus. KEGG annotation revealed that 36 genes (21 up-regulated and 15 down-regulated) were enriched in 51 biological pathways, 9 of which are linked to glucose metabolism. KOG functional classification revealed that 475 genes were enriched in 23 types of KOG functions.</p></div><div type="abstract" xml:lang="en"><p><b>CONCLUSION</b></p><p>These results suggest that the transferred exogenous genes altered the expression of stress (biotic and abiotic) response genes, which were distributed in different metabolic pathways and were linked to some extent. Our results provide a theoretic basis for investigating the functional mechanisms of exogenous genes in transgenic plants.</p></div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">25079970</PMID><DateCompleted><Year>2014</Year><Month>10</Month><Day>16</Day></DateCompleted><DateRevised><Year>2018</Year><Month>11</Month><Day>13</Day></DateRevised><Article PubModel="Print-Electronic"><Journal><ISSN IssnType="Electronic">1471-2156</ISSN><JournalIssue CitedMedium="Internet"><Volume>15 Suppl 1</Volume><PubDate><Year>2014</Year></PubDate></JournalIssue><Title>BMC genetics</Title><ISOAbbreviation>BMC Genet</ISOAbbreviation></Journal><ArticleTitle>Transcriptome sequencing of transgenic poplar (Populus × euramericana 'Guariento') expressing multiple resistance genes.</ArticleTitle><Pagination><MedlinePgn>S7</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1186/1471-2156-15-S1-S7</ELocationID><Abstract><AbstractText Label="BACKGROUND" NlmCategory="BACKGROUND">Transgenic poplar (Populus × euramericana 'Guariento') plants harboring five exogenous, stress-related genes exhibit increased tolerance to multiple stresses including drought, salt, waterlogging, and insect feeding, but the complex mechanisms underlying stress tolerance in these plants have not been elucidated. Here, we analyzed the differences in the transcriptomes of the transgenic poplar line D5-20 and the non-transgenic line D5-0 using high-throughput transcriptome sequencing techniques and elucidated the functions of the differentially expressed genes using various functional annotation methods.</AbstractText><AbstractText Label="RESULTS" NlmCategory="RESULTS">We generated 11.80 Gb of sequencing data containing 63, 430, 901 sequences, with an average length of 200 bp. The processed sequences were mapped to reference genome sequences of Populus trichocarpa. An average of 62.30% and 61.48% sequences could be aligned with the reference genomes for D5-20 and D5-0, respectively. We detected 11,352 (D5-20) and 11,372 expressed genes (D5-0), 7,624 (56.61%; D5-20) and 7,453 (65.54%; D5-0) of which could be functionally annotated. A total of 782 differentially expressed genes in D5-20 were identified compared with D5-0, including 628 up-regulated and 154 down-regulated genes. In addition, 196 genes with putative functions related to stress responses were also annotated. Gene Ontology (GO) analysis revealed that 346 differentially expressed genes are mainly involved in 67 biological functions, such as DNA binding and nucleus. KEGG annotation revealed that 36 genes (21 up-regulated and 15 down-regulated) were enriched in 51 biological pathways, 9 of which are linked to glucose metabolism. KOG functional classification revealed that 475 genes were enriched in 23 types of KOG functions.</AbstractText><AbstractText Label="CONCLUSION" NlmCategory="CONCLUSIONS">These results suggest that the transferred exogenous genes altered the expression of stress (biotic and abiotic) response genes, which were distributed in different metabolic pathways and were linked to some extent. Our results provide a theoretic basis for investigating the functional mechanisms of exogenous genes in transgenic plants.</AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Zhang</LastName><ForeName>Weixi</ForeName><Initials>W</Initials></Author><Author ValidYN="Y"><LastName>Chu</LastName><ForeName>Yanguang</ForeName><Initials>Y</Initials></Author><Author ValidYN="Y"><LastName>Ding</LastName><ForeName>Changjun</ForeName><Initials>C</Initials></Author><Author ValidYN="Y"><LastName>Zhang</LastName><ForeName>Bingyu</ForeName><Initials>B</Initials></Author><Author ValidYN="Y"><LastName>Huang</LastName><ForeName>Qinjun</ForeName><Initials>Q</Initials></Author><Author ValidYN="Y"><LastName>Hu</LastName><ForeName>Zanmin</ForeName><Initials>Z</Initials></Author><Author ValidYN="Y"><LastName>Huang</LastName><ForeName>Rongfeng</ForeName><Initials>R</Initials></Author><Author 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MajorTopicYN="N">Animals</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D055864" MajorTopicYN="N">Droughts</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D055868" MajorTopicYN="N">Floods</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D018745" MajorTopicYN="Y">Genome, Plant</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D060434" MajorTopicYN="N">Herbivory</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D007313" MajorTopicYN="N">Insecta</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D010802" MajorTopicYN="N">Phylogeny</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D030821" MajorTopicYN="N">Plants, Genetically Modified</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D032107" MajorTopicYN="N">Populus</DescriptorName><QualifierName UI="Q000235" 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last="Huang">Rongfeng Huang</name><name sortKey="Su, Xiaohua" sort="Su, Xiaohua" uniqKey="Su X" first="Xiaohua" last="Su">Xiaohua Su</name><name sortKey="Tian, Yingchuan" sort="Tian, Yingchuan" uniqKey="Tian Y" first="Yingchuan" last="Tian">Yingchuan Tian</name><name sortKey="Zhang, Bingyu" sort="Zhang, Bingyu" uniqKey="Zhang B" first="Bingyu" last="Zhang">Bingyu Zhang</name><name sortKey="Zhang, Weixi" sort="Zhang, Weixi" uniqKey="Zhang W" first="Weixi" last="Zhang">Weixi Zhang</name></noCountry></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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