Transcriptome dynamics of a desert poplar (Populus pruinosa) in response to continuous salinity stress.
Identifieur interne : 001F91 ( Main/Exploration ); précédent : 001F90; suivant : 001F92Transcriptome dynamics of a desert poplar (Populus pruinosa) in response to continuous salinity stress.
Auteurs : Jian Zhang [République populaire de Chine] ; Dechun Jiang ; Bingbing Liu ; Wenchun Luo ; Jing Lu ; Tao Ma ; Dongshi WanSource :
- Plant cell reports [ 1432-203X ] ; 2014.
Descripteurs français
- KwdFr :
- Adaptation physiologique (MeSH), Analyse de profil d'expression de gènes (MeSH), Analyse de regroupements (MeSH), Analyse de séquence d'ADN (MeSH), Chlorure de sodium (métabolisme), Facteurs temps (MeSH), Populus (génétique), Populus (physiologie), Protéines végétales (génétique), Réaction de polymérisation en chaine en temps réel (MeSH), Régulation de l'expression des gènes végétaux (MeSH), Salinité (MeSH), Spécificité d'espèce (MeSH), Stress physiologique (MeSH), Séquençage nucléotidique à haut débit (MeSH), Transcriptome (MeSH).
- MESH :
- génétique : Populus, Protéines végétales.
- métabolisme : Chlorure de sodium.
- physiologie : Populus.
- Adaptation physiologique, Analyse de profil d'expression de gènes, Analyse de regroupements, Analyse de séquence d'ADN, Facteurs temps, Réaction de polymérisation en chaine en temps réel, Régulation de l'expression des gènes végétaux, Salinité, Spécificité d'espèce, Stress physiologique, Séquençage nucléotidique à haut débit, Transcriptome.
English descriptors
- KwdEn :
- Adaptation, Physiological (MeSH), Cluster Analysis (MeSH), Gene Expression Profiling (MeSH), Gene Expression Regulation, Plant (MeSH), High-Throughput Nucleotide Sequencing (MeSH), Plant Proteins (genetics), Populus (genetics), Populus (physiology), Real-Time Polymerase Chain Reaction (MeSH), Salinity (MeSH), Sequence Analysis, DNA (MeSH), Sodium Chloride (metabolism), Species Specificity (MeSH), Stress, Physiological (MeSH), Time Factors (MeSH), Transcriptome (MeSH).
- MESH :
- chemical , genetics : Plant Proteins.
- genetics : Populus.
- chemical , metabolism : Sodium Chloride.
- physiology : Populus.
- Adaptation, Physiological, Cluster Analysis, Gene Expression Profiling, Gene Expression Regulation, Plant, High-Throughput Nucleotide Sequencing, Real-Time Polymerase Chain Reaction, Salinity, Sequence Analysis, DNA, Species Specificity, Stress, Physiological, Time Factors, Transcriptome.
Abstract
KEY MESSAGE
Using RNA sequencing analysis, we identified 9,216 regulatory and salt-related genes with differential expression and temporal expression trends which provide a clear picture of transcriptomic dynamics in response to continuous salinity stress in a desert poplar, Populus pruinosa. Populus pruinosa Schrenk is native to the desert region of western China and extraordinarily well adapted to the local salt stress. Thus, it is an ideal model for studying plants' adaptation to salt stress, but its transcriptomic responses have not been previously characterized. Thus, we analyzed time- courses of these responses via a series of sequencings. In total, we generated 157.4 million 100 bp paired-end clean reads and identified 9,216 differentially expressed genes (DEGs) between salt-stressed calli and controls. Gene ontology classification analysis revealed that salt stress-related categories--including 'oxidation reduction', 'transcription factor activity', 'membrane' and 'ion channel activity'--were highly enriched among these DEGs. In addition, we grouped the 9,216 DEGs by their expression dynamics into four clusters, and the genes in each cluster showed enrichment for particular functional categories. We also found that most DEGs were activated within 24 h of the stress and their expression stabilized after 48 h. All these findings suggest that gene expression rapidly and coordinately changes during this species' adaptation to salt stress. In addition, the identified DEGs provide critical genetic resources for further functional analyses and indications of potential transgenic modifications for developing salt-tolerant poplars.
DOI: 10.1007/s00299-014-1638-z
PubMed: 24913126
Affiliations:
Links toward previous steps (curation, corpus...)
Le document en format XML
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<term>Analyse de profil d'expression de gènes (MeSH)</term>
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<term>Stress physiologique (MeSH)</term>
<term>Séquençage nucléotidique à haut débit (MeSH)</term>
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<front><div type="abstract" xml:lang="en"><p><b>KEY MESSAGE</b>
</p>
<p>Using RNA sequencing analysis, we identified 9,216 regulatory and salt-related genes with differential expression and temporal expression trends which provide a clear picture of transcriptomic dynamics in response to continuous salinity stress in a desert poplar, Populus pruinosa. Populus pruinosa Schrenk is native to the desert region of western China and extraordinarily well adapted to the local salt stress. Thus, it is an ideal model for studying plants' adaptation to salt stress, but its transcriptomic responses have not been previously characterized. Thus, we analyzed time- courses of these responses via a series of sequencings. In total, we generated 157.4 million 100 bp paired-end clean reads and identified 9,216 differentially expressed genes (DEGs) between salt-stressed calli and controls. Gene ontology classification analysis revealed that salt stress-related categories--including 'oxidation reduction', 'transcription factor activity', 'membrane' and 'ion channel activity'--were highly enriched among these DEGs. In addition, we grouped the 9,216 DEGs by their expression dynamics into four clusters, and the genes in each cluster showed enrichment for particular functional categories. We also found that most DEGs were activated within 24 h of the stress and their expression stabilized after 48 h. All these findings suggest that gene expression rapidly and coordinately changes during this species' adaptation to salt stress. In addition, the identified DEGs provide critical genetic resources for further functional analyses and indications of potential transgenic modifications for developing salt-tolerant poplars.</p>
</div>
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<ArticleTitle>Transcriptome dynamics of a desert poplar (Populus pruinosa) in response to continuous salinity stress.</ArticleTitle>
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<Abstract><AbstractText Label="KEY MESSAGE" NlmCategory="CONCLUSIONS">Using RNA sequencing analysis, we identified 9,216 regulatory and salt-related genes with differential expression and temporal expression trends which provide a clear picture of transcriptomic dynamics in response to continuous salinity stress in a desert poplar, Populus pruinosa. Populus pruinosa Schrenk is native to the desert region of western China and extraordinarily well adapted to the local salt stress. Thus, it is an ideal model for studying plants' adaptation to salt stress, but its transcriptomic responses have not been previously characterized. Thus, we analyzed time- courses of these responses via a series of sequencings. In total, we generated 157.4 million 100 bp paired-end clean reads and identified 9,216 differentially expressed genes (DEGs) between salt-stressed calli and controls. Gene ontology classification analysis revealed that salt stress-related categories--including 'oxidation reduction', 'transcription factor activity', 'membrane' and 'ion channel activity'--were highly enriched among these DEGs. In addition, we grouped the 9,216 DEGs by their expression dynamics into four clusters, and the genes in each cluster showed enrichment for particular functional categories. We also found that most DEGs were activated within 24 h of the stress and their expression stabilized after 48 h. All these findings suggest that gene expression rapidly and coordinately changes during this species' adaptation to salt stress. In addition, the identified DEGs provide critical genetic resources for further functional analyses and indications of potential transgenic modifications for developing salt-tolerant poplars.</AbstractText>
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<affiliations><list><country><li>République populaire de Chine</li>
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<name sortKey="Liu, Bingbing" sort="Liu, Bingbing" uniqKey="Liu B" first="Bingbing" last="Liu">Bingbing Liu</name>
<name sortKey="Lu, Jing" sort="Lu, Jing" uniqKey="Lu J" first="Jing" last="Lu">Jing Lu</name>
<name sortKey="Luo, Wenchun" sort="Luo, Wenchun" uniqKey="Luo W" first="Wenchun" last="Luo">Wenchun Luo</name>
<name sortKey="Ma, Tao" sort="Ma, Tao" uniqKey="Ma T" first="Tao" last="Ma">Tao Ma</name>
<name sortKey="Wan, Dongshi" sort="Wan, Dongshi" uniqKey="Wan D" first="Dongshi" last="Wan">Dongshi Wan</name>
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<country name="République populaire de Chine"><noRegion><name sortKey="Zhang, Jian" sort="Zhang, Jian" uniqKey="Zhang J" first="Jian" last="Zhang">Jian Zhang</name>
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