Monitoring gene expression of potato under salinity using cDNA microarrays

Legay, Sylvain; Lamoureux, Didier; Hausman, Jean-François; Hoffmann, Lucien; Evers, Danièle

doi:10.1007/s00299-009-0780-5

Cited by 27 publications

(27 citation statements)

References 79 publications

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“…The preparation of the samples, the use and statistical processing of the cDNA microarray slides from TIGR was done as described in Legay et al (2009).…”

Section: Microarray Experimentsmentioning

confidence: 99%

“…Gene expression profiling using microarrays of potato under several abiotic stresses, including cold and salt stress, was studied by Rensink and Buell (2005) on in vitro cultivated potato plants, Oufir et al (2008) and Legay et al (2009) on potato plants grown in pots. Differentially regulated genes encode proteins that are implicated in stress tolerance and response, such as enzymes involved in the detoxication of excessive reactive oxygen species generated during stress condition, chaperones, carbohydrate and amino acid metabolism and in photosynthesis.…”

Section: Introductionmentioning

confidence: 99%

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Towards a synthetic view of potato cold and salt stress response by transcriptomic and proteomic analyses

Evers¹,

Legay²,

Lamoureux³

et al. 2012

Plant Mol Biol

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Potato can suffer from several abiotic stresses such as cold temperature, high soil salinity, lack of water or heavy metal exposure, to name a few. They are known to affect plant growth as well as productivity, with differential regulations at several levels. Potato response to cold and salt exposure was investigated at both transcriptomic and proteomic levels in a growth chamber experiment. Cold exposure in potato resulted in a higher number of significantly differentially regulated genes compared to salt exposure, whereas there were nearly three times more differentially regulated proteins after salt exposure when compared to cold exposure. The allocation of up and down-regulated genes at the functional category level also differed between salt and cold exposure although common trends, previously described in various abiotic stresses, were observed. In both stresses, the majority of photosynthesis-related genes were down-regulated whereas cell rescue and transcription factor-related genes were mostly up-regulated. In the other functional categories no common trend was observed; salt exposure results displayed a strong down-regulation of genes implicated in primary metabolism, detoxication apparatus and signal transduction, whereas upon cold exposure, up and down-regulated genes were similar in number. At the proteomic level, the abundance of the majority of identified proteins was increased except for the photosynthesis-related proteins, which were mostly less abundant after both salt and cold exposure. Common responses between salt and cold stress and specific responses inherent to these abiotic stresses are described.

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“…The preparation of the samples, the use and statistical processing of the cDNA microarray slides from TIGR was done as described in Legay et al (2009).…”

Section: Microarray Experimentsmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Towards a synthetic view of potato cold and salt stress response by transcriptomic and proteomic analyses

Evers¹,

Legay²,

Lamoureux³

et al. 2012

Plant Mol Biol

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show abstract

“…The co-up-regulated DEGs at 2 days in the two variety under salt stress Among the 220 DEGs at 2 days that were co-up-regulated in the two varieties, a few important ones are listed in Table 2, such as ERF (ethylene response factor) (Zhai et al 2013;Li et al 2013;Dong et al 2012), UDP-glucosyltransferase activity (Lin et al 2008), alpha/beta-hydrolase superfamily protein (Lenfant et al 2013), ABC transporter B family member, calcium-dependent lipid-binding family protein isoform 2, cysteine protease, heat shock protein 70, proline-rich cell wall protein-like precursor (Stein et al 2011), and galactinol synthase 2-like ) (Table 4). Four genes, namely the gibberellin receptor 1b, SAUR-like auxin-responsive protein family, histidine kinase 4-like, and GATA domain class transcription factor, are involved in plant hormone signal transduction (Legay et al 2009). …”

Section: Co-expressed Transporter-encoding Genes and Transcription Famentioning

confidence: 99%

Transcriptome differences between fiber-type and seed-type Cannabis sativa variety exposed to salinity

Qiao

Cheng

et al. 2016

Physiol Mol Biol Plants

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The industrial hemp varieties 'Yunma 5' and 'Bamahuoma,' which demonstrate growth vigor and environmental adaptability, have been primarily cultivated in Yunnan and Guangxi, China, respectively, for fiber and seeds. The results of physiological measurements showed the phenotypic differences between the two varieties in response to salt stress. RNA-Seq analysis was first performed on leaves of both varieties sampled at four time intervals (0, 2, 4, 6 days) after treatment with salt (500 mM NaCl) We identified 220 co-up-regulated differentially expressed genes (DEGs) in the two varieties, while 26 upregulated DEGs and 24 down-regulated DEGs were identified exclusively in the single varieties after 2 days of salt stress. Among the 220 DEGs, we identified 22 transcription factors, including key transcription factors involved in salt stress, such as MYB, NAC, GATA, and HSF. We applied gene expression profile analysis and found that 'Yunma 5' and 'Bamahuoma' have variety-specific pathways for resisting salt stress. The DEGs of 'Yunma 5' were enriched in spliceosome and amino acid metabolism genes, while the DEGs of 'Bamahuoma' were enriched in fatty acid metabolism, amino acid metabolism, and endoplasmic reticulum protein processing pathway. Although there were common DEGs, such as genes encoding cysteine protease and alpha/beta-hydrolase superfamily, the two varieties' responses to salt stress impacted different metabolic pathways. The DEGs that were co-expressed in both varieties under stress may provide useful insights into the tolerance of cultivated hemp and other bast fiber crops to saline soil conditions. These transcriptomes also represent reference sequences for industrial hemp.

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“…For instance, in Arabidopsis, full-length cDNA libraries from plants under different conditions, such as drought-treated and coldtreated plants, have been developed [23,24] and a set of 1300 full-length cDNAs were monitored for the expression patterns under drought and cold stresses [25]. This platform has been widely used in crop research for elucidation of differentially expressed genes in crop plants as a result of biotic and abiotic stress interactions [7,21,26].…”

Section: Closed Omics Technologiesmentioning

confidence: 99%