Root transcriptome comparison between grapevines Cabernet Sauvignon, 140 Ruggeri and K51-40 (+/- salt stress)
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PROVIDER: PRJNA248107 | ENA |
REPOSITORIES: ENA
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Project description:Salt tolerance in grapevine is associated with the exclusion of chloride ions (ClM-bM-^@M-^S) from the shoot. The rate-limiting step for this process has been identified as the passage of ClM-bM-^@M-^S between the root symplast and the xylem apoplast through membrane integral proteins. To identify candidate genes for these proteins we used a custom microarray to compare the root transcriptomes of three grapevine varieties (Vitis spp.) that differ in their capacity to exclude ClM-bM-^@M-^S from shoots. When challenged with 50 mM ClM-bM-^@M-^S there were transcriptional responses that differed across the rootstocks 140 Ruggeri (a good ClM-bM-^@M-^S excluder) and K51-40 (a poor ClM-bM-^@M-^S excluder), and Cabernet Sauvignon (an intermediate ClM-bM-^@M-^S excluder and Vitis vinifera control). The magnitude of these salt-induced changes correlated with the amount of ClM-bM-^@M-^S accumulated in shoots. Abiotic-stress responsive transcripts (e.g. heat shock proteins) were induced in 140 Ruggeri. Respiratory transcripts were repressed in Cabernet Sauvignon. Expression of hypersensitive response and ROS scavenging transcripts were altered in the sensitive K51-40. Despite these differences, no obvious candidate ClM-bM-^@M-^S transporters were identified from the salt treatment. In contrast, under control conditions where differences in shoot ClM-bM-^@M-^S exclusion between rootstocks were still significant, we identified a number of genes encoding putative ion channels including VvSLAH3, VvALMT1, and possible regulators of these proteins such as VvSnRK2.6 and calcium dependent protein kinases (CDPK) as being differentially expressed between rootstocks. Members of the low affinity nitrate transporter (NRT1), and chloride channel (CLC) families were also identified. We propose these as useful candidates for further study within breeding programs aimed at improving plant salt tolerance in grapevine and other crops. Comparative: genotype versus genotype (control); and control (0 mM Cl) versus salt (50 mM Cl). Rooted leaves were grown as described by Gong et. al. (2010) (Journal of Experimental Botany). After 2 weeks of hydroponic growth, plants were exposed to 0 mM or 50 mM chloride stress for 4 days. Three biological replicates were used for 140 Ruggeri. Four biological replicates were used for Cabernet Sauvignon. Four biological replicates were used for K51-40. Each biological replicate consisted of total roots from four individual plants pooled together.
2014-09-30 | E-GEOD-57770 | biostudies-arrayexpress
Project description:Salt tolerance in grapevine is associated with the exclusion of chloride ions (Cl–) from the shoot. The rate-limiting step for this process has been identified as the passage of Cl– between the root symplast and the xylem apoplast through membrane integral proteins. To identify candidate genes for these proteins we used a custom microarray to compare the root transcriptomes of three grapevine varieties (Vitis spp.) that differ in their capacity to exclude Cl– from shoots. When challenged with 50 mM Cl– there were transcriptional responses that differed across the rootstocks 140 Ruggeri (a good Cl– excluder) and K51-40 (a poor Cl– excluder), and Cabernet Sauvignon (an intermediate Cl– excluder and Vitis vinifera control). The magnitude of these salt-induced changes correlated with the amount of Cl– accumulated in shoots. Abiotic-stress responsive transcripts (e.g. heat shock proteins) were induced in 140 Ruggeri. Respiratory transcripts were repressed in Cabernet Sauvignon. Expression of hypersensitive response and ROS scavenging transcripts were altered in the sensitive K51-40. Despite these differences, no obvious candidate Cl– transporters were identified from the salt treatment. In contrast, under control conditions where differences in shoot Cl– exclusion between rootstocks were still significant, we identified a number of genes encoding putative ion channels including VvSLAH3, VvALMT1, and possible regulators of these proteins such as VvSnRK2.6 and calcium dependent protein kinases (CDPK) as being differentially expressed between rootstocks. Members of the low affinity nitrate transporter (NRT1), and chloride channel (CLC) families were also identified. We propose these as useful candidates for further study within breeding programs aimed at improving plant salt tolerance in grapevine and other crops.
2014-09-30 | GSE57770 | GEO
Project description:The experiment was conducted using four 11-year-old potted grapevines of V. vinifera L. cv. Cabernet Sauvignon grafted on SO4 (Selection Oppenheim No. 4) grown in a phytotron. Vines were trained on a Guyot trellising system and each vine carried 4-10 clusters of grapes. The experiment started approximately 1 week before veraison, when berry softening started, and continued to fruit maturity. The two temperature regimes consisted of a high day (06.00–20.00 h) temperature (max.35C) and a control (max. 25C). Under both conditions, the night-time (20.00–06.00 h) temperature was 20C. PLEXdb(http://www.plexdb.org) has submitted this series at GEO on behalf of the original contributor, Kentaro Mori. The equivalent experiment is VV9 at PLEXdb
2011-08-26 | GSE31675 | GEO
Project description:Grapes are a valuable fruit and an important economic crop in the world, where wine production is a major industry. Drought, salinity and extreme temperatures are abiotic stresses that can trigger significant complex responses in grapevines. This project investigates plant protein reactions in response to abiotic stresses, with particular reference to proteomic changes induced by the impact of hot and cold temperature stress on cultured Cabernet sauvignon cells. The aim of this quantitative label-free shotgun proteomics experiment is to provide insights into the targeted proteins, metabolic pathways and regulatory networks that are related to temperature stress in grapevine and futuristically assist in marker assisted selection.
2015-05-27 | PXD000977 | Pride
Project description:The experiment was conducted using four 11-year-old potted grapevines of V. vinifera L. cv. Cabernet Sauvignon grafted on SO4 (Selection Oppenheim No. 4) grown in a phytotron. Vines were trained on a Guyot trellising system and each vine carried 4-10 clusters of grapes. The experiment started approximately 1 week before veraison, when berry softening started, and continued to fruit maturity. The two temperature regimes consisted of a high day (06.00–20.00 h) temperature (max.35C) and a control (max. 25C). Under both conditions, the night-time (20.00–06.00 h) temperature was 20C. PLEXdb(http://www.plexdb.org) has submitted this series at GEO on behalf of the original contributor, Kentaro Mori. The equivalent experiment is VV9 at PLEXdb developmental stage: 2 weeks - temperature: High (2-replications); developmental stage: 2 weeks - temperature: Control(2-replications); developmental stage: 4 weeks - temperature: High (2-replications); developmental stage: 4 weeks - temperature: Control(2-replications); developmental stage: 6 weeks - temperature: High (2-replications); developmental stage: 6 weeks - temperature: Control(2-replications)
2011-08-25 | E-GEOD-31675 | biostudies-arrayexpress
Project description:Cabernet Sauvignon plants grown in a hydroponic drip system were treat with 120 mM salt (10:1 NaCl:CaCl), Polyethylene Glycol, cold (5 C) or unstressed. Shoots with leaves were collected at 0, 1, 4, and 8 hours for all treatments, and at 24 hours for all except cold. ****[PLEXdb (http://www.plexdb.org) has submitted this series at GEO on behalf of the original contributor, Elizabeth Tattersall. The equivalent experiment is VV1 at PLEXdb.]
2011-08-23 | GSE31594 | GEO
Project description:Vitis vinifera cultivar:Cabernet Sauvignon Raw sequence reads
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Project description:we analyzed pathogen-induced changes in the transcriptome of Vitis vinifera ‘Cabernet sauvignon’ and Vitis aestivalis ‘Norton’ by conducting a large-scale study to measure transcript abundance at 0, 4, 8, 12, 24, and 48 hours post-treatment in conidiospore- and mock-inoculated leaves using Affymetrix GeneChip Vitis vinifera Genome Array Keywords: time course
2007-11-29 | GSE6404 | GEO
Project description:Cabernet Sauvignon Iso-Seq transcriptome reconstruction and genome annotation
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