Vitis riparia bud transcriptome in response to long and short photoperiod.
Ontology highlight
ABSTRACT:
ORGANISM(S): Vitis riparia
PROVIDER: GSE95429 | GEO | 2021/04/28
REPOSITORIES: GEO
Similar Datasets
Project description:This study compares age matched V. riparia axillary buds at one time point during long photoperiod (paradormancy maintenance) and short photoperiod (endodormancy induced). Keywords: endodormancy, photoperiod, paradormancy, grape, axillary bud
2005-08-05 | GSE3052 | GEO
Project description:Bud endodormancy induction response of two genotypes (‘Seyval’ a hybrid white wine grape and V. riparia, PI588259 a native north american species) was compared under long (15h) and short (13h) photoperiod. Three separate replicates (5 plants/replicate) were treated to generate paradormant (LD) and same aged endodormancy-induced (SD) buds for transcriptomic, proteomic and metabolomic analysis. Potted, spur-pruned two to six-year-old vines were removed from cold storage (Seyval 3-19-07; V. riparia 3/26/07) and grown under a LD (15 h) at 25/20 + 3C day/night temperatures (D/N). When vines reached 12-15 nodes (3-25-07) they were randomized into LD or SD treatments with 25/20 + 3C D/N in climate controlled greenhouses with automated photoperiod system (VRE Greenhouse Systems). Three replications (5 vines/replication) were harvested between 5/07-6/07 and then again in 5/08-6/08 for a total of six replications. All treatments are repeated at the same time every year and harvested at the same time of day each year to minimize biological noise. At 1, 3, 7, 14, 21, 28 and 42 days of LD and SD treatment, buds were harvested from nodes 3 to 12 of each separate replicate, immediately frozen in liquid nitrogen, and placed at -80C for future RNA, protein and metabolite extraction. These time points encompass early reversible phases as well as key time points during transition to irreversible endodormancy development. After photoperiod treatments and bud harvests, all pruned vines were returned to LD and monitored for bud endodormancy. The endodormant vines were identified after 28 days and moved to cold storage. The nondormant vines were allowed to grow again and induced into dormancy at a later date. Acknowledgement:This study was funded by NSF Grant DBI0604755 and funds from the South Dakota Agriculture Experiment Station. ****[PLEXdb(http://www.plexdb.org) has submitted this series at GEO on behalf of the original contributor, Anne Fennell. The equivalent experiment is VV10 at PLEXdb.] 84 Samples of two genotypes compared under long and short photoperiod, 3 replicates each. Seyval (SV, Seyve Villard 5-276) : LD, 15h : 1 days (3-replications) Seyval (SV, Seyve Villard 5-276) : LD, 15h : 3 days (3-replications) Seyval (SV, Seyve Villard 5-276) : LD, 15h : 7 days (3-replications) Seyval (SV, Seyve Villard 5-276) : LD, 15h : 14 days (3-replications) Seyval (SV, Seyve Villard 5-276) : LD, 15h : 21 days (3-replications) Seyval (SV, Seyve Villard 5-276) : LD, 15h : 28 days (3-replications) Seyval (SV, Seyve Villard 5-276) : LD, 15h : 42 days (3-replications) Seyval (SV, Seyve Villard 5-276) : SD, 13h : 1 days (3-replications) Seyval (SV, Seyve Villard 5-276) : SD, 13h : 3 days (3-replications) Seyval (SV, Seyve Villard 5-276) : SD, 13h : 7 days (3-replications) Seyval (SV, Seyve Villard 5-276) : SD, 13h : 14 days (3-replications) Seyval (SV, Seyve Villard 5-276) : SD, 13h : 21 days (3-replications) Seyval (SV, Seyve Villard 5-276) : SD, 13h : 28 days (3-replications) Seyval (SV, Seyve Villard 5-276) : SD, 13h : 42 days (3-replications) V. riparia (VR, PI588259) : LD, 15h : 1 days (3-replications) V. riparia (VR, PI588259) : LD, 15h : 3 days (3-replications) V. riparia (VR, PI588259) : LD, 15h : 7 days (3-replications) V. riparia (VR, PI588259) : LD, 15h : 14 days (3-replications) V. riparia (VR, PI588259) : LD, 15h : 21 days (3-replications) V. riparia (VR, PI588259) : LD, 15h : 28 days (3-replications) V. riparia (VR, PI588259) : LD, 15h : 42 days (3-replications) V. riparia (VR, PI588259) : SD, 13h : 1 days (3-replications) V. riparia (VR, PI588259) : SD, 13h : 3 days (3-replications) V. riparia (VR, PI588259) : SD, 13h : 7 days (3-replications) V. riparia (VR, PI588259) : SD, 13h : 14 days (3-replications) V. riparia (VR, PI588259) : SD, 13h : 21 days (3-replications) V. riparia (VR, PI588259) : SD, 13h : 28 days (3-replications) V. riparia (VR, PI588259) : SD, 13h : 42 days (3-replications)
2009-08-05 | E-GEOD-17502 | biostudies-arrayexpress
Project description:Bud endodormancy induction response of two genotypes (‘Seyval’ a hybrid white wine grape and V. riparia, PI588259 a native north american species) was compared under long (15h) and short (13h) photoperiod. Three separate replicates (5 plants/replicate) were treated to generate paradormant (LD) and same aged endodormancy-induced (SD) buds for transcriptomic, proteomic and metabolomic analysis. Potted, spur-pruned two to six-year-old vines were removed from cold storage (Seyval 3-19-07; V. riparia 3/26/07) and grown under a LD (15 h) at 25/20 + 3C day/night temperatures (D/N). When vines reached 12-15 nodes (3-25-07) they were randomized into LD or SD treatments with 25/20 + 3C D/N in climate controlled greenhouses with automated photoperiod system (VRE Greenhouse Systems). Three replications (5 vines/replication) were harvested between 5/07-6/07 and then again in 5/08-6/08 for a total of six replications. All treatments are repeated at the same time every year and harvested at the same time of day each year to minimize biological noise. At 1, 3, 7, 14, 21, 28 and 42 days of LD and SD treatment, buds were harvested from nodes 3 to 12 of each separate replicate, immediately frozen in liquid nitrogen, and placed at -80C for future RNA, protein and metabolite extraction. These time points encompass early reversible phases as well as key time points during transition to irreversible endodormancy development. After photoperiod treatments and bud harvests, all pruned vines were returned to LD and monitored for bud endodormancy. The endodormant vines were identified after 28 days and moved to cold storage. The nondormant vines were allowed to grow again and induced into dormancy at a later date. Acknowledgement:This study was funded by NSF Grant DBI0604755 and funds from the South Dakota Agriculture Experiment Station. ****[PLEXdb(http://www.plexdb.org) has submitted this series at GEO on behalf of the original contributor, Anne Fennell. The equivalent experiment is VV10 at PLEXdb.]
2009-08-06 | GSE17502 | GEO
Project description:Winter season with reduced day length (photoperiod); led to the growth cessation, dormancy induction and cold acclimation in woody perennial plants. To develop an understanding of the photoperiod signal transduction in Vitis riparia; shoot tip transcriptome profiling was performed under differential photoperiod treatments (long (LD, 15h) and short day (SD, 13h)) for 7 or 21 days after shoots reached 10 nodes (LD7, SD7, LD21 or SD21).
2023-04-28 | GSE95707 | GEO
Project description:This study investigated changes in gene expression of controlled environment chilled (4C) grape overwintering buds as they accumulated from 0 to 2000 chilling hours. Keywords: time course, chilling, endodormancy release, axillary bud, grape
2009-06-03 | GSE9903 | GEO
Project description:This study investigated changes in gene expression of controlled environment chilled (4C) grape overwintering buds as they accumulated from 0 to 2000 chilling hours. Keywords: time course, chilling, endodormancy release, axillary bud, grape A loop design with 3 biological replicates (RNA from buds collected at 0, 500, 1000, 1500, and 2000 hr of chilling in 2002, 2004, and 2005).
2010-05-18 | E-GEOD-9903 | biostudies-arrayexpress
Project description:These experiments were designed to follow the seasonal changes in the transcriptome of field-grown leafy spurge crown buds. The goal was to identify specific signaling pathways and marker genes characteristic to the changes that occur when the buds transitioned from paradormancy through endodormancy and into ecodormancy. Keywords: Time course seasonal dormancy
2005-12-29 | GSE3913 | GEO
Project description:Bud endodormancy induction response of two genotypes (‘Seyval’ a hybrid white wine grape and V. riparia, PI588259 a native north american species) was compared under long and short photoperiod. Three separate replicates (5 plants/replicate) were treated in each of 2 separate years (2007 and 2008) to generate paradormant (LD) and same aged endodormancy-induced (SD) buds for transcriptomic, proteomic and metabolomic analysis. Potted, spur-pruned two to six-year-old vines were removed from cold storage (Seyval 3-19-07, 3/18/08; V. riparia 3/26/07, 3/24/08) and grown under a LD (15 h) at 25/20 + 3C day/night temperatures (D/N). When vines reached 12-15 nodes they were randomized into groups for differential photoperiod treatments. On 4/30/07 and 4/28/08 LD and SD (13 h) treatments were imposed with automated photoperiod system (VRE Greenhouse Systems). Temperatures were maintained at 25/20 + 3C D/N. Three replications (5 vines/replication) were harvested between 5/07-6/07 and then again in 5/08-6/08. At 1, 3, 7, 14, 21, 28 and 42 days of differential photoperiod treatment, buds were harvested from nodes 3 to 12 (from the base of the shoot) of each separate replicate, immediately frozen in liquid nitrogen, and placed at -80C for future RNA, protein and metabolite extraction. These time points encompass early reversible phases as well as key time points during transition to irreversible endodormancy development. After photoperiod treatments and bud harvests, all pruned vines were returned to LD and monitored for bud endodormancy. The endodormant vines were identified after 28 days and moved to cold storage. The nondormant vines were allowed to grow again and induced into dormancy at a later date. Acknowledgement:This study was funded by NSF Grant DBI0604755 and funds from the South Dakota Agriculture Experiment Station. ****[PLEXdb(http://www.plexdb.org) has submitted this series at GEO on behalf of the original contributor, Anne Fennell. The equivalent experiment is VV18 at PLEXdb.]
2016-01-13 | GSE66913 | GEO
Project description:This submission contains the RNAseq data from one (just the study on paradormancy release) of several studies used to assemble the leafy spurge tranacriptome. These assembled transcrptome was built from 1) A study of leafy spurge crown buds through a time course for paradormancy release induced by excision of the aerial portion of the shoot (this study). 2) A study of leafy spurge crown buds through a seasonal dormancy time course where buds transitioned from paradoprmancy to endodormancy and then to ecodormancy (Series GSE71321). 3) A study identical to #2 above but where leafy spurge plants were first treated with glyphosate (Series GSE71406). 4) A previously submitted study (Series GSE56509) of leafy spurge shoots following treament with glyphosate was also used to assemble the transcriptome. The paradormancy study (#1) contained 4 time points (0hr, 6h, 1d, 3d) with 3 biological replicates at 0hr and 4 biological replicates at each of the other time points.
2015-08-05 | E-GEOD-71317 | biostudies-arrayexpress
Project description:This submission contains the RNAseq data from one (just the study on paradormancy release) of several studies used to assemble the leafy spurge tranacriptome. These assembled transcrptome was built from 1) A study of leafy spurge crown buds through a time course for paradormancy release induced by excision of the aerial portion of the shoot (this study). 2) A study of leafy spurge crown buds through a seasonal dormancy time course where buds transitioned from paradoprmancy to endodormancy and then to ecodormancy (Series GSE71321). 3) A study identical to #2 above but where leafy spurge plants were first treated with glyphosate (Series GSE71406). 4) A previously submitted study (Series GSE56509) of leafy spurge shoots following treament with glyphosate was also used to assemble the transcriptome.
2015-08-05 | GSE71317 | GEO