Project description:Cows exposed to short day photoperiod (SD, 8L:16D) during the 60-day non-lactating period prior to parturition produce more milk in their subsequent lactation compared to cows exposed to long day photoperiod (LD,16L:8D). Although this response is well-established in dairy cows, the underlying mechanisms are not understood. We hypothesized that differential gene expression in cows exposed to SD or LD photoperiods during the dry period could be used to identify the functional basis for the subsequent increase in milk production during lactation. Pregnant, multiparous cows were maintained on a SD or LD photoperiod for 60-days prior to parturition. Mammary biopsies were obtained on days -24 and -9 relative to parturition and Affymetrix GeneChip® Bovine Genome Arrays were used to quantify gene expression. Sixty-four genes were differentially expressed (p ≤ 0.05 and fold-change ≥ |1.5|) between SD and LD treatments. Many of these genes were associated with cell growth and proliferation, or immune function. Ingenuity Pathway Analysis predicted upstream regulators to include TNF, TGFβ1, interferon γ and several interleukins. In addition, expression of 125 genes was significantly different between day -24 and day -9; those genes were associated with milk component metabolism and immune function. The interaction of photoperiod and time affected 32 genes associated with insulin-like growth factor (IGF-I) signaling. Genes differentially expressed in response to photoperiod were associated with mammary development and immune function consistent with the enhancement of milk yield in the ensuing lactation. Our results provide insight into the mechanisms by which photoperiod affects the mammary gland and subsequently lactation. Data were analyzed for the effect of photoperiod treatment (LD minus SD), time relative to parturition (day -24 minus day -9) and the interaction of photoperiod treatment and time ((LD minus SD day -9) minus (LD minus SD day -24))

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)

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.]

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.]

			Action	DRS
	13-1609_Dufourny_LD_3_ORBI865.mzML	Mzml
	13-1609_Dufourny_LD_4_ORBI867.mzML	Mzml
	13-1609_Dufourny_LD_5_ORBI869.mzML	Mzml
	13-1609_Dufourny_SD_4_ORBI866.mzML	Mzml
	13-1609_Dufourny_SD_5_ORBI868.mzML	Mzml

Dataset Information

Comparative proteomics of the ewe cerebrospinal fluid under long or short photoperiod

Dataset's files

Publications

Photoperiod affects the cerebrospinal fluid proteome: a comparison between short day- and long day-treated ewes.

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