NASCArrays Information at The BAR

Welcome to NASCArrays information at the BAR. This page hosts meta-information from the NASCArrays service (2002-2013). This information was parsed from text files available on the NASCArrays site. NASCArrays data is on iPlant server. To download experiment data from iPlant, please click on the experiment number. To download the CEL files, please click on the ftp link.

Title:Finlayson:Transcriptomics of Axillary Bud Outgrowth Regulation by Shade Signals in Arabidopsis.
Description:Aims: To determine the changes in the Arabidopsis axillary bud transcriptome in response to changes in the red light (R) to far red light (FR) ratio (R:FR).Background: The branching habit of plants is a key determinant of overall plant form and function with great relevance to modern agriculture. Shade signals transduced by phytochromes are major regulators of axillary bud outgrowth, and in turn control branching in both natural and agricultural environments. To continue our investigations into the regulation of branching by R:FR, we have developed a system using supplemental FR LEDs to tightly control the outgrowth of Arabidopsis axillary buds. Depending on the position of the bud in the rosette, outgrowth is either repressed (uppermost bud) or rapidly promoted (bud in the axil of the third leaf down) by the transition from low to high R:FR.Treatment: Two separate experiments were conducted to evaluate the effects of R:FR on transcriptome changes in the uppermost rosette bud (bud n) and the axillary bud in the axil of the third leaf from the top (bud n-2). WT Col-60000 was used as the experimental material. Plants were grown individually in 25 by 50 mm tubes and watered and fertilized optimally. Plants were grown in a split growth chamber (providing uniform temperature and PPFD but allowing for differential R:FR) with 18 h photoperiods (185 ­Moles m-2 s-1 PPFD provided by T12 VHO CW fluorescent lamps) and 24oC/18oC day/night temperatures. One day after sowing the R:FR was reduced on both sides of the chamber from 3.5 to 0.08 using FR LEDs fixed in clear overhead arrays. Prior to anthesis the plants were matched and split into two treatment groups. In experiment 1 the FR source for one of the groups was switched off at 12:00 pm on the day of anthesis, causing the R:FR to increase to 3.5. Unelongated axillary buds in the axil of the uppermost leaves (approx. 2.5 mm long) were harvested for RNA preparation from both groups (low and transiently increased R:FR) 3 h after changing the R:FR. Each treatment was composed of three biological replicates, each containing buds from about 15-18 plants. Experiment 2 was conducted exactly the same as experiment 1, except the R:FR was altered 3 days after anthesis and the unelongated axillary buds in the axils of the third leaves down (approx. 1 mm long) were harvested for RNA preparation.
ftp Link:ftp Link

Slide Information:
Slide IDSlide NameGenetic BackgroundTissueStock CodeCel File
Finlayson_561-10_high-R:FR-bud-n-2_Rep1_ATH17779997Col-0Rosette axillary bud n-2 CS60000Finlayson_561-10_high-R-FR-bud-n-2_Rep1_ATH1.CEL
Finlayson_561-11_high-R:FR-bud-n-2_Rep2_ATH17779998Col-0Rosette axillary bud n-2 CS60000Finlayson_561-11_high-R-FR-bud-n-2_Rep2_ATH1_rpt(1).CEL
Finlayson_561-12_high-R:FR-bud-n-2_Rep3_ATH17779999Col-0Rosette axillary bud n-2 CS60000Finlayson_561-12_high-R-FR-bud-n-2_Rep3_ATH1.CEL
Finlayson_561-1_low-R:FR-bud-n_Rep1_ATH17779988Col-0Rosette axillary bud n CS60000Finlayson_561-1_low-R-FR-bud-n_Rep1_ATH1.CEL
Finlayson_561-2_low-R:FR-bud-n_Rep2_ATH17779989Col-0Rosette axillary bud n CS60000Finlayson_561-2_low-R-FR-bud-n_Rep2_ATH1.CEL
Finlayson_561-3_low-R:FR-bud-n_Rep3_ATH17779990Col-0Rosette axillary bud n CS60000Finlayson_561-3_low-R-FR-bud-n_Rep3_ATH1.CEL
Finlayson_561-4_high-R:FR-bud-n_Rep1_ATH17779991Col-0Rosette axillary bud n CS60000Finlayson_561-4_high-R-FR-bud-n_Rep1_ATH1.CEL
Finlayson_561-5_high-R:FR-bud-n_Rep2_ATH17779992Col-0Rosette axillary bud n CS60000Finlayson_561-5_high-R-FR-bud-n_Rep2_ATH1.CEL
Finlayson_561-6_high-R:FR-bud-n_Rep3_ATH17779993Col-0Rosette axillary bud n CS60000Finlayson_561-6_high-R-FR-bud-n_Rep3_ATH1.CEL
Finlayson_561-7_low-R:FR-bud-n-2_Rep1_ATH17779994Col-0Rosette axillary bud n-2 CS60000Finlayson_561-7_low-R-FR-bud-n-2_Rep1_ATH1.CEL
Finlayson_561-8_low-R:FR-bud-n-2_Rep2_ATH17779995Col-0Rosette axillary bud n-2 CS60000Finlayson_561-8_low-R-FR-bud-n-2_Rep2_ATH1.CEL
Finlayson_561-9_low-R:FR-bud-n-2_Rep3_ATH17779996Col-0Rosette axillary bud n-2 CS60000Finlayson_561-9_low-R-FR-bud-n-2_Rep3_ATH1.CEL