Chinese cabbage (Brassica rapa ssp. pekinensis) inbred lines, Chiifu.The plants grown in the growth chamber at 22℃ for about 3 weeks were exposed to 12 ° C for 2 days and then treated at 28℃ for 3 hours
genotype: Chinese cabbage (Brassica rapa ssp. pekinensis) inbred lines, Chiifu phenotype: normal
Growth protocol
Two Chinese cabbage (Brassica rapa ssp. pekinensis) inbred lines, Chiifu and Kenshin, plants seeds were sown in the thirty two-hole tray (6x6x6cm x 32 holes) and grown for approximately 3 weeks in a growth chamber at 22℃ under 16 h light/8 h dark photoperiod with a photon flux density of 140 μmol m-2 s-1. For warming treatment, plants were subjected to 12℃ for 2 days under same photoperiod, and transferred to 28℃ for 3 h. For extreme heat shock treatment, warming-exposed plants were further incubated at 45℃ growth chamber for 3h. Samplings were performed at the end of each treatment
Extracted molecule
total RNA
Extraction protocol
Total and polysomal RNA was extracted using the RNeasy Mini kit (Qiagen Inc., Valencia, CA, USA) and the RNAprotect reagent (Qiagen) and DNA was removed by on-column DNase digestion with the RNase-Free DNase set (Qiagen).
Label
Cy3
Label protocol
Labeling was performed by NimbleGen Systems Inc., Madison, WI USA, following their standard operating protocol. See www.nimblegen.com.
Hybridization protocol
Hybridization was performed by NimbleGen Systems Inc., Madison, WI, USA following their standard operating protocol. See www.nimblegen.com.
Scan protocol
Scanning was performed by NimbleGen Systems Inc., Madison, WI USA, following their standard operating protocol. See www.nimblegen.com.
Description
Chinese cabbage (Brassica rapa ssp. pekinensis) inbred lines, Chiifu Chinese cabbage (Brassica rapa ssp. pekinensis) inbred lines, Chiifu.The plants grown in the growth chamber at 22℃ for about 3 weeks were exposed to 12 ° C for 2 days and then treated at 28℃ for 3 hours
Data processing
The raw data (.pair file) was subjected to RMA (Robust Multi-Array Analysis; Irizarry et al. Biostatistics 4(2):249), quantile normalization (Bolstad et al. Bioinformatics 19(2):185), and background correction as implemented in the NimbleScan software package, version 2.4.27 (Roche NimbleGen, Inc.).
Expression analysis of low-temperature and warming treated Chiifu and Kenshin inbred lines to identify high-temperature adaptation-related gene in Brassica rapa.
Data table header descriptions
ID_REF
VALUE
RMA-normalized, averaged gene-level signal intensity
