PRJNA667059: The mRNA expression profiles of the hypocotyl and root in WT and hy5 (thale cress)
概要: The mRNA expression profiles of the hypocotyl and root in WT and hy5 were analyzed in 24 hour 22degC and 28degC treated condition. The gene expression changes were analyzed and compared within 22degC and 28degC and in different tissue type (hypocotyl vs root).
项目整体设计: Total twentiefour 24h 22degC and 28degC treated Arabidopsis samples were used. These include three replicates of following genotypes; Col-0 and hy5, with two tissue type; hypocotyl and root. Therefore, three replicates of following genotypes, tissue and conditions; Col-0 (hypocotyl-22degC), Col-0 (root-22degC), hy5 (hypocotyl-22degC), hy5 (root-22degC), Col-0 (hypocotyl-28degC), Col-0 (root-28degC), hy5 (hypocotyl-28degC), hy5 (root-28degC).
| 生长方案: |
Total three genotypes; Col-0, hec1hec2 and pifQ plants were used for mRNA sequencing analysis. |
| 处理方案: |
The seeds were surface sterilized and plated on the MS media without sucrose, cold stratified for three days in dark to induce germination. After three days, seeds were further treated 5 days in 22℃ with white light (25 µmole/s2/m2). After 5 days, seedlings were either treated with 4 hour of continuous white light (25 µmole/s2/m2) in 22 or 28. |
| 提取方案: |
Total RNA was isolated using sigma plant total RNA kit(Sigma, Cat.# STRN250). |
| 建库方案: |
3'Tag-Seq method article was used to generate TagSeq library according to the manufacturer’s instruction. (doi: 10.1111/1755-0998.12529) |
| 分子类型: |
poly(A)+ RNA |
| 库的片段类型: |
SINGLE |
| 库的链类型: |
Reverse |
| 测序平台: |
ILLUMINA |
| 测序仪型号: |
Illumina NovaSeq 6000 |
| 链特异性: |
Specific |
| 数据来源 |
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物种 |
种族 |
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组织 |
细胞类型 |
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细胞系 |
疾病 |
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突变/变异 |
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Condition Detail |
生长方案 |
处理方案 |
提取方案 |
建库方案 |
分子类型 |
库的片段类型 |
链特异性 |
库的链类型 |
加标(Spike-In) |
测序方法 |
测序平台 |
测序仪型号 |
细胞数 |
测序片段数 |
碱基数 |
平均测序片段长度_1 |
平均测序片段长度_2 |
唯一比对率 |
多重比对率 |
覆盖度 |
Spatial regulation of thermomorphogenesis by HY5 and PIF4 in Arabidopsis.
Nature communications . 2021-06-16 [PMID:
34135347]