Gene Expression Nebulas
基于标准化流程分析的转录图谱综合数据库

Gene Expression Nebulas

多物种转录图谱整合数据库

PRJNA525462: Sorghum axillary bud transcriptome response to leaf removal

来源: NCBI / GSE127822
提交时间: Mar 04 2019
释放时间: Mar 05 2019
最后更新时间: Mar 06 2019

概要: Basal branching in grasses, or tillering, is an important trait determining both form and function of crops. While similarities exist between eudicot and grass branching programs, one notable difference is that the tiller buds of grasses are covered by the subtending leaf, whereas eudicot buds are typically unconstrained. The current study shows that contact with the leaf sheath represses sorghum bud growth by providing a mechanical signal that cues the bud to refrain from rapid growth. Leaf removal resulted in massive reprogramming of the bud transcriptome that included signatures of epigenetic modifications, and also implicated several hormones in the response. Bud abscisic acid (ABA) transiently increased, then decreased following leaf removal relative to controls, and ABA was necessary to repress bud growth in the presence of the leaf. Jasmonic acid (JA) levels and signaling increased in buds following leaf removal. Remarkably, application of JA to buds in situ promoted growth. The repression of bud growth by leaf contact shares characteristics of thigmomorphogenic responses in other systems, including the involvement of JA, though the JA effect is opposite. The repression of bud growth by leaf contact may represent a mechanism to time tillering to an appropriate developmental stage of the plant.

项目整体设计: Analysis of bud transcriptomes at 1, 3 and 6 h with and without removal of the overlying leaf.

GEN 数据集:
GEND000280
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方案
生长方案: Seeds were sown singly in 50 mL conical centrifuge tubes modified with a drain hole and filled with LC1 soilless medium supplemented with 7.5g/L 20-20-20 Osmocote fertilizer. Plants were grown in a growth chamber providing 575 mM m-2s-1 of PAR at a R:FR of 13.30 from t5 fluorescent lamps with a photoperiod of 16/8 light dark and 32/22oC day night temperatures.
处理方案: Treatments began 7 days after sowing. Plants were left intact, or leaf removal was conducted by peeling the entire coleoptile and first leaf from the culm to expose the axillary bud. The dissection was easily accomplished with minimal handling and without touching the bud. Axillary buds from the first leaf axil were harvested at 1, 3 and 6 h after leaf removal. Four replicates of 15 buds were harvested. The three highest quality replicates of each sample (by Bioanalyzer) were used for transcriptome analysis.
提取方案: RNA was extracted using Trizol, the extracted RNA was digested with DNAseI and purified using an RNAeasy kit.
建库方案: Libraries were constructed with the Illumina TruSeq kit and 125 bp reads were obtained from an Illumina HiSeq 2500 sequencer.
测序信息
分子类型: poly(A)+ RNA
库的片段类型: SINGLE
库的链类型: Forward
测序平台: ILLUMINA
测序仪型号: Illumina HiSeq 2500
链特异性: Specific
样本
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数据来源 GEN样本编号 GEN数据集编号 系列编号 项目编号 样本编号 样本名称 生物样本编号 样本访问号 实验访问号 释放时间 提交时间 最后更新时间 物种 种族 族裔 年龄 年龄单位 性别 来源名称 组织 细胞类型 细胞亚型 细胞系 疾病 疾病状态 发育阶段 突变/变异 表型 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
文章
Sorghum tiller bud growth is repressed by contact with the overlying leaf.
Plant, cell & environment . 2019-04-16 [PMID: 30875440]