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

PRJNA602984: Transcriptional regulation of cell division and cytokinin response in Arabidopsis shoot apical meristem

来源: NCBI / GSE144048
提交时间: Jan 22 2020
释放时间: Mar 26 2021
最后更新时间: Mar 26 2021

概要: In plants, the phytohormone cytokinin plays a major role in promoting cell division. However, the molecular mechanisms underlying cytokinin stimulated cell proliferation remain poorly understood. Here we show that, in the meristems of Arabidopsis thaliana, two transcriptional factors, MYB3R1 and MYB3R4, are master regulators of mitotic cell cycle gene expression and cytokinin response. Overall design: RNA-seq was carried out using dissected inflorescence meristems.

项目整体设计: RNA-seq was carried out using dissected inflorescence meristems.

GEN 数据集:
GEND000322
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方案
生长方案: Arabidopsis plants were grown in a growth chamber under the following conditions: long-day photoperiod (16-h light/8-h dark), light intensity 170 μmoles m-2 s-1, day/night temperature 21°C/17 °C. Shortly after bolting (with stem length ~1 cm), the shoot apices were cut and the SAMs were dissected by removing fully open flowers.; Arabidopsis plants were grown in a growth chamber under the following conditions: long-day photoperiod (16-h light/8-h dark), light intensity 170 μmoles m-2 s-1, day/night temperature 21°C/17 °C. Shortly after bolting (with stem length ~2 cm), the shoot apices were cut and the SAMs were dissected by removing fully open flowers.; Arabidopsis plants were grown in a growth chamber under the following conditions: long-day photoperiod (16-h light/8-h dark), light intensity 170 μmoles m-2 s-1, day/night temperature 21°C/17 °C. Shortly after bolting (with stem length ~3 cm), the shoot apices were cut and the SAMs were dissected by removing fully open flowers.; Arabidopsis plants were grown in a growth chamber under the following conditions: long-day photoperiod (16-h light/8-h dark), light intensity 170 μmoles m-2 s-1, day/night temperature 21°C/17 °C. Shortly after bolting (with stem length ~4 cm), the shoot apices were cut and the SAMs were dissected by removing fully open flowers.; Arabidopsis plants were grown in a growth chamber under the following conditions: long-day photoperiod (16-h light/8-h dark), light intensity 170 μmoles m-2 s-1, day/night temperature 21°C/17 °C. Shortly after bolting (with stem length ~5 cm), the shoot apices were cut and the SAMs were dissected by removing fully open flowers.; Arabidopsis plants were grown in a growth chamber under the following conditions: long-day photoperiod (16-h light/8-h dark), light intensity 170 μmoles m-2 s-1, day/night temperature 21°C/17 °C. Shortly after bolting (with stem length ~6 cm), the shoot apices were cut and the SAMs were dissected by removing fully open flowers.; Arabidopsis plants were grown in a growth chamber under the following conditions: long-day photoperiod (16-h light/8-h dark), light intensity 170 μmoles m-2 s-1, day/night temperature 21°C/17 °C. Shortly after bolting (with stem length ~7 cm), the shoot apices were cut and the SAMs were dissected by removing fully open flowers.; Arabidopsis plants were grown in a growth chamber under the following conditions: long-day photoperiod (16-h light/8-h dark), light intensity 170 μmoles m-2 s-1, day/night temperature 21°C/17 °C. Shortly after bolting (with stem length ~8 cm), the shoot apices were cut and the SAMs were dissected by removing fully open flowers.; Arabidopsis plants were grown in a growth chamber under the following conditions: long-day photoperiod (16-h light/8-h dark), light intensity 170 μmoles m-2 s-1, day/night temperature 21°C/17 °C. Shortly after bolting (with stem length ~9 cm), the shoot apices were cut and the SAMs were dissected by removing fully open flowers.; Arabidopsis plants were grown in a growth chamber under the following conditions: long-day photoperiod (16-h light/8-h dark), light intensity 170 μmoles m-2 s-1, day/night temperature 21°C/17 °C. Shortly after bolting (with stem length ~10 cm), the shoot apices were cut and the SAMs were dissected by removing fully open flowers.; Arabidopsis plants were grown in a growth chamber under the following conditions: long-day photoperiod (16-h light/8-h dark), light intensity 170 μmoles m-2 s-1, day/night temperature 21°C/17 °C. Shortly after bolting (with stem length ~11 cm), the shoot apices were cut and the SAMs were dissected by removing fully open flowers.; Arabidopsis plants were grown in a growth chamber under the following conditions: long-day photoperiod (16-h light/8-h dark), light intensity 170 μmoles m-2 s-1, day/night temperature 21°C/17 °C. Shortly after bolting (with stem length ~12 cm), the shoot apices were cut and the SAMs were dissected by removing fully open flowers.; Arabidopsis plants were grown in a growth chamber under the following conditions: long-day photoperiod (16-h light/8-h dark), light intensity 170 μmoles m-2 s-1, day/night temperature 21°C/17 °C. Shortly after bolting (with stem length ~13 cm), the shoot apices were cut and the SAMs were dissected by removing fully open flowers.; Arabidopsis plants were grown in a growth chamber under the following conditions: long-day photoperiod (16-h light/8-h dark), light intensity 170 μmoles m-2 s-1, day/night temperature 21°C/17 °C. Shortly after bolting (with stem length ~14 cm), the shoot apices were cut and the SAMs were dissected by removing fully open flowers.; Arabidopsis plants were grown in a growth chamber under the following conditions: long-day photoperiod (16-h light/8-h dark), light intensity 170 μmoles m-2 s-1, day/night temperature 21°C/17 °C. Shortly after bolting (with stem length ~15 cm), the shoot apices were cut and the SAMs were dissected by removing fully open flowers.
处理方案: -
提取方案: Total RNA was isolated from 36 dissected inflorescence meristems using RNeasy Mini Kit (QIAGEN Cat No./ID: 74104), following the manufacturer’s instructions. RNA quality and integrity was assessed on the Agilent 2200 TapeStation.; Total RNA was isolated from 36 dissected inflorescence meristems using RNeasy Mini Kit (QIAGEN Cat No./ID: 74104), following the manufacturer’s instructions. RNA quality and integrity was assessed on the Agilent 2201 TapeStation.; Total RNA was isolated from 36 dissected inflorescence meristems using RNeasy Mini Kit (QIAGEN Cat No./ID: 74104), following the manufacturer’s instructions. RNA quality and integrity was assessed on the Agilent 2202 TapeStation.; Total RNA was isolated from 36 dissected inflorescence meristems using RNeasy Mini Kit (QIAGEN Cat No./ID: 74104), following the manufacturer’s instructions. RNA quality and integrity was assessed on the Agilent 2203 TapeStation.; Total RNA was isolated from 36 dissected inflorescence meristems using RNeasy Mini Kit (QIAGEN Cat No./ID: 74104), following the manufacturer’s instructions. RNA quality and integrity was assessed on the Agilent 2204 TapeStation.; Total RNA was isolated from 36 dissected inflorescence meristems using RNeasy Mini Kit (QIAGEN Cat No./ID: 74104), following the manufacturer’s instructions. RNA quality and integrity was assessed on the Agilent 2205 TapeStation.; Total RNA was isolated from 36 dissected inflorescence meristems using RNeasy Mini Kit (QIAGEN Cat No./ID: 74104), following the manufacturer’s instructions. RNA quality and integrity was assessed on the Agilent 2206 TapeStation.; Total RNA was isolated from 36 dissected inflorescence meristems using RNeasy Mini Kit (QIAGEN Cat No./ID: 74104), following the manufacturer’s instructions. RNA quality and integrity was assessed on the Agilent 2207 TapeStation.; Total RNA was isolated from 36 dissected inflorescence meristems using RNeasy Mini Kit (QIAGEN Cat No./ID: 74104), following the manufacturer’s instructions. RNA quality and integrity was assessed on the Agilent 2208 TapeStation.; Total RNA was isolated from 36 dissected inflorescence meristems using RNeasy Mini Kit (QIAGEN Cat No./ID: 74104), following the manufacturer’s instructions. RNA quality and integrity was assessed on the Agilent 2209 TapeStation.; Total RNA was isolated from 36 dissected inflorescence meristems using RNeasy Mini Kit (QIAGEN Cat No./ID: 74104), following the manufacturer’s instructions. RNA quality and integrity was assessed on the Agilent 2210 TapeStation.; Total RNA was isolated from 36 dissected inflorescence meristems using RNeasy Mini Kit (QIAGEN Cat No./ID: 74104), following the manufacturer’s instructions. RNA quality and integrity was assessed on the Agilent 2211 TapeStation.; Total RNA was isolated from 36 dissected inflorescence meristems using RNeasy Mini Kit (QIAGEN Cat No./ID: 74104), following the manufacturer’s instructions. RNA quality and integrity was assessed on the Agilent 2212 TapeStation.; Total RNA was isolated from 36 dissected inflorescence meristems using RNeasy Mini Kit (QIAGEN Cat No./ID: 74104), following the manufacturer’s instructions. RNA quality and integrity was assessed on the Agilent 2213 TapeStation.; Total RNA was isolated from 36 dissected inflorescence meristems using RNeasy Mini Kit (QIAGEN Cat No./ID: 74104), following the manufacturer’s instructions. RNA quality and integrity was assessed on the Agilent 2214 TapeStation.
建库方案: After the QC procedures, mRNA from eukaryotic organisms is enriched using oligo(dT) beads. For prokaryotic organisms or eukaryotic organisms' long-non-coding libraries, rRNA is removed using the Ribo-Zero kit that leaves the mRNA. First, the mRNA is fragmented randomly by adding fragmentation buffer, then the cDNA is synthesized by using mRNA template and random hexamers primer, after which a custom second-strand synthesis buffer (Illumina) , dNTPs, RNase H and DNA polymerase I are added to initiate the second-strand synthesis. Second, after a series of terminal repair, A ligation and sequencing adaptor ligation, the double-stranded cDNA library is completed through size selection and PCR enrichment.The qualified libraries are fed into Illumina sequencers after pooling according to its effective concentration and expected data volume.
测序信息
分子类型: poly(A)+ RNA
库的片段类型: PAIRED
库的链类型: -
测序平台: ILLUMINA
测序仪型号: Illumina HiSeq 1000; Illumina HiSeq 1001; Illumina HiSeq 1002; Illumina HiSeq 1003; Illumina HiSeq 1004; Illumina HiSeq 1005; Illumina HiSeq 1006; Illumina HiSeq 1007; Illumina HiSeq 1008; Illumina HiSeq 1009; Illumina HiSeq 1010; Illumina HiSeq 1011; Illumina HiSeq 1012; Illumina HiSeq 1013; Illumina HiSeq 1014
链特异性: Unspecific
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
Molecular mechanism of cytokinin-activated cell division in Arabidopsis.
Science (New York, N.Y.) . 2021-02-25 [PMID: 33632892]