一个全长的ArabidopsiscDNA集合的功能注释
Motoaki Seki1, Mari Narusaka, Asako Kamiya
1Plant Mutation Exploration Team, Plant Functional Genomics Research Group, RIKEN Genomic Sciences Center (GSC), 3-1-1 Koyadai, Tsukuba 305-0074, Japan.
概括
研究人员从Arabidopsis.com中分离出155144个全长互补DNA (cDNA) 克隆. 该资源有助于基因注释和功能分析,覆盖约60%的预测基因.
科学领域:
- 植物基因组学 植物基因组学
- 分子生物学分子生物学
- 生物信息学是一种生物信息学.
背景情况:
- 全长补充DNA (cDNA) 对于精确的基因组注释和基因功能研究至关重要.
- 植物研究需要一个全面的全长cDNAs集合.
研究的目的:
- 为了隔离和表征一大组来自Arabidopsis的全长cDNA克隆.
- 为基因注释,促进体分析和植物功能研究创造一个有价值的资源.
主要方法:
- 隔离了155144个瑞肯阿拉比多普西斯全长 (RAFL) cDNA克隆.
- 聚类3'-end表达序列标签 (ESTs) 来识别非冗余cDNA组.
- 创建5' EST,并建立一个促进者数据库.
主要成果:
- 确定了14668个非冗余cDNA组,约占预测的Arabidopsis基因的60%.
- 使用来自 14,034 个非冗余 cDNA 组的 5' EST 构建了一个促进者数据库.
- 在RAFL的cDNA序列数据库提供了促进体分析和基因注释的资源.
结论:
- RAFL的cDNA收集是改善Arabidopsis基因组序列注释的重要资源.
- 这些全长的cDNA可方便植物蛋白和基因表达特征的功能和结构分析.
- 已建立的促进者数据库有助于理解Arabidopsis中的基因调节.
相关概念视频
Complementary DNA
Overview
Transcription Elongation Factors
Transcription elongation is a dynamic process that alters depending upon the sequence heterogeneity of the DNA being transcribed. Hence, it is not surprising that the elongation complex's composition also varies along the way while transcribing a gene.
The transcription elongation is regulated via pausing of RNA polymerase on several occasions during transcription. In bacteria, these halts are necessary because the transcription of DNA into mRNA is coupled to the translation of that mRNA into a...
The transcription elongation is regulated via pausing of RNA polymerase on several occasions during transcription. In bacteria, these halts are necessary because the transcription of DNA into mRNA is coupled to the translation of that mRNA into a...
Cis-regulatory Sequences
Cis-regulatory sequences are short fragments of non-coding DNA that are present on the same chromosomes as the genes that they regulate. These fragments serve as binding sites for transcriptional regulators, proteins that are responsible for controlling gene transcription and differential gene expression across cell types in eukaryotes. Cis-regulatory sequences can be close to the gene of interest or thousands of bases away in the DNA sequence; however, those sequences that are further away are...
RNA-seq
RNA sequencing, or RNA-Seq, is a high-throughput sequencing technology used to study the transcriptome of a cell. Transcriptomics helps to interpret the functional elements of a genome and identify the molecular constituents of an organism. Additionally, it also helps in understanding the development of an organism and the occurrence of diseases.
Before the discovery of RNA-seq, microarray-based methods and Sanger sequencing were used for transcriptome analysis. However, while microarray-based...
Before the discovery of RNA-seq, microarray-based methods and Sanger sequencing were used for transcriptome analysis. However, while microarray-based...
Genome Annotation and Assembly
The genome refers to all of the genetic material in an organism. It can range from a few million base pairs in microbial cells to several billion base pairs in many eukaryotic organisms. Genome assembly refers to the process of taking the DNA sequencing data and putting it all back together in a correct order to create a close representation of the original genome. This is followed by the identification of functional elements on the newly assembled genome, a process called genome annotation.
Cis-regulatory Sequences
Cis-regulatory sequences are short fragments of non-coding DNA that are present on the same chromosomes as the genes that they regulate. These fragments serve as binding sites for transcriptional regulators, proteins that are responsible for controlling gene transcription and differential gene expression across cell types in eukaryotes. Cis-regulatory sequences can be close to the gene of interest or thousands of bases away in the DNA sequence; however, those sequences that are further away are...


