全長のアラビドプシスのcDNAコレクションの機能的な注釈
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.
まとめ
研究者らは,アラビドプシスから155,144個の完全長さの補完DNA (cDNA) クローンを分離した. このリソースは,遺伝子アノテーションと機能分析を助け,予測される遺伝子の約60%をカバーします.
科学分野:
- 植物ゲノミクス 植物ゲノミクス
- 分子生物学は分子生物学である.
- バイオインフォマティックス
背景:
- 完全な長さの補完DNA (cDNA) は,正確なゲノムアノテーションと遺伝子機能の研究に不可欠です.
- 植物の研究には,全長cDNAの包括的なコレクションが必要である.
研究 の 目的:
- アラビドプシスの全長cDNAクローンの大きなセットを分離し,特徴づけること.
- 遺伝子アノテーション,プロモーター分析,および植物における機能研究のための貴重なリソースを作成する.
主な方法:
- RIKEN アラビドプシス全長 (RAFL) のcDNAクローンの155,144個を分離しました.
- 3'-end expressed sequence tags (ESTs) のクラスタリングにより,非冗余のcDNA群を識別する.
- 5'ESTの生成とプロモーターデータベースの構築.
主要な成果:
- 14,668の非冗余のcDNA群が特定され,予測されたアラビドプシスの遺伝子の約60%を占めました.
- 14,034の非冗長なcDNA群から5'ESTを用いてプロモーターデータベースが構築されました.
- RAFLのcDNA配列データベースは,プロモーター分析と遺伝子アノテーションのためのリソースを提供します.
結論:
- RAFLのcDNAコレクションは,アラビドプシスのゲノム配列の注釈を改善するための重要なリソースです.
- これらの全長cDNAは,植物タンパク質と遺伝子発現プロファイルの機能的および構造的分析を容易にする.
- 確立されたプロモーターデータベースは,アラビドプシスの遺伝子調節を理解するのに役立ちます.
関連する概念動画
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...


