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为了基因发现,De novo转录组组合高积累的Noccaea praecox进行基因发现

Valentina Bočaj¹, Paula Pongrac^1,2, Sina Fischer³

¹University of Ljubljana, Biotechnical Faculty, Jamnikarjeva 101, SI-1000, Ljubljana, Slovenia.

Scientific data

|December 1, 2023

概括

这项研究对Noccaea praecox的转录组进行了测序,Noccaea praecox是一种金属过度积累植物. 这为植物耐受和积累和等重金属所使用的遗传机制提供了洞察力.

科学领域:

植物生物学植物生物学
基因组学就是基因组学.
环境科学环境科学

背景情况:

过度积累者是耐受高金属度的植物.
诺卡亚 (Noccaea praecox) 是一个布拉西卡家族的成员,是已知的和过度积累剂.
了解金属积累路径对于植物疗法至关重要.

研究的目的:

为Noccaea praecox.生成一个新的转录组件组件.
为了确定参与金属过度积累的基因和蛋白质.
为了比较金属丰富与控制土壤条件中的基因表达.

主要方法:

从两个种群 (金属丰富和控制) 中对Noccaea praecox的RNA测序.
新的转录组组装和注释.
生物信息分析以确定假定蛋白质和功能.

主要成果:

从801,935,101次阅读中成功组装和注释了135,323个成绩单.
标注了76.4%的转录,识别了53,142种假定蛋白质.
为Noccaea praecox.建立了一个有价值的基因组资源.

结论:

在Noccaea praecox转录组为研究金属过度积累提供了基础.
与Noccaea caerulescens进行比较分析可以揭示常见和独特的金属耐受性途径.
这项研究扩大了对植物金属吸收,储存和排毒机制的知识.

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相关概念视频

Genome Annotation and Assembly

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.

RNA-seq

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...