基于rDNA的AMF识别的陷:对rDNA和蛋白质编码基因的比较分析
Franck Stefani1, Mario Laterrière2, Lobna Abdellatif1
1Ottawa Research and Development Centre, Agriculture and Agri-Food Canada, Ottawa, ON, K1A 0C6, Canada.
The New phytologist
|September 12, 2025
概括
在状菌根真菌 (AMF) 中的基因内多态化rDNA使物种识别复杂化. 高度可变的rDNA位点挑战了分类学,需要仔细的基因选择和新的生物信息学工具来准确地分类真菌.
科学领域:
- 菌类学 菌类学是指菌类学.
- 遗传学 遗传学是一种遗传学.
- 进化生物学 进化生物学
背景情况:
- 核核糖体DNA (rDNA) 区域被广泛用于状菌根真菌 (AMF) 的识别.
- 在rDNA内部的基因内多态性很少被理解,其对AMF分类学的影响尚不清楚.
研究的目的:
- 评估核rDNA区域的可靠性,以识别AMF物种.
- 将rDNA变异性与蛋白质编码基因进行比较.
- 描述AMF.中的基因内rDNA多态性的程度.
主要方法:
- 来自Rhizophagus irregularis菌株的rDNA副本的分析.
- 单核酸多态密度分析.
- 对148种AM真菌培养的PacBio测序,代表44种物种.
- 开发一个生物信息学管道用于rDNA复制恢复.
主要成果:
- 观察到显著的基因内rDNA距离,内部转录间隔器1 (ITS1) 的变化率高达21.1%.
- 基因内rDNA多态性在AMF基因组中普遍存在,影响常见的目标位点,如ITS和大子单元.
- 没有发现使用检查的基因对AMF物种划分的通用条形码差距,但确定了glomalin,RPB1和H+-ATPase的指示值.
结论:
- 高度多态的rDNA位点对准确的AMF物种识别和遗传学解释构成重大挑战.
- 蛋白质编码基因和特定的rDNA区域为物种划界提供了潜力,并建立了距离值.
- 开发了一个生物信息学管道,以帮助恢复和分析在多态性中rDNA副本.
相关概念视频
Ribosome Profiling
4.1K
Ribosome profiling or ribo-sequencing is a deep sequencing technique that produces a snapshot of active translation in a cell. It selectively sequences the mRNAs protected by ribosomes to get an insight into a cell’s translation landscape at any given point in time.
Applications of ribosome profiling
Ribosome profiling has many applications, including in vivo monitoring of translation inside a particular organ or tissue type and quantifying new protein synthesis levels.
The technique...
Applications of ribosome profiling
Ribosome profiling has many applications, including in vivo monitoring of translation inside a particular organ or tissue type and quantifying new protein synthesis levels.
The technique...
4.1K
Evolutionary Relationships through Genome Comparisons
6.9K
Genome comparison is one of the excellent ways to interpret the evolutionary relationships between organisms. The basic principle of genome comparison is that if two species share a common feature, it is likely encoded by the DNA sequence conserved between both species. The advent of genome sequencing technologies in the late 20th century enabled scientists to understand the concept of conservation of domains between species and helped them to deduce evolutionary relationships across diverse...
6.9K
The Central Dogma
32.1K
The central dogma explains the flow of genetic information from DNA nucleotides to the amino acid sequence of proteins.
RNA is the Missing Link Between DNA and Proteins
In the early 1900s, scientists discovered that DNA stores all the information needed for cellular functions and that proteins perform most of these functions. However, the mechanisms of converting genetic information into functional proteins remained unknown for many years. Initially, it was believed that a single gene is...
RNA is the Missing Link Between DNA and Proteins
In the early 1900s, scientists discovered that DNA stores all the information needed for cellular functions and that proteins perform most of these functions. However, the mechanisms of converting genetic information into functional proteins remained unknown for many years. Initially, it was believed that a single gene is...
32.1K
The Central Dogma
139.0K
Overview
139.0K
RNA-seq
11.8K
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...
Before the discovery of RNA-seq, microarray-based methods and Sanger sequencing were used for transcriptome analysis. However, while...
11.8K
From DNA to Protein
22.1K
The flow of genetic information in cells from DNA to mRNA to protein is described by the central dogma, which states that genes specify the sequence of mRNAs, which in turn specify the sequence of amino acids making up all proteins. The decoding of one molecule to another is performed by specific proteins and RNAs. Because the information stored in DNA is so central to cellular function, it makes intuitive sense that the cell would make mRNA copies of this information for protein synthesis...
22.1K


