相关实验视频
Updated: Jul 10, 2025

08:57
Using Phylogenetic Analysis to Investigate Eukaryotic Gene Origin
Published on: August 14, 2018
15.9K
揭开冠状病毒的进化模式和基因组学:一个共识网络方法
Geng-Ming Hu1, Yu-Chen Tai1, Chi-Ming Chen1
1Department of Physics, National Taiwan Normal University, Taipei, Taiwan.
Journal of medical virology
|November 27, 2023
概括
这项研究揭示了350种冠状病毒 (CoV) 的进化模式,使用了一种新的,快速的基因组网络方法. 确定了关键的CovV菌株,为未来的冠状病毒研究提供了见解.
科学领域:
- 病毒学 病毒学
- 计算生物学 计算生物学
- 基因组学就是基因组学.
背景情况:
- COVID-19大流行突出了了解冠状病毒 (CoV) 演变的关键需求.
- 以前的研究已经探索了CoV多样性,但大规模的基因组分析仍然是计算密集的.
研究的目的:
- 为了研究大量冠状病毒 (CoV) 的进化模式.
- 开发和验证一种新的,高效的共识方法论,用于构建全面的族系学网络.
- 根据网络中心性指标,识别显著的CoV菌株.
主要方法:
- 使用四种结构蛋白 (S,E,M,N) 分析了350种冠状病毒.
- 开发一个共识方法论,用于构建族群基因网络.
- 计算网络中心度指标 (加权平均度,中间中心度).
- 使用基于距离和基于角色的模型与IQ-TREE进行比较.
主要成果:
- 将冠状病毒分为4个属,与目前的分类相一致.
- 识别RaTG13 (β系) 和NGA/A116E7/2006 (gamma系) 作为重要的菌株.
- 对IQ-TREE的共识方法的验证,显示了基本一致的家族遗传结果.
- 对大型数据集来说,与IQ-TREE相比,共识方法的速度增加了约5000倍.
结论:
- 开发的共识方法是一种可靠且显著更快的替代方案,可用于大规模的CovV基因组学研究.
- 这种提高效率有助于对冠状病毒的进化和多样性的更广泛的研究.
- 识别关键的CoV菌株为未来的调查提供了有价值的数据.
相关概念视频
Evolutionary Relationships through Genome Comparisons
5.8K
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...
5.8K
Convergent Evolution
27.8K
Evolution shapes the features of organisms over time, ensuring that they are suited for the environments in which they live. Sometimes, selection pressure leads to the rise of similar but unrelated adaptations in organisms with no recent common ancestors, a process known as convergent evolution.
27.8K
Phylogeny
44.2K
Phylogeny is concerned with the evolutionary diversification of organisms or groups of organisms. A group of organisms with a name is called a taxon (singular). Taxa (plural) can span different levels of the evolutionary hierarchy. For instance, the group containing all birds is a taxon (comprising the class Aves), and the group of all species of daisies (the genus Bellis) is a taxon. Phylogenies can likewise include just one genus (i.e., depict species relationships) or span an entire kingdom.
44.2K
Synteny and Evolution
3.3K
John H. Renwick first coined the term “synteny” in 1971, which refers to the genes present on the same chromosomes, even if they are not genetically linked. The species with common ancestry tend to show conserved syntenic regions. Therefore, the concept of synteny is nowadays used to describe the evolutionary relationship between species.
Around 80 million years ago, the human and mice lineages diverged from the common ancestor. During the course of evolution, the ancestral...
Around 80 million years ago, the human and mice lineages diverged from the common ancestor. During the course of evolution, the ancestral...
3.3K
Eukaryotic Evolution
34.5K
The endosymbiont theory is the most widely accepted theory of eukaryotic evolution; however, its progression is still somewhat debated. According to the nucleus-first hypothesis, the ancestral prokaryote first evolved a membrane to enclose DNA and form the nucleus. Conversely, the mitochondria-first hypothesis suggests that the nucleus was formed after endosymbiosis of mitochondria.
Contrary to the endosymbiont theory, the eukaryote-first hypothesis proposes that the simpler prokaryotic and...
Contrary to the endosymbiont theory, the eukaryote-first hypothesis proposes that the simpler prokaryotic and...
34.5K
Multi-species Conserved Sequences
3.9K
Next-generation sequencing technologies have created large genomic databases of a variety of animals and plants. Ever since the human genome project was completed, scientists studied the genome of primates, mammals, and other phylogenetically distant living beings. Such large-scale studies have provided new insights into the evolutionary relationship between organisms.
Although the genome of each species varies greatly from each other, a few sequences are highly conserved. Such conserved...
Although the genome of each species varies greatly from each other, a few sequences are highly conserved. Such conserved...
3.9K

