在基因组基础上对Sphingomonadales序列进行分类
Yuan Wang1,2, Hao You1,2, Yan-Hui Kong1,3
1Key Laboratory of Marine Ecosystem Dynamics, Ministry of Natural Resources & Second Institute of Oceanography, Ministry of Natural Resources, Hangzhou 310012, PR China.
概括
这项研究使用基因组数据重新分类了Sphingomonadales序列,建立了13个家族和新属. 它为细菌分类学提供了新的值,有助于未来对Sphingomonadales进化的研究.
科学领域:
- 微生物学 微生物学
- 基因组学就是基因组学.
- 纳税学是一种分类学.
背景情况:
- 顺序Sphingomonadales,Alphaproteobacteria的一部分,在全球分布,并以生物合成而闻名.
- 目前的Sphingomonadales分类是复杂的,特别是在Sphingomonadaceae家族内,由于多重性.
研究的目的:
- 为了重建Sphingomonadales序列内的强大的族系学关系.
- 建议使用基因组数据对属和家族分类提出新的划分门.
- 在全面的基因组分析的基础上重新分类Sphingomonadales序列.
主要方法:
- 收集和分析了429个Sphingomonadales类型菌株基因组.
- 使用最大概率和贝叶斯方法重建了家族基因树.
- 计算的平均氨基酸标识 (AAI) 和进化距离 (ED) 用于分类划分.
主要成果:
- 将订单重新分类为13个家族,包括9个新家族,具有很高的信心 (>90%的共识程度).
- 为家庭分离建立了不同的AAI (家庭内0.620.84,家庭内0.510.60) 和ED (家庭内0.160.57,家庭内0.501.22) 值 (p <2.2×10-16).
- 根据AAI和ED的界限将163个物种重新分类为新属.
结论:
- 这种基于基因组的重新分类为Sphingomonadales序列提供了一个强大的框架.
- 拟议的AAI和ED值为细菌分类学提供了有价值的标准.
- 这项研究显著提高了对Sphingomonadales进化和多样性的理解.
相关概念视频
Taxonomy
72.9K
Taxonomy is the science of defining and naming groups of biological organisms based on shared characteristics. It uses a hierarchy of increasingly inclusive categories with Latin names. The smallest units of taxonomy, species and genus, are used to assign a formal, taxonomic name to each species in a system. This classification system, referred to as binomial nomenclature, was formalized by Carolus Linnaeus in the 18th century.Hierarchy of TaxonomyThe hierarchy that Carolus Linnaeus first...
72.9K
Evolutionary Relationships through Genome Comparisons
5.6K
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...
5.6K
Phylogenetic Trees
44.9K
Phylogenetic trees come in many forms. It matters in which sequence the organisms are arranged from the bottom to the top of the tree, but the branches can rotate at their nodes without altering the information. The lines connecting individual nodes can be straight, angled, or even curved.
44.9K
The Tree of Life - Bacteria, Archaea, Eukaryotes
31.8K
The “tree of life” describes the evolution of life and the evolutionary relationships between organisms. The root of the tree is the common ancestor to all life on Earth. All other species radiate from this point, much like the branches of a tree. The numerous tips of these branches on the tree of life represent every living, or extant, species. Extinct species, which are species that no longer exist, can be found towards the center of the tree. Currently, these organisms, both...
31.8K
Gene Evolution - Fast or Slow?
7.0K
The genomes of eukaryotes are punctuated by long stretches of sequence which do not code for proteins or RNAs. Although some of these regions do contain crucial regulatory sequences, the vast majority of this DNA serves no known function. Typically, these regions of the genome are the ones in which the fastest change, in evolutionary terms, is observed, because there is typically little to no selection pressure acting on these regions to preserve their sequences.
In contrast, regions which code...
In contrast, regions which code...
7.0K
Phylogeny
43.4K
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.
43.4K


