LukProt:为研究动物起源而设计的真核生物预测蛋白的数据库
1Laboratory of Glycobiology, Department of Immunochemistry, Hirszfeld Institute of Immunology and Experimental Therapy, PAS, Weigla 12, 53-114 Wrocław, Poland.
Genome biology and evolution
|October 21, 2024
概括
LukProt是一个新的数据库,解决了对非双胞胎动物缺乏全面的序列数据的问题. 该资源通过提供可访问的蛋白质序列和元数据,帮助研究人员研究早期动物进化.
科学领域:
- 进化生物学 进化生物学
- 生物信息学是一种生物信息学.
- 基因组学就是基因组学.
背景情况:
- 早期动物进化的研究面临着挑战,因为序列数据碎片化和注释不良,特别是对于非双元物种.
- 现有的公共数据库缺乏对关键进化研究的全面覆盖和一致的元数据.
研究的目的:
- 介绍LukProt,一个新型数据库,旨在巩固来自不同动物血统的蛋白质序列,重点关注非双边动物.
- 为研究动物生命的起源和演变的研究人员提供一个有组织和可访问的资源.
主要方法:
- LukProt是使用从基因组,转录组和转基因组研究中获得的蛋白质序列来构建的.
- 该数据库扩展了EukProt框架,包含了216种动物的数据,并采用了标准化的分类学分类 (分类组) 方案.
- 为高效搜索LukProt数据库而开发了一个BLAST服务器.
主要成果:
- LukProt提供了蛋白质序列的集中存储库,大大提高了对非双菌动物的数据可用性.
- 数据库包括一个结构化的分类组方案,以促进进化分析.
- 版本在Zenodo上永久存档,确保长期的可访问性和可重复性.
结论:
- LukProt是进化生物学家和更广泛的科学界的一个有价值和方便的资源.
- 该数据库旨在克服早期动物进化研究中的数据可访问性障碍.
- 持续更新和社区参与将确保LukProt仍然是一个动态和全面的资源.
相关概念视频
Protein Families
15.3K
Protein families are groups of homologous proteins; that is, they have similarities in amino acid sequences and three-dimensional structures. Protein families usually occur because of gene duplication, where an additional copy of a gene is inserted into the genome of an organism. Mutations that change the amino acids but still allow the protein to be properly synthesized, will lead to new protein family members. If these new proteins contain similar amino acids in key...
15.3K
Conservation of Protein Domains Over Different Proteins
10.8K
Protein domains are small structurally independent units that are part of a single amino acid chain. Although these domains are often structurally independent, they may rely on synergistic effects to perform their functions as part of a larger protein. Protein domains may be conserved within the same organism, as well as across different organisms.
A limited set of protein domains often duplicate and recombine during evolution. These domains can be organized in different combinations to...
A limited set of protein domains often duplicate and recombine during evolution. These domains can be organized in different combinations to...
10.8K
Evolutionary Relationships through Genome Comparisons
5.7K
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...
5.7K
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


