Department of Bioinformatics, Central University of South Bihar, Gaya, India.
Translational Bioinformatics Lab, Department of Life Sciences, Shiv Nadar University, Greater Noida, India
Life Sci Alliance. 2022 Feb 18;5(6). doi: 10.26508/lsa.202101307. Print 2022 Jun.
Microsatellites, also termed as simple sequence repeats, are repetitive tracts in a DNA sequence, typically consisting of one to six nucleotides. These repeats are found in all genomes and play key roles in phylogeny and species identification. Microsatellites are highly polymorphic, and their length may differ from species to species. There are several online resources dedicated to mitochondria; however, comprehensive information is not available about the length variation of mitochondrial microsatellites. Therefore, to explore it between species among a genus, we have developed a database named pSATdb (polymorphic microSATellites database; https://lms.snu.edu.in/pSATdb/). pSATdb contains 28,710 perfect microsatellites identified across 5,976 mitochondrial genome (mt-genome) sequences from 1,576 genera which includes 1,535 (5,846 mt-genome) and 41 (130 mt-genome) genera of Metazoa and Viridiplantae, respectively. pSATdb is the only database which provides genus-wise information about the length variation of mitochondrial microsatellites. Because of the emerging role of microsatellites in genomics studies, the identified common, polymorphic, and unique microsatellites stored in pSATdb will be effectively useful in various studies including genetic diversity, mapping, marker-assisted selection, and comparative population studies.
微卫星，也称为简单重复序列，是 DNA 序列中的重复片段，通常由一到六个核苷酸组成。这些重复序列存在于所有基因组中，在系统发生和物种鉴定中发挥着关键作用。微卫星高度多态，其长度可能因物种而异。有几个专门针对线粒体的在线资源；然而，关于线粒体微卫星的长度变化的综合信息并不完整。因此，为了在属间探索物种间的变化，我们开发了一个名为 pSATdb（多态性微卫星数据库；https://lms.snu.edu.in/pSATdb/）的数据库。pSATdb 包含了从 1576 个属的 5976 条线粒体基因组（mt-genome）序列中鉴定出的 28710 个完美微卫星，其中包括 1535 个（5846 个 mt-genome）和 41 个（130 个 mt-genome）分别来自 Metazoa 和 Viridiplantae 的属。pSATdb 是唯一一个提供关于线粒体微卫星长度变化的属级信息的数据库。由于微卫星在基因组学研究中的新兴作用，存储在 pSATdb 中的已识别的常见、多态和独特微卫星将在各种研究中有效利用，包括遗传多样性、图谱绘制、标记辅助选择和比较种群研究。
