School of Biological Sciences and Institute of Agriculture, The University of Western Australia, Perth, WA, 6009, Australia.
GinkgoFish, Carson City, NV, 89703, USA.
Plant J. 2019 Apr;98(1):142-152. doi: 10.1111/tpj.14194. Epub 2019 Jan 28.
Advances in sequencing technology have led to a rapid rise in the genomic data available for plants, driving new insights into the evolution, domestication and improvement of crops. Single nucleotide polymorphisms (SNPs) are a major component of crop genomic diversity, and are invaluable as genetic markers in research and breeding programs. High-throughput SNP arrays, or 'SNP chips', can generate reproducible sets of informative SNP markers and have been broadly adopted. Although there are many public repositories for sequencing data, which are routinely uploaded, there are no formal repositories for crop SNP array data. To make SNP array data more easily accessible, we have developed CropSNPdb (http://snpdb.appliedbioinformatics.com.au), a database for SNP array data produced by the Illumina Infinium™ hexaploid bread wheat (Triticum aestivum) 90K and Brassica 60K arrays. We currently host SNPs from datasets covering 526 Brassica lines and 309 bread wheat lines, and provide search, download and upload utilities for users. CropSNPdb provides a useful repository for these data, which can be applied for a range of genomics and molecular crop-breeding activities.
测序技术的进步使得植物的基因组数据迅速增加，这为研究作物的进化、驯化和改良提供了新的见解。单核苷酸多态性（SNP）是作物基因组多样性的主要组成部分，作为研究和育种计划中的遗传标记具有极高的价值。高通量 SNP 芯片可以生成可重复的信息 SNP 标记集，已被广泛采用。尽管有许多用于常规上传的公共测序数据存储库，但没有用于作物 SNP 芯片数据的正式存储库。为了使 SNP 芯片数据更容易获取，我们开发了 CropSNPdb（http://snpdb.appliedbioinformatics.com.au），这是一个用于 SNP 芯片数据的数据库，这些数据是由 Illumina Infinium™ 六倍体面包小麦（Triticum aestivum）90K 和芸薹属 60K 芯片产生的。我们目前拥有涵盖 526 个芸薹属品系和 309 个面包小麦品系的数据集的 SNP，为用户提供搜索、下载和上传工具。CropSNPdb 为这些数据提供了一个有用的存储库，可用于一系列基因组学和分子作物育种活动。
