Next-generation sequencing has yielded a vast amount of cattle genomic data for global characterization of population genetic diversity and identification of genomic regions under natural and artificial selection. However, efficient storage, querying, and visualization of such large datasets remain challenging. Here, we developed a comprehensive database, the Bovine Genome Variation Database (BGVD). It provides six main functionalities: gene search, variation search, genomic signature search, Genome Browser, alignment search tools, and the genome coordinate conversion tool. BGVD contains information on genomic variations comprising ~60.44 M SNPs, ~6.86 M indels, 76,634 CNV regions, and signatures of selective sweeps in 432 samples from modern cattle worldwide. Users can quickly retrieve distribution patterns of these variations for 54 cattle breeds through an interactive source of breed origin map, using a given gene symbol or genomic region for any of the three versions of the bovine reference genomes (ARS-UCD1.2, UMD3.1.1, and Btau 5.0.1). Signals of selection sweep are displayed as Manhattan plots and Genome Browser tracks. To further investigate and visualize the relationships between variants and signatures of selection, the Genome Browser integrates all variations, selection data, and resources, from NCBI, the UCSC Genome Browser, and Animal QTLdb. Collectively, all these features make the BGVD a useful archive for in-depth data mining and analyses of cattle biology and cattle breeding on a global scale. BGVD is publicly available at http://animal.nwsuaf.edu.cn/BosVar.

下一代测序已经产生了大量的牛基因组数据，用于群体遗传多样性的全球表征以及自然和人工选择下基因组区域的识别。然而，如此大的数据集的高效存储、查询和可视化仍然具有挑战性。在这里，我们开发了一个综合数据库，牛基因组变异数据库（BGVD）。它提供六种主要功能：基因搜索、变异搜索、基因组特征搜索、基因组浏览器、比对搜索工具和基因组坐标转换工具。BGVD 包含基因组变异信息，包括约 60.44 M SNP、约 6.86 M 插入缺失、76,634 个 CNV 区域以及来自全球现代牛的 432 个样本中选择性扫描的特征。用户可以通过品种起源图的交互式来源，快速检索 54 个牛品种的这些变异的分布模式，使用三个版本的牛参考基因组（ARS-UCD1.2、UMD3.2）中任何一个的给定基因符号或基因组区域。 1.1 和 Btau 5.0.1）。选择扫描的信号显示为曼哈顿图和基因组浏览器轨迹。为了进一步研究和可视化变异与选择特征之间的关系，基因组浏览器集成了来自 NCBI、UCSC 基因组浏览器和动物 QTLdb 的所有变异、选择数据和资源。总的来说，所有这些功能使 BGVD 成为在全球范围内对牛生物学和牛育种进行深入数据挖掘和分析的有用档案。BGVD 可在 http://animal.nwsuaf.edu.cn/BosVar 上公开获取。