利用小麦全景图研究泛基因组图谱

Investigating Pangenome Graphs Using Wheat Panache.

机构信息

Centre for Applied Bioinformatics and School of Biological Sciences, The University of Western Australia, Perth, WA, Australia.

出版信息

Methods Mol Biol. 2023;2703:23-29. doi: 10.1007/978-1-0716-3389-2_2.

DOI:10.1007/978-1-0716-3389-2_2

PMID:37646934

Abstract

Pangenome graphs quickly become the central data structure representing the diversity of variation we see across related genomes. Pangenome graphs have been published for some species, including plants of agronomic interest. However, visualizing these graphs is not easy as the graphs are large, and variants within these graphs are complex. Tools are needed to visualize graph data structures. Here, we present a workflow to search and visualize a wheat pangenome graph using Wheat Panache. The approach presented assists researchers interested in wheat genomics.

摘要

泛基因组图谱很快成为代表我们在相关基因组中看到的变异多样性的核心数据结构。已经为一些物种发布了泛基因组图谱，包括具有农业重要性的植物。然而，由于这些图谱很大，并且这些图谱中的变体很复杂，因此可视化这些图谱并不容易。需要工具来可视化图形数据结构。在这里，我们使用 Wheat Panache 展示了一个搜索和可视化小麦泛基因组图谱的工作流程。所提出的方法有助于对小麦基因组学感兴趣的研究人员。