一种在线的 einkorn 数据库，旨在帮助基因发现和功能基因组学研究。

An online database for einkorn wheat to aid in gene discovery and functional genomics studies.

机构信息

Department of Plant Science and Landscape Architecture, University of Maryland, Fieldhouse Dr. College Park, MD 20742, USA.

Plant Science Program, Biological and Environmental Science and Engineering Division, King Abdullah University of Science and Technology (KAUST), 4700 KAUST, Thuwal 23955-6900, Saudi Arabia.

出版信息

Database (Oxford). 2023 Nov 16;2023. doi: 10.1093/database/baad079.

DOI:10.1093/database/baad079

PMID:37971714

原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC10653128/

Abstract

Diploid A-genome wheat (einkorn wheat) presents a nutrition-rich option as an ancient grain crop and a resource for the improvement of bread wheat against abiotic and biotic stresses. Realizing the importance of this wheat species, reference-level assemblies of two einkorn wheat accessions were generated (wild and domesticated). This work reports an einkorn genome database that provides an interface to the cereals research community to perform comparative genomics, applied genetics and breeding research. It features queries for annotated genes, the use of a recent genome browser release, and the ability to search for sequence alignments using a modern BLAST interface. Other features include a comparison of reference einkorn assemblies with other wheat cultivars through genomic synteny visualization and an alignment visualization tool for BLAST results. Altogether, this resource will help wheat research and breeding. Database URL https://wheat.pw.usda.gov/GG3/pangenome.

摘要

二倍体 A 基因组小麦（一粒小麦）作为一种古老的谷物作物和改良面包小麦应对非生物和生物胁迫的资源，提供了一种营养丰富的选择。鉴于这种小麦的重要性，我们生成了两个一粒小麦品系（野生和驯化）的参考级别的基因组组装。这项工作报告了一个一粒小麦基因组数据库，为谷物研究界提供了一个接口，用于进行比较基因组学、应用遗传学和育种研究。它提供了对注释基因的查询、使用最近发布的基因组浏览器，以及使用现代 BLAST 接口搜索序列比对的功能。其他功能包括通过基因组同线性可视化比较参考一粒小麦组装与其他小麦品种，并提供用于 BLAST 结果的对齐可视化工具。总之，这个资源将有助于小麦的研究和育种。数据库网址：https://wheat.pw.usda.gov/GG3/pangenome。