From sequences to prebreeding: Chromosome-level genome assemblies, comparative annotation, and a public database for Minghui 86 and Minhui 3301

IF 3 2区生物学 Q2 BIOTECHNOLOGY & APPLIED MICROBIOLOGY

Genomics Pub Date : 2025-08-19 DOI:10.1016/j.ygeno.2025.111100

Yue Wang , Guangwei Chen , Min Lin, Leibo Pan, Feng Wang, Shaohua Yang, Zaijie Chen

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引用次数: 0

Abstract

Innovative breeding technologies routinely require genome-wide information for selecting individuals to enhance the genetic gain for multiple traits. Minghui 86 (MH86) and Minhui 3301 (MH3301) are two widely utilized hybrid rice restorer lines serving as significant core parents in rice breeding programs. Decoding their genomic information will provide substantial convenience for subsequent breeding applications. This study successfully assembled the genomes of MH86 and MH3301 at the chromosomal level and annotated their genes. This work elucidated the genetic information underlying their germplasm characteristics and establishing a foundation for future breeding efforts. To facilitate the utilization of the genomic sequences and annotation data from MH86 and MH3301, a genomic database (http://cropdesign.cn/) was developed. This database integrates results from targeted resequencing analyses conducted on 1256 rice germplasm samples, facilitating genotype retrieval for molecular design breeding initiatives. Furthermore, it offers various functionalities including search capabilities, sequence alignment tools, and more.

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从序列到预育种：明慧86和明慧3301染色体水平基因组组装、比较注释和公共数据库

创新的育种技术通常需要全基因组信息来选择个体，以提高多种性状的遗传增益。明恢86 （MH86）和明恢3301 （MH3301）是两种广泛应用的杂交水稻恢复系，是水稻育种中重要的核心亲本。解码它们的基因组信息将为后续育种应用提供极大的便利。本研究成功地在染色体水平上组装了MH86和MH3301的基因组，并注释了它们的基因。本研究阐明了其种质特征的遗传信息，为今后的育种工作奠定了基础。为了方便利用MH86和MH3301的基因组序列和注释数据，我们建立了基因组数据库（http://cropdesign.cn/）。该数据库整合了对1256个水稻种质样本进行的靶向重测序分析的结果，为分子设计育种计划提供了基因型检索。此外，它还提供各种功能，包括搜索功能、序列比对工具等。

本文章由计算机程序翻译，如有差异，请以英文原文为准。

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来源期刊

Genomics 生物-生物工程与应用微生物

CiteScore

9.60

自引率

2.30%

发文量

260

审稿时长

60 days

期刊介绍： Genomics is a forum for describing the development of genome-scale technologies and their application to all areas of biological investigation. As a journal that has evolved with the field that carries its name, Genomics focuses on the development and application of cutting-edge methods, addressing fundamental questions with potential interest to a wide audience. Our aim is to publish the highest quality research and to provide authors with rapid, fair and accurate review and publication of manuscripts falling within our scope.