Research progress on whole-genome resequencing in Brassica

doi:10.17520/biods.2023237

Abstract

Abstract:

Background: Brassica contains a variety of economically important crops. In recent years, with the rapid development of DNA sequencing technology and the continuous reduction of sequencing costs, whole-genome resequencing has become an important tool for Brassica research.

Main contents: This paper briefly introduces the current status of whole-genome sequencing in Brassica plants and some important progresses made in using whole-genome resequencing technology to study the domestication origin, environmental adaptations and the molecular basis of important traits of Brassica plants, including the fully sequenced 8 Brassica plant genomes, the use of the whole-genome resequencing technology in studying the domestication origin and relationship of Brassica oleracea, B. rapa, B. nigra and other Brassica species, and the identification of genes related to the adaptations to disease, rhythm and mineral nutrients, pigment synthesis, male sterility, and important production traits of Brassica plants. The research progresses introduced in this paper not only demonstrates the advantages of whole-genome resequencing technology in the study of Brassica plants in comparison with previous methods based on mitochondrial DNA and chloroplast DNA markers, but also provides important theoretical and technical support for future breeding of new Brassica crop varieties with improved environmental adaptability and excellent production traits.

Perspectives: As a relatively new research tool, whole-genome resequencing technology will be further widely adopted in future research of Brassica plants, its impact on the basic biological research and the breeding of new varieties of Brassica plants will be demonstrated.

Key words: Brassica, whole-genome resequencing, research progress, adaptation, traits

Rui Luo, Ya Chen, Hanma Zhang. Research progress on whole-genome resequencing in Brassica[J]. Biodiv Sci, 2023, 31(10): 23237.

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URL: https://www.biodiversity-science.net/EN/10.17520/biods.2023237

https://www.biodiversity-science.net/EN/Y2023/V31/I10/23237

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References 109

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物种 Species	GenBank编号 GenBank number	公开时间 Publication time	组装水平 Assembly level	基因组大小 Genomic size (Mb)	编码蛋白总数(条) Number of coding proteins	参考文献 Reference
白菜 Brassica rapa	GCA_000309985.3	2011	染色体Chromosome	352.98	60,607	Wang et al, 2011
甘蓝 B. oleracea	GCA_000695525.1	2014	染色体Chromosome	488.95	32,886	Parkin et al, 2014
欧洲油菜 B. napus	GCA_000751015.1	2014	染色体Chromosome	848.20	61,153	Chalhoub et al, 2014
芥菜 B. juncea	GCA_001687265.1	2016	染色体Chromosome	954.86	80,050	Yang et al, 2016
黑芥 B. nigra	GCA_001682895.1	2016	染色体Chromosome	402.14	49,826	Yang et al, 2016
花椰菜 B. cretica	GCA_003260655.2	2018	支架 Scaffold	332.35	63,131	Kioukis et al, 2020
埃塞俄比亚芥 B. carinata	GCA_016771965.1	2021	染色体Chromosome	1,086.99	97,148	Song et al, 2021
巴利阿里芸薹 B. balearica	GCA_021901955.1	2022	片段 Contig	376.69	43,855	Li et al, 2021

物种 Species	GenBank编号 GenBank number	公开时间 Publication time	组装水平 Assembly level	基因组大小 Genomic size (Mb)	编码蛋白总数(条) Number of coding proteins	参考文献 Reference
白菜 Brassica rapa	GCA_000309985.3	2011	染色体Chromosome	352.98	60,607	Wang et al, 2011
甘蓝 B. oleracea	GCA_000695525.1	2014	染色体Chromosome	488.95	32,886	Parkin et al, 2014
欧洲油菜 B. napus	GCA_000751015.1	2014	染色体Chromosome	848.20	61,153	Chalhoub et al, 2014
芥菜 B. juncea	GCA_001687265.1	2016	染色体Chromosome	954.86	80,050	Yang et al, 2016
黑芥 B. nigra	GCA_001682895.1	2016	染色体Chromosome	402.14	49,826	Yang et al, 2016
花椰菜 B. cretica	GCA_003260655.2	2018	支架 Scaffold	332.35	63,131	Kioukis et al, 2020
埃塞俄比亚芥 B. carinata	GCA_016771965.1	2021	染色体Chromosome	1,086.99	97,148	Song et al, 2021
巴利阿里芸薹 B. balearica	GCA_021901955.1	2022	片段 Contig	376.69	43,855	Li et al, 2021