Advances in Genomics and Molecular Breeding in Radish

doi:10.16420/j.issn.0513-353x.2025-0367

Acta Horticulturae Sinica ›› 2025, Vol. 52 ›› Issue (5): 1251-1270.doi: 10.16420/j.issn.0513-353x.2025-0367

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Advances in Genomics and Molecular Breeding in Radish

CHU Wenlong¹, ZHANG Xiaoli¹, XU Liang¹^,², WANG Yan¹^,², LIU Liwang¹^,²^,^*()

¹ National Key Laboratory of Crop Genetics and Germplasm Enhancement and Utilization，Key Laboratory of Horticultural Crop Biology and Genetic Improvement（East China），Ministry of Agriculture and Rural Affairs，College of Horticulture，Nanjing Agricultural University，Nanjing 210031，China
² Zhongshan Biological Breeding Laboratory，Nanjing 210014，China

Received:2025-04-25 Revised:2025-05-07 Online:2025-05-23 Published:2025-05-21
Contact: LIU Liwang

Abstract

Abstract:

With the rapid development of genomics and biotechnology，the genetic improvement of radish has transformed from conventional breeding to the stages of molecular design breeding and intelligent breeding. This article systematically reviews the latest progress in the research of radish nuclear genome，pan-genome and cytoplasmic genome. Focusing on the main breeding objectives，the molecular basis related to formation and thickening of radish taproot，resistances to main diseases and abiotic stresses，quality，bolting and male sterility were discussed，and their applications in the field of molecular breeding were also discussed. Based on the genomic information and the molecular basis of traits，the theoretical framework of the“Precise and Intelligent Breeding”strategy is further proposed. Multi-omics data were integrated for comprehensive analysis to reveal the regulatory mechanism of complex traits. Strengthening the research on Speed breeding，establishing a precise and intelligent breeding technology system from the interaction of genotype-phenotype-environment to design breeding，which would provide theoretical and technical support for the collaborative genetic improvement of yield，resistance and quality of Brassicaceae vegetable crops including radish.

Key words: radish, genomics, molecular breeding, quality trait, genetic improvement

CHU Wenlong, ZHANG Xiaoli, XU Liang, WANG Yan, LIU Liwang. Advances in Genomics and Molecular Breeding in Radish[J]. Acta Horticulturae Sinica, 2025, 52(5): 1251-1270.

Figures/Tables 4

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基因型 Genotype	测序策略 Sequencing Strategy	组装基因组/Mb Assembled genome	锚定基因组/Mb Anchored genome	Contig N50/Mb	基因数量 Gene number	主要贡献国家 Major contributing country	参考文献 Reference
Aokubi	Illumina + Sanger	402.00	-	-	61 572	日本 Japan	Kitashiba et al.,2014
纽约野萝卜（Raphanus raphanistrum）	Illumina	254.60	-	0.01	38 174	美国 The United States	Moghe et al.,2014
‘Aokubi’DH系	Illumina	383.30	-	-	64 657	日本 Japan	Mitsui et al.,2015
R. sativus ‘Xiangyabai’	Illumina	387.73	325.42	0.04	43 240	中国 China	Zhang et al.,2015
R. sativus ‘WK10039’自交系	Illumina HiSeq + Roche 454 + PacBio + Sanger	426.20	344.00	0.02	46 514	韩国 Korea	Jeong et al.,2016
‘Okute-Sakurajima’	DNBSEQ-G400 + PacBio	504.50	349.82	1.25	89 915	日本 Japan	Shirasawa et al.,2020
R. sativus var. longipinnatus（Xin-li-mei)	PacBio + Illumina + BioNano + Hi-C	459.83	446.39	18.72	44 109	中国 China	Zhang et al.,2021b
R. sativus var. caudatus		473.78	465.16	1.89	47 156
AH.sativus var. Oleiformis （Yuanmou oil)		514.68	499.79	7.71	52 190
R. sativus var. niger		465.14	434.44	6.52	46 415
R. sativus var. longipinnatus (Yanzhong)		461.74	447.84	14.11	42 763
R. sativus var. longipinnatus (Moriguchi Daikon)		487.87	469.48	10.38	46 711
R. sativus var. radicula		466.54	451.36	6.63	45 662
R. sativus var. raphanistroides		486.35	469.53	12.06	45 305
R. raphanistrum ssp. landra		418.33	412.05	4.07	43 703
R. raphanistrum ssp. raphanistrum		421.55	408.18	7.76	42 319
R. raphanistrum × R. sativus		488.95	467.59	5.10	45 658
R. sativus ‘WK10039’	Illumina + PacBio + NovaSeq + Hi-C	433.84	331.60	0.25	52 768	日本 Japan	Cho et al.,2022
‘NAU-LB’	Illumina + PacBio + BioNano + Hi-C	476.32	448.12	1.76	40 306	中国 China	Xu et al.,2023

基因型 Genotype	测序策略 Sequencing Strategy	组装基因组/Mb Assembled genome	锚定基因组/Mb Anchored genome	Contig N50/Mb	基因数量 Gene number	主要贡献国家 Major contributing country	参考文献 Reference
Aokubi	Illumina + Sanger	402.00	-	-	61 572	日本 Japan	Kitashiba et al.,2014
纽约野萝卜（Raphanus raphanistrum）	Illumina	254.60	-	0.01	38 174	美国 The United States	Moghe et al.,2014
‘Aokubi’DH系	Illumina	383.30	-	-	64 657	日本 Japan	Mitsui et al.,2015
R. sativus ‘Xiangyabai’	Illumina	387.73	325.42	0.04	43 240	中国 China	Zhang et al.,2015
R. sativus ‘WK10039’自交系	Illumina HiSeq + Roche 454 + PacBio + Sanger	426.20	344.00	0.02	46 514	韩国 Korea	Jeong et al.,2016
‘Okute-Sakurajima’	DNBSEQ-G400 + PacBio	504.50	349.82	1.25	89 915	日本 Japan	Shirasawa et al.,2020
R. sativus var. longipinnatus（Xin-li-mei)	PacBio + Illumina + BioNano + Hi-C	459.83	446.39	18.72	44 109	中国 China	Zhang et al.,2021b
R. sativus var. caudatus		473.78	465.16	1.89	47 156
AH.sativus var. Oleiformis （Yuanmou oil)		514.68	499.79	7.71	52 190
R. sativus var. niger		465.14	434.44	6.52	46 415
R. sativus var. longipinnatus (Yanzhong)		461.74	447.84	14.11	42 763
R. sativus var. longipinnatus (Moriguchi Daikon)		487.87	469.48	10.38	46 711
R. sativus var. radicula		466.54	451.36	6.63	45 662
R. sativus var. raphanistroides		486.35	469.53	12.06	45 305
R. raphanistrum ssp. landra		418.33	412.05	4.07	43 703
R. raphanistrum ssp. raphanistrum		421.55	408.18	7.76	42 319
R. raphanistrum × R. sativus		488.95	467.59	5.10	45 658
R. sativus ‘WK10039’	Illumina + PacBio + NovaSeq + Hi-C	433.84	331.60	0.25	52 768	日本 Japan	Cho et al.,2022
‘NAU-LB’	Illumina + PacBio + BioNano + Hi-C	476.32	448.12	1.76	40 306	中国 China	Xu et al.,2023

Advances in Genomics and Molecular Breeding in Radish

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