| 项目编号 | PRJCA009572 | ||||||||||||||||
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| 项目标题 | Genome Sequencing and Assembly of DYC002 | ||||||||||||||||
| 涉及领域 | Evolution | ||||||||||||||||
| 数据类型 |
Whole genome sequencing
Transcriptome or Gene expression Genome sequencing and assembly |
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| 物种名称 |
Citrus hongheensis
Citrus suavissima Citrus sinensis Citrus unshiu Citrus reticulata Citrus wilsonii Citrus medica Citrus medica var. sarcodactylis Citrus platymamma Citrus daoxianensis Citrus hystrix Citrus japonica var. margarita Citrus nobilis Citrus japonica Citrus macroptera Citrus x aurantiifolia Citrus maxima Clausena lansium Citrus medica x Citrus reticulata Citrus trifoliata Citrus macrosperma Citrus limonia Citrus sulcata Murraya exotica Citrus glauca Citrus tachibana Citrus junos Citrus sunki Citrus iyo Glycosmis pentaphylla Citrus x paradisi Citrus xishuangbannaensis S.H.Wang & F.S.Wang Citrus tamurana Citrus mangshanensis Citrus sinensis x Citrus trifoliata Citrus cavaleriei Citrus trifoliata var. monstrosa Citrus x aurantium Citrus x limon Citrus hassaku Citrus hindsii Citrus erythrosa Citrus tankan Citrus reshni Citrus australasica |
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| 描述信息 | The genus Citrus originated in Southeast Asia, and has become one of the most important fruit crops worldwide. Here, we report the 294 Mbp haplotype-resolved assembly of a wild citrus, DYC002, using a combination of multiple sequencing strategies, including circular consensus sequencing. Comparison of the two haplotypes revealed 1.2% variations of the assembled genome, including 1.75 million SNPs, 149,471 insertions and 154,215 deletions. In 25,768 pairs of allelic genes, less than 5% exhibited differential expression between alleles. These differences indicate that our haplotype-phased assembly uncovers structural and functional differences of DYC002 homologous chromosome. We argued two centers of origin and two routes of dispersal for citrus using population genomic analysis based on resequencing of 378 Citrus and Citrus-related accessions. The center of origin of citrus are the Hengduan range of the Himalayas and the Nanling mountains. Primary citrus flowed downstream along the river system and formed varies types of citrus in east China and Southeast Asia. This study provides valuable genomic resources and sheds light on citrus speciation history. | ||||||||||||||||
| 样品范围 | Multispecies | ||||||||||||||||
| 发布日期 | 2024-05-13 | ||||||||||||||||
| 出版信息 |
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| 项目资金来源 |
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| 提交者 | RenYi Liu (liulab_fafu@126.com) | ||||||||||||||||
| 提交单位 | Fujian Agriculture and Forestry University | ||||||||||||||||
| 提交日期 | 2022-05-13 |