Nature Communications (Feb 2022)
Graph-based pan-genome reveals structural and sequence variations related to agronomic traits and domestication in cucumber
- Hongbo Li,
- Shenhao Wang,
- Sen Chai,
- Zhiquan Yang,
- Qiqi Zhang,
- Hongjia Xin,
- Yuanchao Xu,
- Shengnan Lin,
- Xinxiu Chen,
- Zhiwang Yao,
- Qingyong Yang,
- Zhangjun Fei,
- Sanwen Huang,
- Zhonghua Zhang
Affiliations
- Hongbo Li
- Key Laboratory of Biology and Genetic Improvement of Horticultural Crops of the Ministry of Agriculture, Sino-Dutch Joint Laboratory of Horticultural Genomics, Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences
- Shenhao Wang
- College of Horticulture, Northwest A&F University
- Sen Chai
- Engineering Laboratory of Genetic Improvement of Horticultural Crops of Shandong Province, College of Horticulture, Qingdao Agricultural University
- Zhiquan Yang
- College of Informatics, Huazhong Agricultural University
- Qiqi Zhang
- Key Laboratory of Biology and Genetic Improvement of Horticultural Crops of the Ministry of Agriculture, Sino-Dutch Joint Laboratory of Horticultural Genomics, Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences
- Hongjia Xin
- Key Laboratory of Biology and Genetic Improvement of Horticultural Crops of the Ministry of Agriculture, Sino-Dutch Joint Laboratory of Horticultural Genomics, Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences
- Yuanchao Xu
- Key Laboratory of Biology and Genetic Improvement of Horticultural Crops of the Ministry of Agriculture, Sino-Dutch Joint Laboratory of Horticultural Genomics, Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences
- Shengnan Lin
- Key Laboratory of Biology and Genetic Improvement of Horticultural Crops of the Ministry of Agriculture, Sino-Dutch Joint Laboratory of Horticultural Genomics, Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences
- Xinxiu Chen
- Engineering Laboratory of Genetic Improvement of Horticultural Crops of Shandong Province, College of Horticulture, Qingdao Agricultural University
- Zhiwang Yao
- Engineering Laboratory of Genetic Improvement of Horticultural Crops of Shandong Province, College of Horticulture, Qingdao Agricultural University
- Qingyong Yang
- College of Informatics, Huazhong Agricultural University
- Zhangjun Fei
- Boyce Thompson Institute, Cornell University
- Sanwen Huang
- Shenzhen Branch, Guangdong Laboratory for Lingnan Modern Agriculture, Shenzhen Key Laboratory of Agricultural Synthetic Biology, Genome Analysis Laboratory of the Ministry of Agriculture and Rural Affairs, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences
- Zhonghua Zhang
- Engineering Laboratory of Genetic Improvement of Horticultural Crops of Shandong Province, College of Horticulture, Qingdao Agricultural University
- DOI
- https://doi.org/10.1038/s41467-022-28362-0
- Journal volume & issue
-
Vol. 13,
no. 1
pp. 1 – 14
Abstract
Increasing studies have suggested that single reference genome is insufficient to capture all variations in the genome. Here, the authors report a graph-based cucumber pan-genome by analyzing 12 chromosome-scale assemblies and reveal variations associated with agronomic traits and domestication.
