High-quality genome assembly and comparative genomic profiling of yellowhorn (Xanthoceras sorbifolia) revealed environmental adaptation footprints and seed oil contents variations
Yellowhorn (Xanthoceras sorbifolia) is a species of deciduous tree that is native to Northern and Central China, including Loess Plateau. The yellowhorn tree is a hardy plant, tolerating a wide range of growing conditions, and is often grown for ornamental purposes in parks, gardens, and other lands...
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Frontiers Media S.A.
2023-03-01
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| Series: | Frontiers in Plant Science |
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| Online Access: | https://www.frontiersin.org/articles/10.3389/fpls.2023.1147946/full |
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| author | Juan Wang Juan Wang Haifei Hu Haifei Hu Xizhen Liang Xizhen Liang Muhammad Tahir ul Qamar Yunxiang Zhang Yunxiang Zhang Jianguo Zhao Hongqian Ren Hongqian Ren Xingrong Yan Xingrong Yan Baopeng Ding Baopeng Ding Jinping Guo Jinping Guo |
| author_facet | Juan Wang Juan Wang Haifei Hu Haifei Hu Xizhen Liang Xizhen Liang Muhammad Tahir ul Qamar Yunxiang Zhang Yunxiang Zhang Jianguo Zhao Hongqian Ren Hongqian Ren Xingrong Yan Xingrong Yan Baopeng Ding Baopeng Ding Jinping Guo Jinping Guo |
| author_sort | Juan Wang |
| collection | DOAJ |
| description | Yellowhorn (Xanthoceras sorbifolia) is a species of deciduous tree that is native to Northern and Central China, including Loess Plateau. The yellowhorn tree is a hardy plant, tolerating a wide range of growing conditions, and is often grown for ornamental purposes in parks, gardens, and other landscaped areas. The seeds of yellowhorn are edible and contain rich oil and fatty acid contents, making it an ideal plant for oil production. However, the mechanism of its ability to adapt to extreme environments and the genetic basis of oil synthesis remains to be elucidated. In this study, we reported a high-quality and near gap-less yellowhorn genome assembly, containing the highest genome continuity with a contig N50 of 32.5 Mb. Comparative genomics analysis showed that 1,237 and 231 gene families under expansion and the yellowhorn-specific gene family NB-ARC were enriched in photosynthesis and root cap development, which may contribute to the environmental adaption and abiotic stress resistance of yellowhorn. A 3-ketoacyl-CoA thiolase (KAT) gene (Xso_LG02_00600) was identified under positive selection, which may be associated with variations of seed oil content among different yellowhorn cultivars. This study provided insights into environmental adaptation and seed oil content variations of yellowhorn to accelerate its genetic improvement. |
| first_indexed | 2024-04-09T23:30:24Z |
| format | Article |
| id | doaj.art-1386987a7dbe479a9f40c64f28515112 |
| institution | Directory Open Access Journal |
| issn | 1664-462X |
| language | English |
| last_indexed | 2024-04-09T23:30:24Z |
| publishDate | 2023-03-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Plant Science |
| spelling | doaj.art-1386987a7dbe479a9f40c64f285151122023-03-21T05:20:50ZengFrontiers Media S.A.Frontiers in Plant Science1664-462X2023-03-011410.3389/fpls.2023.11479461147946High-quality genome assembly and comparative genomic profiling of yellowhorn (Xanthoceras sorbifolia) revealed environmental adaptation footprints and seed oil contents variationsJuan Wang0Juan Wang1Haifei Hu2Haifei Hu3Xizhen Liang4Xizhen Liang5Muhammad Tahir ul Qamar6Yunxiang Zhang7Yunxiang Zhang8Jianguo Zhao9Hongqian Ren10Hongqian Ren11Xingrong Yan12Xingrong Yan13Baopeng Ding14Baopeng Ding15Jinping Guo16Jinping Guo17College of Forestry, Shanxi Agricultural University, Taigu, Shanxi, ChinaShanxi Key Laboratory of Functional Oil Tree Cultivation and Research, Shanxi Agricultural University, Taigu, Shanxi, ChinaRice Research Institute, Guangdong Key Laboratory of New Technology in Rice Breeding, Guangzhou, ChinaGuangdong Rice Engineering Laboratory, Guangdong Academy of Agricultural Sciences, Guangzhou, ChinaCollege of Forestry, Shanxi Agricultural University, Taigu, Shanxi, ChinaShanxi Key Laboratory of Functional Oil Tree Cultivation and Research, Shanxi Agricultural University, Taigu, Shanxi, ChinaIntegrative Omics and Molecular Modeling Laboratory, Department of Bioinformatics and Biotechnology, Government College University Faisalabad (GCUF), Faisalabad, PakistanCollege of Forestry, Shanxi Agricultural University, Taigu, Shanxi, ChinaShanxi Key Laboratory of Functional Oil Tree Cultivation and Research, Shanxi Agricultural University, Taigu, Shanxi, ChinaEngineering Research Center of Coalbased Ecological Carbon Sequestration Technology of the Ministry of Education, Datong University, Taigu, Shanxi, ChinaCollege of Forestry, Shanxi Agricultural University, Taigu, Shanxi, ChinaShanxi Key Laboratory of Functional Oil Tree Cultivation and Research, Shanxi Agricultural University, Taigu, Shanxi, ChinaCollege of Forestry, Shanxi Agricultural University, Taigu, Shanxi, ChinaShanxi Key Laboratory of Functional Oil Tree Cultivation and Research, Shanxi Agricultural University, Taigu, Shanxi, ChinaCollege of Forestry, Shanxi Agricultural University, Taigu, Shanxi, ChinaEngineering Research Center of Coalbased Ecological Carbon Sequestration Technology of the Ministry of Education, Datong University, Taigu, Shanxi, ChinaCollege of Forestry, Shanxi Agricultural University, Taigu, Shanxi, ChinaShanxi Key Laboratory of Functional Oil Tree Cultivation and Research, Shanxi Agricultural University, Taigu, Shanxi, ChinaYellowhorn (Xanthoceras sorbifolia) is a species of deciduous tree that is native to Northern and Central China, including Loess Plateau. The yellowhorn tree is a hardy plant, tolerating a wide range of growing conditions, and is often grown for ornamental purposes in parks, gardens, and other landscaped areas. The seeds of yellowhorn are edible and contain rich oil and fatty acid contents, making it an ideal plant for oil production. However, the mechanism of its ability to adapt to extreme environments and the genetic basis of oil synthesis remains to be elucidated. In this study, we reported a high-quality and near gap-less yellowhorn genome assembly, containing the highest genome continuity with a contig N50 of 32.5 Mb. Comparative genomics analysis showed that 1,237 and 231 gene families under expansion and the yellowhorn-specific gene family NB-ARC were enriched in photosynthesis and root cap development, which may contribute to the environmental adaption and abiotic stress resistance of yellowhorn. A 3-ketoacyl-CoA thiolase (KAT) gene (Xso_LG02_00600) was identified under positive selection, which may be associated with variations of seed oil content among different yellowhorn cultivars. This study provided insights into environmental adaptation and seed oil content variations of yellowhorn to accelerate its genetic improvement.https://www.frontiersin.org/articles/10.3389/fpls.2023.1147946/fullyellowhornpan-genomicsgenomic profilingadaptationoil contents |
| spellingShingle | Juan Wang Juan Wang Haifei Hu Haifei Hu Xizhen Liang Xizhen Liang Muhammad Tahir ul Qamar Yunxiang Zhang Yunxiang Zhang Jianguo Zhao Hongqian Ren Hongqian Ren Xingrong Yan Xingrong Yan Baopeng Ding Baopeng Ding Jinping Guo Jinping Guo High-quality genome assembly and comparative genomic profiling of yellowhorn (Xanthoceras sorbifolia) revealed environmental adaptation footprints and seed oil contents variations Frontiers in Plant Science yellowhorn pan-genomics genomic profiling adaptation oil contents |
| title | High-quality genome assembly and comparative genomic profiling of yellowhorn (Xanthoceras sorbifolia) revealed environmental adaptation footprints and seed oil contents variations |
| title_full | High-quality genome assembly and comparative genomic profiling of yellowhorn (Xanthoceras sorbifolia) revealed environmental adaptation footprints and seed oil contents variations |
| title_fullStr | High-quality genome assembly and comparative genomic profiling of yellowhorn (Xanthoceras sorbifolia) revealed environmental adaptation footprints and seed oil contents variations |
| title_full_unstemmed | High-quality genome assembly and comparative genomic profiling of yellowhorn (Xanthoceras sorbifolia) revealed environmental adaptation footprints and seed oil contents variations |
| title_short | High-quality genome assembly and comparative genomic profiling of yellowhorn (Xanthoceras sorbifolia) revealed environmental adaptation footprints and seed oil contents variations |
| title_sort | high quality genome assembly and comparative genomic profiling of yellowhorn xanthoceras sorbifolia revealed environmental adaptation footprints and seed oil contents variations |
| topic | yellowhorn pan-genomics genomic profiling adaptation oil contents |
| url | https://www.frontiersin.org/articles/10.3389/fpls.2023.1147946/full |
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