دورية أكاديمية
Genome Assembly of Alfalfa Cultivar Zhongmu-4 and Identification of SNPs Associated with Agronomic Traits
| العنوان: | Genome Assembly of Alfalfa Cultivar Zhongmu-4 and Identification of SNPs Associated with Agronomic Traits |
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| المؤلفون: | Ruicai Long, Fan Zhang, Zhiwu Zhang, Mingna Li, Lin Chen, Xue Wang, Wenwen Liu, Tiejun Zhang, Long-Xi Yu, Fei He, Xueqian Jiang, Xijiang Yang, Changfu Yang, Zhen Wang, Junmei Kang, Qingchuan Yang |
| المصدر: | Genomics, Proteomics & Bioinformatics, Vol 20, Iss 1, Pp 14-28 (2022) |
| بيانات النشر: | Oxford University Press, 2022. |
| سنة النشر: | 2022 |
| المجموعة: | LCC:Biology (General) LCC:Computer applications to medicine. Medical informatics |
| مصطلحات موضوعية: | Alfalfa, Autotetraploid, Genome assembly, Resequencing, Genome-wide association study, Biology (General), QH301-705.5, Computer applications to medicine. Medical informatics, R858-859.7 |
| الوصف: | Alfalfa (Medicago sativa L.) is the most important legume forage crop worldwide with high nutritional value and yield. For a long time, the breeding of alfalfa was hampered by lacking reliable information on the autotetraploid genome and molecular markers linked to important agronomic traits. We herein reported the de novo assembly of the allele-aware chromosome-level genome of Zhongmu-4, a cultivar widely cultivated in China, and a comprehensive database of genomic variations based on resequencing of 220 germplasms. Approximate 2.74 Gb contigs (N50 of 2.06 Mb), accounting for 88.39% of the estimated genome, were assembled, and 2.56 Gb contigs were anchored to 32 pseudo-chromosomes. A total of 34,922 allelic genes were identified from the allele-aware genome. We observed the expansion of gene families, especially those related to the nitrogen metabolism, and the increase of repetitive elements including transposable elements, which probably resulted in the increase of Zhongmu-4 genome compared with Medicago truncatula. Population structure analysis revealed that the accessions from Asia and South America had relatively lower genetic diversity than those from Europe, suggesting that geography may influence alfalfa genetic divergence during local adaption. Genome-wide association studies identified 101 single nucleotide polymorphisms (SNPs) associated with 27 agronomic traits. Two candidate genes were predicted to be correlated with fall dormancy and salt response. We believe that the allele-aware chromosome-level genome sequence of Zhongmu-4 combined with the resequencing data of the diverse alfalfa germplasms will facilitate genetic research and genomics-assisted breeding in variety improvement of alfalfa. |
| نوع الوثيقة: | article |
| وصف الملف: | electronic resource |
| اللغة: | English |
| تدمد: | 1672-0229 |
| Relation: | http://www.sciencedirect.com/science/article/pii/S1672022922000031; https://doaj.org/toc/1672-0229 |
| DOI: | 10.1016/j.gpb.2022.01.002 |
| URL الوصول: | https://doaj.org/article/76daf2837eca41e6bdf036b4924f34a4 |
| رقم الأكسشن: | edsdoj.76daf2837eca41e6bdf036b4924f34a4 |
| قاعدة البيانات: | Directory of Open Access Journals |
Full Text Finder | تدمد: | 16720229 |
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| DOI: | 10.1016/j.gpb.2022.01.002 |