| 项目编号 |
PRJCA015503 |
| 项目标题 |
Haplotype-resolved, gap-less, and chromosome-scale genome assembly of an octoploid strawberry |
| 涉及领域 |
Agricultural |
| 数据类型 |
Whole genome sequencing
|
| 物种名称 |
Fragaria
|
| 描述信息 |
Strawberry, one of the youngest domesticated fruit crops, is globally cultivated as a health promoter. Most strawberry cultivars are allo-octoploids with highly repetitive and heterozygous genomes. The complexity of genome organization brings substantial challenges to achieving accurate genomic representation and thus hinders genetic analyses and strawberry improvement. This study evaluated the effects of different sequencing depths and state-of-the-art polyploid phasing strategies on disentangling the octoploid strawberry genome. We obtained a chromosome-scale, gap-less, and haplotype-resolved genome of an intra-specific strawberry hybrid, EA78, by integrating different long sequencing technologies and polyploid graph binning. The divergence of the strawberry genome is mostly due to the accumulation of haplotype-specific nucleotide variations, small indels, and intra-chromosomal inversions. Furthermore, we investigated genomic legacies of the wild octoploid progenitors to strawberry cultivars by parental-specific k-mer analyses. We found biased retention of genetic materials during strawberry domestication, presumably due to frequent homologous recombination. This study achieves an accurate strawberry genome and provides insights into the evolutionary origins of the genetic organization of octoploid strawberries. |
| 样品范围 |
Multispecies |
| 发布日期 |
2024-11-29 |
| 项目资金来源 |
| 机构 |
项目类型 |
授权项目ID |
授权项目名称 |
| National Key Research and Development Program of China, CAS Pioneer Hundred Talents
|
|
2018YFD1000107
|
|
| National Natural Science Foundation of China (NSFC)
|
|
32270245
|
|
|
|
| 提交者 |
xin
jin (jinxin@mail.kib.ac.cn)
|
| 提交单位 |
Kunming Institute of Botany, Chinese Academy of Sciences |
| 提交日期 |
2023-03-13 |
