Item type |
学術雑誌論文 / Journal Article(1) |
公開日 |
2024-06-21 |
タイトル |
|
|
言語 |
en |
|
タイトル |
A de novo genome assembly of Solanum bulbocastanum Dun., a Mexican diploid species reproductively isolated from the A-genome species, including cultivated potatoes |
言語 |
|
|
言語 |
eng |
キーワード |
|
|
言語 |
en |
|
主題Scheme |
Other |
|
主題 |
comparative genomics |
資源タイプ |
|
|
資源タイプ識別子 |
http://purl.org/coar/resource_type/c_6501 |
|
資源タイプ |
journal article |
著者 |
Hosaka, Awie J.
實友, 玲奈
保坂, 和良
|
抄録 |
|
|
内容記述タイプ |
Abstract |
|
内容記述 |
Potato and its wild relatives are distributed mainly in the Mexican highlands and central Andes of South America. The South American A-genome species, including cultivated potatoes, are reproductively isolated from Mexican diploid species. Whole-genome sequencing has disclosed genome structure and similarity, mostly in cultivated potatoes and their closely related species. In this study, we generated a chromosome-scale assembly of the genome of a Mexican diploid species, Solanum bulbocastanum Dun., using PacBio long-read sequencing, optical mapping, and Hi-C scaffolding technologies. The final sequence assembly consisted of 737.9 Mb, among which 647.0 Mb were anchored to the 12 chromosomes. Compared with chromosome-scale assemblies of S. lycopersicum (tomato), S. etuberosum (non-tuber-bearing species with E-genome), S. verrucosum, S. chacoense, S. multidissectum, and S. phureja (all four are A-genome species), the S. bulbocastnum genome was the shortest. It contained fewer transposable elements (56.2%) than A-genome species. A cluster analysis was performed based on pairwise ratios of syntenic regions among the seven chromosome-scale assemblies, showing that the A-genome species were first clustered as a distinct group. Then, this group was clustered with S. bulbocastanum. Sequence similarity in 1,624 single-copy orthologous gene groups among 36 Solanum species and clones separated S. bulbocastanum as a specific group, including other Mexican diploid species, from the A-genome species. Therefore, the S. bulbocastanum genome differs in genome structure and gene sequences from the A-genome species. These findings provide important insights into understanding and utilizing the genetic diversity of S. bulbocastanum and the other Mexican diploid species in potato breeding. |
|
言語 |
en |
書誌情報 |
en : G3: Genes, Genomes, Genetics
巻 14,
号 6,
p. jkae080
|
出版者 |
|
|
言語 |
en |
|
出版者 |
Genetics Society of America |
ISSN |
|
|
収録物識別子タイプ |
EISSN |
|
収録物識別子 |
21601836 |
PubMed番号 |
|
|
関連タイプ |
isIdenticalTo |
|
|
識別子タイプ |
PMID |
|
|
関連識別子 |
38608140 |
DOI |
|
|
関連タイプ |
isIdenticalTo |
|
|
識別子タイプ |
DOI |
|
|
関連識別子 |
http://doi.org/10.1093/g3journal/jkae080 |
権利 |
|
|
言語 |
en |
|
権利情報 |
The Author(s) |
フォーマット |
|
|
内容記述タイプ |
Other |
|
内容記述 |
application/pdf |
|
言語 |
en |
著者版フラグ |
|
|
出版タイプ |
VoR |
|
出版タイプResource |
http://purl.org/coar/version/c_970fb48d4fbd8a85 |
日本十進分類法 |
|
|
言語 |
ja |
|
主題Scheme |
NDC |
|
主題 |
615 |