Chromosome-level genome assembly of Solanum pimpinellifolium.

Solanum / genetics Genome, Plant Chromosomes, Plant Molecular Sequence Annotation

Journal

Scientific data
ISSN: 2052-4463
Titre abrégé: Sci Data
Pays: England
ID NLM: 101640192

Informations de publication

Date de publication:
04 Jun 2024
Historique:
received: 27 11 2023
accepted: 29 05 2024
medline: 5 6 2024
pubmed: 5 6 2024
entrez: 4 6 2024
Statut: epublish

Résumé

Solanum pimpinellifolium, the closest wild relative of the domesticated tomato, has high potential for use in breeding programs aimed at developing multi-pathogen resistance and quality improvement. We generated a chromosome-level genome assembly of S. pimpinellifolium LA1589, with a size of 833 Mb and a contig N50 of 31 Mb. We anchored 98.80% of the contigs into 12 pseudo-chromosomes, and identified 74.47% of the sequences as repetitive sequences. The genome evaluation revealed BUSCO and LAI score of 98.3% and 14.49, respectively, indicating high quality of this assembly. A total of 41,449 protein-coding genes were predicted in the genome, of which 89.17% were functionally annotated. This high-quality genome assembly serves as a valuable resource for accelerating the biological discovery and molecular breeding of this important horticultural crop.

Identifiants

DOI: 10.1038/s41597-024-03442-6 PMID: 38834611
pubmed: 38834611
doi: 10.1038/s41597-024-03442-6
pii: 10.1038/s41597-024-03442-6
doi:

Types de publication

Dataset Journal Article

Langues

eng

Sous-ensembles de citation

IM

Pagination

577

Subventions

Organisme : National Natural Science Foundation of China (National Science Foundation of China)
ID : 32000364
Organisme : Natural Science Foundation of Shandong Province (Shandong Provincial Natural Science Foundation)
ID : ZR2020JQ12

Informations de copyright

© 2024. The Author(s).

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Auteurs

Hongyu Han (H)

College of Agronomy, Shandong Agricultural University, Tai'an, 271018, China.
Taishan Academy of Tomato Innovation, Shandong Agricultural University, Tai'an, 271018, China.
ORCID: 0000-0002-3406-6548

Xiuhong Li (X)

College of Agronomy, Shandong Agricultural University, Tai'an, 271018, China.

Tianze Li (T)

College of Agronomy, Shandong Agricultural University, Tai'an, 271018, China.

Qian Chen (Q)

Taishan Academy of Tomato Innovation, Shandong Agricultural University, Tai'an, 271018, China.
College of Horticulture Science and Engineering, Shandong Agricultural University, Tai'an, 271018, China.

Jiuhai Zhao (J)

College of Agronomy, Shandong Agricultural University, Tai'an, 271018, China.
State Key Laboratory of Black Soils Conservation and Utilization, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Changchun, 130102, China.
Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Changchun, 130102, China.

Huawei Zhai (H)

Taishan Academy of Tomato Innovation, Shandong Agricultural University, Tai'an, 271018, China.
College of Horticulture Science and Engineering, Shandong Agricultural University, Tai'an, 271018, China.

Lei Deng (L)

Taishan Academy of Tomato Innovation, Shandong Agricultural University, Tai'an, 271018, China.
College of Life Sciences, Shandong Agricultural University, Tai'an, 271018, China.
ORCID: 0000-0001-9415-3961

Xianwen Meng (X)

Taishan Academy of Tomato Innovation, Shandong Agricultural University, Tai'an, 271018, China. xwmeng@sdau.edu.cn.
College of Horticulture Science and Engineering, Shandong Agricultural University, Tai'an, 271018, China. xwmeng@sdau.edu.cn.
ORCID: 0000-0001-8547-2936

Chuanyou Li (C)

Taishan Academy of Tomato Innovation, Shandong Agricultural University, Tai'an, 271018, China. cyli@genetics.ac.cn.
College of Life Sciences, Shandong Agricultural University, Tai'an, 271018, China. cyli@genetics.ac.cn.
ORCID: 0000-0003-0202-3890

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Classifications MeSH

questionsmedicales.fr › Eucaryotes › Viridiplantae › Streptophyta › Embryophyta › Tracheobionta › Magnoliopsida › Solanales › Solanaceae › Solanum › Chromosome-level genome assembly of Solanum...
questionsmedicales.fr › Phénomènes génétiques › Structures génétiques › Génome › Génome végétal › Chromosome-level genome assembly of Solanum...
questionsmedicales.fr › Phénomènes génétiques › Structures génétiques › Chromosomes › Chromosomes de plante › Chromosome-level genome assembly of Solanum...
questionsmedicales.fr › Sciences de l'information › Sources d'information › Services d'information › Documentation › Données de séquences moléculaires › Annotation de séquence moléculaire › Chromosome-level genome assembly of Solanum...