Chromosome-scale genome assembly of the mangrove climber species Dalbergia candenatensis.

Chromosomes, Plant Genome, Plant Molecular Sequence Annotation Rhizophoraceae Wetlands Dalbergia / genetics

Journal

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

Informations de publication

Date de publication:
31 Oct 2024
Historique:
received: 15 07 2024
accepted: 23 10 2024
medline: 1 11 2024
pubmed: 1 11 2024
entrez: 1 11 2024
Statut: epublish

Résumé

Consisting of trees, climbers and herbs exclusively in the intertidal environments, mangrove forest is one of the most extreme and vulnerable ecosystems of our planet and has long been of great interest for biologists and ecologists. Here, we first assembled the chromosome-scale genome of a climber mangrove plant, Dalbergia candenatensis. The assembled genome size is approximately 474.55 Mb, with a scaffold N50 of 48.1 Mb, a complete BUSCO score of 98.4%, and a high LTR Assembly Index value of 21. The genome contained 283.46 Mb (59.74%) repetitive sequences, and 29,554 protein-coding genes were predicted, of which 87.54% were functionally annotated in five databases. The high-quality genome assembly and annotation presented herein provide a valuable genomic resource that will expedite genomic and evolutionary studies of mangrove plants and facilitate the elucidation of molecular mechanisms underlying the salt- and water-logging-tolerance of mangrove plants.

Identifiants

DOI: 10.1038/s41597-024-04032-2 PMID: 39482322
pubmed: 39482322
doi: 10.1038/s41597-024-04032-2
pii: 10.1038/s41597-024-04032-2
doi:

Types de publication

Dataset Journal Article

Langues

eng

Sous-ensembles de citation

IM

Pagination

1187

Subventions

Organisme : National Natural Science Foundation of China (National Science Foundation of China)
ID : 32070222
Organisme : National Natural Science Foundation of China (National Science Foundation of China)
ID : 32170232
Organisme : National Natural Science Foundation of China (National Science Foundation of China)
ID : 32271613

Informations de copyright

© 2024. The Author(s).

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Auteurs

Miaomiao Shi (M)

State Key Laboratory of Plant Diversity and Specialty Crops/Guangdong Provincial Key Laboratory of Applied Botany/Key Laboratory of National Forestry and Grassland Administration on Plant Conservation and Utilization in Southern China, South China Botanical Garden, Chinese Academy of Sciences, Guangzhou, 510650, China.
South China National Botanical Garden, Guangzhou, 510650, China.

Yu Zhang (Y)

State Key Laboratory of Plant Diversity and Specialty Crops/Guangdong Provincial Key Laboratory of Applied Botany/Key Laboratory of National Forestry and Grassland Administration on Plant Conservation and Utilization in Southern China, South China Botanical Garden, Chinese Academy of Sciences, Guangzhou, 510650, China.
South China National Botanical Garden, Guangzhou, 510650, China.

Huiwen Huang (H)

State Key Laboratory of Plant Diversity and Specialty Crops/Guangdong Provincial Key Laboratory of Applied Botany/Key Laboratory of National Forestry and Grassland Administration on Plant Conservation and Utilization in Southern China, South China Botanical Garden, Chinese Academy of Sciences, Guangzhou, 510650, China.
South China National Botanical Garden, Guangzhou, 510650, China.

Shiran Gu (S)

State Key Laboratory of Plant Diversity and Specialty Crops/Guangdong Provincial Key Laboratory of Applied Botany/Key Laboratory of National Forestry and Grassland Administration on Plant Conservation and Utilization in Southern China, South China Botanical Garden, Chinese Academy of Sciences, Guangzhou, 510650, China.
South China National Botanical Garden, Guangzhou, 510650, China.

Xiangping Wang (X)

State Key Laboratory of Plant Diversity and Specialty Crops/Guangdong Provincial Key Laboratory of Applied Botany/Key Laboratory of National Forestry and Grassland Administration on Plant Conservation and Utilization in Southern China, South China Botanical Garden, Chinese Academy of Sciences, Guangzhou, 510650, China.
South China National Botanical Garden, Guangzhou, 510650, China.

Shijin Li (S)

State Key Laboratory of Plant Diversity and Specialty Crops/Guangdong Provincial Key Laboratory of Applied Botany/Key Laboratory of National Forestry and Grassland Administration on Plant Conservation and Utilization in Southern China, South China Botanical Garden, Chinese Academy of Sciences, Guangzhou, 510650, China. lisj@scbg.ac.cn.
South China National Botanical Garden, Guangzhou, 510650, China. lisj@scbg.ac.cn.

Zhongtao Zhao (Z)

State Key Laboratory of Plant Diversity and Specialty Crops/Guangdong Provincial Key Laboratory of Applied Botany/Key Laboratory of National Forestry and Grassland Administration on Plant Conservation and Utilization in Southern China, South China Botanical Garden, Chinese Academy of Sciences, Guangzhou, 510650, China. zhzht621@scbg.ac.cn.
South China National Botanical Garden, Guangzhou, 510650, China. zhzht621@scbg.ac.cn.

Tieyao Tu (T)

State Key Laboratory of Plant Diversity and Specialty Crops/Guangdong Provincial Key Laboratory of Applied Botany/Key Laboratory of National Forestry and Grassland Administration on Plant Conservation and Utilization in Southern China, South China Botanical Garden, Chinese Academy of Sciences, Guangzhou, 510650, China. tutieyao@scbg.ac.cn.
South China National Botanical Garden, Guangzhou, 510650, China. tutieyao@scbg.ac.cn.
ORCID: 0000-0001-7385-008X

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Classifications MeSH

questionsmedicales.fr › Phénomènes génétiques › Structures génétiques › Chromosomes › Chromosomes de plante › Chromosome-scale genome assembly of the...
questionsmedicales.fr › Phénomènes génétiques › Structures génétiques › Génome › Génome végétal › Chromosome-scale genome assembly of the...
questionsmedicales.fr › Sciences de l'information › Sources d'information › Services d'information › Documentation › Données de séquences moléculaires › Annotation de séquence moléculaire › Chromosome-scale genome assembly of the...
questionsmedicales.fr › Eucaryotes › Viridiplantae › Streptophyta › Embryophyta › Tracheobionta › Magnoliopsida › Rosanae › Malpighiales › Rhizophoraceae › Chromosome-scale genome assembly of the...
questionsmedicales.fr › Environnement et santé publique › Environnement › Écosystème › Zones humides › Chromosome-scale genome assembly of the...
questionsmedicales.fr › Eucaryotes › Viridiplantae › Streptophyta › Embryophyta › Tracheobionta › Magnoliopsida › Fabaceae › Dalbergia › Chromosome-scale genome assembly of the...