Chromosome-level genome assembly of Daemonorops jenkinsiana
Dataset type: Genomic, Transcriptomic
Data released on July 18, 2018
Zhao H; Wang S; Wang J; Chen C; Hao S; Chen L; Fei B; Han K; Li R; Shi C; Sun H; Wang S; Xu H; Yang K; Xu X; Shan X; Shi J; Feng A; Fan G; Liu X; Zhao S; Zhang C; Gao Q; Gao Z; Jiang Z (2018): Chromosome-level genome assembly of Daemonorops jenkinsiana GigaScience Database. http://dx.doi.org/10.5524/101053
Daemonorops jenkinsiana is a rattan palm in the family Arecaceae, found primarily in the tropics and subtropics of southeastern Asia including southern China. It is one of the most significant material sources for the rattan industry with their stems being harvested for their cores, which is used for everything from canes to furniture.
The lack of any reference genome sequences is a major obstacle for basic and applied biology of rattan. Here we provide the chromosome-level genome assembly of D. jenkinsiana using the Illumina, PacBio, and Hi-C sequencing data. A total of ~682 Gb of raw data covering the predicted genome length of ~1.61 Gb with ~ 426× read depth.
The de novo genome assembly of ~1.58 Gb was generated with scaffold N50 of ~119 Mb and 53,342 intact predicted protein-coding gene models. BUSCO evaluation demonstrated a genome completeness of 91.3%.
These essential data will not only provide a fundamental resource of functional genomics particularly in promoting germplasm utilization for breeding improved rattan material property, but also will serve as a reference genome for performing comparative studies between and among different species.
Additional details
Read the peer-reviewed publication(s):
(PubMed: 30101322)
(PubMed: 30101322)
Related datasets:
doi:10.5524/101053 IsSupplementTo doi:10.5524/100480
Accessions (data generated as part of this study):
BioProject:
PRJEB24829
Projects:
Sample ID | Taxonomic ID | Common Name | Genbank Name | Scientific Name | Sample Attributes |
---|---|---|---|---|---|
Djen-XB-1-1A | 1510057 | Daemonorops jenkinsiana | Description:DNA was extracted from young leaves at... Alternative accession-BioSample:SAMEA104569509 Geographic location (country and/or sea,region):Gu... ... + | ||
Djen-XB-1-2A | 1510057 | Daemonorops jenkinsiana | Description:RNA was extracted from the distal cirr... Geographic location (country and/or sea,region):Gu... Tissue:distal cirrus ... + | ||
Djen-XB-1-3A | 1510057 | Daemonorops jenkinsiana | Description:RNA was extracted from the distal cirr... Geographic location (country and/or sea,region):Gu... Tissue:distal cirrus ... + | ||
Djen-XB-1-4A | 1510057 | Daemonorops jenkinsiana | Description:RNA was extracted from the distal cirr... Geographic location (country and/or sea,region):Gu... Tissue:distal cirrus ... + | ||
Djen-XB-2-1A | 1510057 | Daemonorops jenkinsiana | Description:RNA was extracted from the distal cirr... Geographic location (country and/or sea,region):Gu... Tissue:distal cirrus ... + | ||
Djen-XB-2-2A | 1510057 | Daemonorops jenkinsiana | Description:RNA was extracted from the distal cirr... Geographic location (country and/or sea,region):Gu... Tissue:distal cirrus ... + | ||
Djen-XB-2-3A | 1510057 | Daemonorops jenkinsiana | Description:RNA was extracted from the distal cirr... Geographic location (country and/or sea,region):Gu... Tissue:distal cirrus ... + | ||
Djen-XB-2-4A | 1510057 | Daemonorops jenkinsiana | Description:RNA was extracted from the distal cirr... Geographic location (country and/or sea,region):Gu... Tissue:distal cirrus ... + | ||
Djen-XB-3-1A | 1510057 | Daemonorops jenkinsiana | Description:RNA was extracted from the distal cirr... Geographic location (country and/or sea,region):Gu... Tissue:distal cirrus ... + | ||
Djen-XB-3-2A | 1510057 | Daemonorops jenkinsiana | Description:RNA was extracted from the distal cirr... Geographic location (country and/or sea,region):Gu... Tissue:distal cirrus ... + |