Supporting data for "De novo genome assembly of the red silk cotton tree (Bombax ceiba)".

Dataset type: Genomic, Transcriptomic
Data released on May 04, 2018

Gao Y; Wang H; Liu C; Chu H; Dai D; Song S; Yu L; Han L; Fu Y; Tian B; Tang L (2018): Supporting data for "De novo genome assembly of the red silk cotton tree (Bombax ceiba)". GigaScience Database. http://dx.doi.org/10.5524/100445

DOI10.5524/100445

Bombax ceiba L. (the red silk cotton tree) is a large deciduous tree that is distributed in tropical and sub-tropical Asia, and northern Australia. It has great economic and ecological importance, with several applications in industry and traditional medicine in many Asian countries. To facilitate the further utilization of this plant resource, we present here the draft genome sequence for B. ceiba.
We assembled a relatively intact genome of B. ceiba by using PacBio single-molecule sequencing and BioNano optical mapping technologies. The final draft genome is approximately 895 Mb long, with contig and scaffold N50 sizes of 1.0 Mb and 2.06 Mb, respectively.
The high-quality draft genome assembly of B. ceiba will be a valuable resource enabling further genetic improvement and more effective use of this tree species.

Additional details

Read the peer-reviewed publication(s):

Gao, Y., Wang, H., Liu, C., Chu, H., Dai, D., Song, S., … Tang, L. (2018). De novo genome assembly of the red silk cotton tree (Bombax ceiba). GigaScience, 7(5). doi:10.1093/gigascience/giy051

Accessions (data generated as part of this study):

PROJECT: PRJNA429932





Sample IDTaxonomic IDCommon NameGenbank NameScientific NameSample Attributes
BC3_145325red silk-cotton treeIndian kapokBombax ceiba Description:DNA from a leaf of Bombax ceiba isolat...
Alternative names:Indian kapok
Analyte type:DNA
...
+
BC4_145325red silk-cotton treeIndian kapokBombax ceiba Description:RNA from the calyx of Bombax ceiba iso...
Alternative names:Indian kapok
Analyte type:RNA
...
+
BC4_245325red silk-cotton treeIndian kapokBombax ceiba Description:RNA from the petal of Bombax ceiba iso...
Alternative names:Indian kapok
Analyte type:RNA
...
+
BC4_345325red silk-cotton treeIndian kapokBombax ceiba Description:RNA from the stamen of Bombax ceiba is...
Alternative names:Indian kapok
Analyte type:RNA
...
+
BC4_445325red silk-cotton treeIndian kapokBombax ceiba Description:RNA from the pistil of Bombax ceiba is...
Alternative names:Indian kapok
Analyte type:RNA
...
+
BC4_545325red silk-cotton treeIndian kapokBombax ceiba Description:RNA from the bark of Bombax ceiba isol...
Alternative names:Indian kapok
Analyte type:RNA
...
+
BC5_145325red silk-cotton treeIndian kapokBombax ceiba Description:RNA from the calxy of Bombax ceiba iso...
Alternative names:Indian kapok
Analyte type:RNA
...
+
BC6_145325red silk-cotton treeIndian kapokBombax ceiba Description:RNA from the bud of Bombax ceiba isola...
Alternative names:Indian kapok
Analyte type:RNA
...
+
BC6_345325red silk-cotton treeIndian kapokBombax ceiba Description:RNA from the root of Bombax ceiba isol...
Alternative names:Indian kapok
Analyte type:RNA
...
+
Displaying 1-9 of 9 Sample(s).




File NameSample IDData TypeFile FormatSizeRelease Date 
Sequence assemblyUNKNOWN4.93 MB2018-04-25
annotationUNKNOWN72 MB2018-04-25
Phylogenetic treeUNKNOWN3.58 KB2018-04-25
mixed archiveTAR32.13 KB2018-04-25
Coding SequenceFASTA53.99 MB2018-04-25
annotationFASTA20.4 MB2018-04-25
protein sequenceFASTA20.45 MB2018-04-25
Sequence assemblyFASTA864 MB2018-04-25
annotationGFF1.33 MB2018-04-25
annotationGFF395.56 KB2018-04-25
Displaying 1-10 of 22 File(s).
Funding body Awardee Award ID Comments
National Natural Science Foundation of China L Tang 31460561
National Natural Science Foundation of China Y Gao 31760103
National Natural Science Foundation of China H Wang 31460179
National Natural Science Foundation of China L Yu 31660680
Applied Basic Research Key Project of Yunnan Y Gao 2017FD145
Date Action
May 4, 2018 Dataset publish
July 9, 2018 Manuscript Link added : 10.1093/gigascience/giy051