Abstract
Background Bombax ceiba L. (the red silk cotton tree) is a large deciduous tree that is distributed in tropical and sub-tropical Asia as well as northern Australia. It has great economic and ecological importance, with several applications in industry and traditional medicine in many Asian countries. To facilitate further utilization of this plant resource, we present here the draft genome sequence for B. ceiba.FindingsWe 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.ConclusionsThe 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.
Highlights
Bombax ceiba Linn. (Malvaceae), commonly known as the cotton tree or red silk cotton tree, is a spectacular flowering tree with a height of up to 40 meters (Fig. 1a) that is found in tropical and sub-tropical Asia, and northern Australia [1]
To facilitate the further utilization of this plant resource, we present here the draft genome sequence for B. ceiba
Five hits from four non-plant species (Psyllidae sp., Trioza eugeniae, Diptacus sp., and Dichorragia nesimachus) were detected, which suggested there was no potential contamination from non-plant species in the genome of Bombax ceiba
Summary
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. Order of Authors Secondary Information: Response to Reviewers: Dear editor and reviewers, The manuscript "De novo genome assembly of the red silk cotton tree (Bombax ceiba)" (GIGA-D-18-00045R1) has been carefully revised according to the reviewers’ suggestion. We concluded that the highly heterozygous genome of B. ceiba might be the main reason why there were ~100 Mb differences between the estimated genome size and the final assembly. Answer: Approximately 64.3 Gb (2023 individual maps) out of 160 Gb BioNano clean data could be mapped to the Pacbio assembly, and the average molecule coverage depth of the genome map was 27 × (Please check line 106-108 in the revised manuscript). BspQI enzyme in the BioNano mapping procedure This information has been added to the revised manuscript. Have you included the information requested as detailed in our Minimum Standards Reporting Checklist?
Sign-in/Register to view highlights & summary Talk to us
Join us for a 30 min session where you can share your feedback and ask us any queries you have
Schedule a callDisclaimer: All third-party content on this website/platform is and will remain the property of their respective owners and is provided on "as is" basis without any warranties, express or implied. Use of third-party content does not indicate any affiliation, sponsorship with or endorsement by them. Any references to third-party content is to identify the corresponding services and shall be considered fair use under The CopyrightLaw.
