De novo genome assembly of the red silk cotton tree (Bombax ceiba)

GigaScience
Yong GaoLizhou Tang

Abstract

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. 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.

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Citations

Nov 27, 2018·Journal of Integrative Plant Biology·Justin L ConoverDavid A Baum
Mar 12, 2020·Molecular Ecology Resources·Wenyan NongJerome H L Hui
Oct 31, 2019·Nucleic Acids Research·Dehe WangYu Zhou
Apr 2, 2021·Horticulture Research·Tangchun ZhengQixiang Zhang
Jan 12, 2021·Annual Review of Plant Biology·Gai HuangYu-Xian Zhu
Sep 30, 2021·The Plant Journal : for Cell and Molecular Biology·Wei-Hong SunShuang-Quan Zou

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Datasets Mentioned

BETA
PRJNA215141
PRJNA400310
PRJNA429932

Methods Mentioned

BETA
PCR
RNA-seq

Key Resources (RRID) Mentioned

SCR_012091
SCR_010910
SCR_015008
SCR_012954
SCR_015027
SCR_010835
SCR_015054
SCR_008417
SCR_002654
SCR_005829

Software Mentioned

SE
RepeatModeler
Blastp
TransposonPSI
MUSCLE
MISA
Computational Analysis of Gene Family Evolution
Codeml
RAxML
EVidenceModeler

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