Genome assembly of the milky mangrove Excoecaria agallocha

Author:

,Hui Jerome H. L.1ORCID,Chan Ting Fung2ORCID,Chan Leo Lai3ORCID,Cheung Siu Gin4ORCID,Cheang Chi Chiu56ORCID,Fang James Kar-Hei7ORCID,Gaitan-Espitia Juan Diego8ORCID,Lau Stanley Chun Kwan9ORCID,Sung Yik Hei1011ORCID,Wong Chris Kong Chu12ORCID,Yip Kevin Yuk-Lap1314ORCID,Wei Yingying15ORCID,Law Sean Tsz Sum1ORCID,So Wai Lok1ORCID,Nong Wenyan1ORCID,Lau David Tai Wai16ORCID,Lee Shing Yip17ORCID,Yip Ho Yin1ORCID

Affiliation:

1. School of Life Sciences, Simon F.S. Li Marine Science Laboratory, State Key Laboratory of Agrobiotechnology, Institute of Environment, Energy and Sustainability, The Chinese University of Hong Kong, Hong Kong, China

2. School of Life Sciences, State Key Laboratory of Agrobiotechnology, The Chinese University of Hong Kong, Hong Kong SAR, China

3. State Key Laboratory of Marine Pollution and Department of Biomedical Sciences, City University of Hong Kong, Hong Kong SAR, China

4. State Key Laboratory of Marine Pollution and Department of Chemistry, City University of Hong Kong, Hong Kong SAR, China

5. Department of Science and Environmental Studies, The Education University of Hong Kong, Hong Kong SAR, China

6. EcoEdu PEI, Charlottetown, PE, C1A 4B7, Canada

7. Department of Food Science and Nutrition, Research Institute for Future Food, and State Key Laboratory of Marine Pollution, The Hong Kong Polytechnic University, Hong Kong SAR, China

8. The Swire Institute of Marine Science and School of Biological Sciences, The University of Hong Kong, Hong Kong SAR, China

9. Department of Ocean Science, The Hong Kong University of Science and Technology, Hong Kong SAR, China

10. Science Unit, Lingnan University, Hong Kong SAR, China

11. School of Allied Health Sciences, University of Suffolk, Ipswich, IP4 1QJ, UK

12. Croucher Institute for Environmental Sciences, and Department of Biology, Hong Kong Baptist University, Hong Kong SAR, China

13. Department of Computer Science and Engineering, The Chinese University of Hong Kong, Hong Kong SAR, China

14. Sanford Burnham Prebys Medical Discovery Institute, La Jolla, CA, USA

15. Department of Statistics, The Chinese University of Hong Kong, Hong Kong SAR, China

16. Shiu-Ying Hu Herbarium, School of Life Sciences, The Chinese University of Hong Kong, Hong Kong SAR, China

17. Simon F.S. Li Marine Science Laboratory, The Chinese University of Hong Kong, Hong Kong SAR, China

Abstract

The milky mangrove Excoecaria agallocha is a latex-secreting mangrove that are distributed in tropical and subtropical regions. While its poisonous latex is regarded as a potential source of phytochemicals for biomedical applications, the genomic resources of E. agallocha remains limited. Here, we present a chromosomal level genome of E. agallocha, assembled from the combination of PacBio long-read sequencing and Omni-C data. The resulting assembly size is 1,332.45 Mb and has high contiguity and completeness with a scaffold N50 of 58.9 Mb and a BUSCO score of 98.4%, with 86.08% of sequences anchored to 18 pseudomolecules. 73,740 protein-coding genes were also predicted. The milky mangrove genome provides a useful resource for further understanding the biosynthesis of phytochemical compounds in E. agallocha.

Funder

Hong Kong Research Grant Council Collaborative Research Fund

CUHK Strategic Seed Funding for Collaborative Research Scheme

CUHK Group Research Scheme

Publisher

GigaScience Press

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