Platygyra carnosus Veron, 2000 is a dominant species of structure forming coral in southern China. This species is under the threat of various environmental stressors such as heat and UV exposure during low tides, sedimentation, bioerosion by sea urchin, and tissue growth anomaly (i.e. "tumor formation").
The aim of this project was to produce a large database of expressed gene sequences in Platygyra carnosus. Healthy and tumorous tissue samples were collected from two locations in Hong Kong. RNA was extracted from each sample, pooled, and reversed transcribed to generate a cDNA library. The cDNA library was then sequenced using Illumina HiSeqTM 2000.
De novo assembly of the transcriptome sequences resulted in 162,468 unigenes with an average length of 606 bp. These unigenes were further annotated by NCBI, GO, and KEGG. The data were organized to form PcarnBase, a searchable database with a user-friendly interface, which provides access to sequence data and functional annotations (GO and KEGG). PcarnBase also allows for search of homolog sequences through BLAST.
More details of the research background, methods and results can be found in Sun et al. (2013).
Lam K, Shin PKS, Hodgson P (2007) Severe bioerosion caused by an outbreak of corallivorous Drupella and Diadema at Hoi Ha Wan Marine Park, Hong Kong. Coral Reefs 26: 893
Chiu JMY, Li S, Li A, Po B, Zhang R, Shin PKS, Qiu JW (2012) Bacteria associated with skeletal tissue growth anomalies in the coral Platygyra carnosus. FEMS Microbiology Ecology 79:380-391
Dumont C, Lay DCC, Astudillo JC, Fong KF, Chak STC, Qiu JW (2013) Coral bioerosion by the sea urchin Diadema setosum in Hong Kong: Susceptibility of different coral species. Journal of Experimental Marine Biology and Ecology 441:71-79
Sun J, Chen Q, Lun JCY, Xu J, Qiu J-W (2013) PcarnBase: development of a transcriptomic database for the brain coral Platygyra carnosus. Marine Biotechnology 15:244-251
|Dr. Jian-Wen Qiu||Dr. Jianliang Xu|
|Department of Biology||Department of Computer Science|
|Hong Kong Baptist University||Hong Kong Baptist University|
|Email: qiujwhkbu.edu.hk||Email: xujlhkbu.edu.hk|
Agriculture, Fisheries and Conservation Department, Hong Kong SAR Government, China