title: Discovery of a strongly-interrelated gene network in corals under constant darkness by correlation analysis after wavelet transform on complex network model.
abstract: Coral reefs occupy a relatively small portion of sea area, yet serve as a crucial source of biodiversity by establishing harmonious ecosystems with marine plants and animals. Previous researches mainly focused on screening several key genes induced by stress. Here we proposed a novel method--correlation analysis after wavelet transform of complex network model, to explore the effect of light on gene expression in the coral Acropora millepora based on microarray data. In this method, wavelet transform and the conception of complex network were adopted, and 50 key genes with large differences were finally captured, including both annotated genes and novel genes without accurate annotation. These results shed light on our understanding of coral's response toward light changes and the genome-wide interaction among genes under the control of biorhythm, and hence help us to better protect the coral reef ecosystems. Further studies are needed to explore how functional connections are related to structural connections, and how connectivity arises from the interactions within and between different systems. The method introduced in this study for analyzing microarray data will allow researchers to explore genome-wide interaction network with their own dataset and understand the relevant biological processes.
authors.affiliation: Ocean University of China, Qingdao, Shandong, People's Republic of China.
authors.forename: Longlong
authors.initials: L
authors.lastname: Liu
authors.affiliation: Ocean University of China, Qingdao, Shandong, People's Republic of China.
authors.forename: Jieqiong
authors.initials: J
authors.lastname: Qu
authors.affiliation: Ocean University of China, Qingdao, Shandong, People's Republic of China.
authors.forename: Xilong
authors.initials: X
authors.lastname: Zhou
authors.affiliation: Ocean University of China, Qingdao, Shandong, People's Republic of China.
authors.forename: Xuefeng
authors.initials: X
authors.lastname: Liu
authors.affiliation: College of Pharmacy, Shandong University of Traditional Chinese Medicine, Jinan, People's Republic of China.
authors.forename: Zhaobao
authors.initials: Z
authors.lastname: Zhang
authors.affiliation: CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing, People's Republic of China.
authors.forename: Xumin
authors.initials: X
authors.lastname: Wang
authors.affiliation: Ocean University of China, Qingdao, Shandong, People's Republic of China.
authors.forename: Tao
authors.initials: T
authors.lastname: Liu
authors.affiliation: CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing, People's Republic of China.
authors.forename: Guiming
authors.initials: G
authors.lastname: Liu
mesh_terms: D000818:Animals; D037421:Anthozoa / Q000235:genetics*; D015342:DNA Probes / Q000378:metabolism; D003624:Darkness; D020869:Gene Expression Profiling; D005786:Gene Expression Regulation; D053263:Gene Regulatory Networks; D008957:Models, Genetic; D058977:Molecular Sequence Annotation; D013223:Statistics as Topic; D058067:Wavelet Analysis
chemical_list: D015342:DNA Probes