The Kinome of Pacific Oyster Crassostrea gigas, Its Expression during Development and in Response to Environmental Factors

By Guofan Zhang, X. Fang, Ximing Guo, Li Li, Ruibang Luo, Fei Xu, Pengcheng Yang, Linlin Zhang, Xiao-Tong Wang, Haigang Qi and 75 more. PLoS ONE, 2016

1,943 citations recorded by the source corpus.

Oysters play an important role in estuarine and coastal marine habitats, where the majority of humans live. In these ecosystems, environmental degradation is substantial, and oysters must cope with highly dynamic and stressful environmental constraints during their lives in the intertidal zone. The availability of the genome sequence of the Pacific oyster Crassostrea gigas represents a unique opportunity for a comprehensive assessment of the signal transduction pathways that the species has developed to deal with this unique habitat. We performed an in silico analysis to identify, annotate and classify protein kinases in C. gigas, according to their kinase domain taxonomy classification, and compared with kinome already described in other animal species. The C. gigas kinome consists of 371 protein kinases, making it closely related to the sea urchin kinome, which has 353 protein kinases. The absence of gene redundancy in some groups of the C. gigas kinome may simplify functional studies of protein kinases. Through data mining of transcriptomes in C. gigas, we identified part of the kinome which may be central during development and may play a role in response to various environmental factors. Overall, this work contributes to a better understanding of key sensing pathways that may be central for adaptation to a highly dynamic marine environment.

Subfields: Biomaterials, Global and Planetary Change, Molecular Biology

View Paper: https://www.semanticscholar.org/paper/addfd63b5d441175bf86a6e1a23ccbd23bf4cabb

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Citations in the corpus

Applications of next-generation sequencing to the study of biological invasions (2015, background): “The importance of studying gene expression variation can be best appreciated through the relatively large effects brought about by expression changes in just one or a few loci or over very short timeframes (Fisher and Oleksiak, 2007; Zhang et al., 2012).”
Recent advances of genome mapping and marker‐assisted selection in aquaculture (2013, background): “Atlantic cod, Gadus morhua, Gadidae and Pacific oyster Crassostrea gigas, Ostreidae) have already been published (Star et al. 2011; Zhang et al. 2012).”
A chromosome-level genome assembly for the Pacific oyster Crassostrea gigas (2020, neutral): “gigas [15, 33], the DNA content of the Pacific”
Reference sequence (RefSeq) database at NCBI: current status, taxonomic expansion, and functional annotation (2015, background): “Other invertebrates including Apis mellifera , Bombyx mori and Crassostrea gigas have significant commercial value (36–38).”