| ZHANG Libin,FENG Qiming,SUN Lina,FANG Yan,XU Dongxue,ZHANG Tao,YANG Hongsheng. 2018. Differential gene expression in the body wall of the sea cucumber (Apostichopus japonicus) under strong lighting and dark conditions. Acta Oceanologica Sinica, 37(5):54－66 |
| Differential gene expression in the body wall of the sea cucumber (Apostichopus japonicus) under strong lighting and dark conditions |
| 强光照和黑暗条件下刺参体壁的基因表达差异 |
| Received:January 25, 2017 Revised:March 09, 2017 |
| DOI：10.1007/s13131-017-1101-4 |
| Key words:sea cucumber Apostichopus japonicus gene expression dark light body wall |
| 中文关键词: 海参 刺参 基因表达 黑暗 光照 体壁 |
| 基金项目:The National Natural Science Foundation of China under contract No. 41676136; the Strategic Priority Research Program of the Chinese Academy of Sciences under contract No. XDA11020703; the Science and Technology Major Project of Shandong Province (Industry Transformation and Upgrading) under contract No. 2015ZDZX05002. |
| Author Name | Affiliation | E-mail | | ZHANG Libin | CAS Key laboratory of Marine Ecology and Environmental Sciences, Institute of Oceanology, Chinese Academy of Sciences, Qingdao 266071, China
Laboratory for Marine Ecology and Environmental Science, Qingdao National Laboratory for Marine Science and Technology, Qingdao 266071, China | | | FENG Qiming | CAS Key laboratory of Marine Ecology and Environmental Sciences, Institute of Oceanology, Chinese Academy of Sciences, Qingdao 266071, China
University of Chinese Academy of Sciences, Beijing 100049, China | | | SUN Lina | CAS Key laboratory of Marine Ecology and Environmental Sciences, Institute of Oceanology, Chinese Academy of Sciences, Qingdao 266071, China
Laboratory for Marine Ecology and Environmental Science, Qingdao National Laboratory for Marine Science and Technology, Qingdao 266071, China | | | FANG Yan | School of Agriculture, Ludong University, Yantai 264025, China | | | XU Dongxue | College of Marine Science and Engineering, Qingdao Agricultural University, Qingdao 266109, China | | | ZHANG Tao | CAS Key laboratory of Marine Ecology and Environmental Sciences, Institute of Oceanology, Chinese Academy of Sciences, Qingdao 266071, China
Laboratory for Marine Ecology and Environmental Science, Qingdao National Laboratory for Marine Science and Technology, Qingdao 266071, China | | | YANG Hongsheng | CAS Key laboratory of Marine Ecology and Environmental Sciences, Institute of Oceanology, Chinese Academy of Sciences, Qingdao 266071, China
Laboratory for Marine Ecology and Environmental Science, Qingdao National Laboratory for Marine Science and Technology, Qingdao 266071, China | hshyang@qdio.ac.cn |
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| Abstract: |
| Sea cucumber, Apostichopus japonicus is very sensitive to light changes. It is important to study the influence of light on the molecular response of A. japonicus. In this study, RNA-seq provided a general overview of the gene expression profiles of the body walls of A. japonicus exposed to strong light ("light"), normal light ("control") and fully dark ("dark") environment. In the comparisons of "control" vs. "dark", "control" vs. "light" and "dark" vs. "light", 1 161, 113 and 1 705 differentially expressed genes (DEGs) were identified following the criteria of|log2 ratio| ≥ 1 and FDR ≤ 0.001, respectively. Gene ontology analysis showed that "cellular process" and "binding" enriched the most DEGs in the category of "biological process" and "molecular function", while "cell" and "cell part" enriched the most DEGs in the category of "cellular component". And the DEGs were mapped to 214, 41 and 229 pathways in the Kyoto Encyclopedia of Genes and Genomes database, and 51, 2 and 57 pathways were significantly enriched, respectively. Light-specific DEGs identified in this study will be important targets for further investigation to establish the biochemical mechanisms involved in the adaption of this sea cucumber to changes in the level of environmental light. |
| 中文摘要: |
| 参对光照变化非常敏感，研究刺参对光照的分子响应非常重要。本研究应用RNA测序获取了刺参暴露于强光（“强光”）、正常光照（“对照”）和完全黑暗（“黑暗”）环境下体壁的基因表达谱情况，通过“对照”与“黑暗”，“对照”与“强光”和“黑暗”与“强光”的比较，在|log2 ratio|≥1和FDR≤0.001的标准下分别发现了1161、113和1705个差异表达基因（DEGs）。基因本体分析表明，“cellular process”和“binding”在“生物过程”和“分子功能”类别中的DEGs富集最多，而“cell”和“cell part”在“细胞组分”类别中的DEGs富集最多。将DEGs与Kyoto Encyclopedia基因和基因组数据库上的于214、41和229条通路进行比对，发现了51、2和57条通路分别显著富集。本研究发现的光特异性DEGs可作为深入研究刺参对光照变化的生化适应机制的重要目标基因。 |
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