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Combined ATAC-seq,RNA-seq,and GWAS analysis reveals glycogen metabolism regulatory network in Jinjiang oyster(crassostrea ariakensis)

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Zoological Research 2024年第1期45卷 201-214页

作者： Biao Wu Xi Chen Jie Hu Zhen-Yuan Wang Yan Wang Da-You Xu Hao-Bing Guo Chang-Wei Shao Li-Qing Zhou Xiu-Jun Sun Tao Yu Xiao-Mei Wang Yan-Xin Zheng Guang-Yi Fan Zhi-Hong Liu State Key Laboratory of Mariculture Biobreeding and Sustainable Goods Yellow Sea Fisheries Research InstituteChinese Academy of Fishery SciencesQingdaoShandong 266071China Laboratory for Marine Fisheries Science and Food Production Processes Laoshan LaboratoryQingdaoShandong 266071China BGI-Qingdao BGI-ShenzhenQingdaoShandong 266426China National Demonstration Center for Experimental Fisheries Science Education Shanghai Ocean UniversityShanghai 201306China Changdao Enhancement and Experiment Station Chinese Academy of Fishery SciencesYantaiShandong 265800China State Key Laboratory of Agricultural Genomics BGI-ShenzhenShenzhenGuangdong 518083China

Glycogen serves as the principal energy reserve for metabolic processes in aquatic shellfish and substantially contributes to the flavor and quality of *** Jinjiang oyster(crassostrea ariakensis)is an economically and ecologically important species in *** the present study,RNA sequencing(RNA-seq)and assay for transposase-accessible chromatin using sequencing(ATAC-seq)were performed to investigate gene expression and chromatin accessibility variations in oysters with different glycogen *** identified 9483 differentially expressed genes(DEGs)and 7215 genes with significantly differential chromatin accessibility(DCAGs)were obtained,with an overlap of 2600 genes between ***,a significant proportion of these genes were enriched in pathways related to glycogen metabolism,including“Glycogen metabolic process”and“Starch and sucrose metabolism”.In addition,genome-wide association study(GWAS)identified 526 single nucleotide polymorphism(SNP)loci associated with glycogen *** loci corresponded to 241 genes,63 of which were categorized as both DEGs and *** study enriches basic research data and provides insights into the molecular mechanisms underlying the regulation of glycogen metabolism in ***.

关键词： crassostrea ariakensis Glycogen Transcriptome ATAC GWAS

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Shell characterization and effects on cavity volume of wild Jinjiang oyster crassostrea ariakensis in different estuaries of China

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Journal of Oceanology and Limnology 2023年第5期41卷 2020-2031页

作者： Qi YANG Ao LI Luping WANG Rihao CONG Jianming YANG Guofan ZHANG Wei WANG Li LI Shandong Key Lab of Applied Mycology College of Life SciencesQingdao Agricultural UniversityQingdao 266109China CAS and Shandong Province Key Laboratory of Experimental Marine Biology Center for Ocean Mega-ScienceInstitute of OceanologyChinese Academy of SciencesQingdao 266071China Laboratory for Marine Fisheries Science and Food Production Processes Pilot National Laboratory for Marine Science and Technology(Qingdao)Qingdao 266237China National and Local Joint Engineering Key Laboratory of Ecological Mariculture Institute of OceanologyChinese Academy of SciencesQingdao 266071China Laboratory for Marine Biology and Biotechnology Pilot National Laboratory for Marine Science and Technology(Qingdao)Qingdao 266237China

Jinjiang oyster crassostrea ariakensis,a species with economic and ecological value,is distributed along the estuaries and coasts of East *** the decline in natural resources,the conservation and aquaculture of this species is ***,studies characterizing their shell shape remain *** investigated the morphological differences in the shells of wild Jinjiang oysters from six populations(Qinzhou,Shanghai,Nantong,Qingdao,and Binzhou hard or muddy bottom)along the coast of *** color of the shell and adductor muscle scar showed associations with temperature gradient along its geographical *** shape was defined by shell height to shell length ratio,and the ratio varies among geographic locations of the *** were found nearly round(Qinzhou and Nantong populations),oval(Qingdao and Binzhou populations),or water-droplet-shaped(Shanghai population).Binzhou populations living on muddy substrates are more elongated than those on hard *** addition,we developed a method to measure the cavity volume in *** and path analysis showed that shell height significantly influenced cavity *** synergistic effect of the two factors(the height,length,and width of the shell in pairs)on the cavity volume resulted in differences between northern and southern groups:samples from the southern group(Qinzhou and Shanghai)showed correlation between shell height and shell width,while those from the northern group(Nantong,Qingdao,and Binzhou)showed correlation between shell height and shell *** populations showed significant correlation between shell height and cavity height,and shell length and cavity length,while the correlation between shell width and cavity width was minimal,which may have been resulted from uneven shell *** linear equation for shell height and cavity volume under different ratios of shell height to length was *** this study,we determined that shell height has the most inf

关键词： shell shape cavity volume correlation analysis path analysis crassostrea ariakensis

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Combined effects of water temperature and copper ion concentration on catalase activity in crassostrea ariakensis

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Chinese Journal of Oceanology and Limnology 2015年第4期33卷 905-912页

作者：王辉杨洪帅刘加慧李艳红刘志刚 School of Life Sciences of Huaiyin Normal University Fisheries College of Guangdong Ocean University

A central composite experimental design and response surface method were used to investigate the combined effects of water temperature(18–34℃) and copper ion concentration(0.1–1.5 mg/L) on the catalase(CAT) activity in the digestive gland of C rassostrea ariakensis. The results showed that the linear effects of temperature were significant(P 0.05), and the quadratic effects of copper ion concentration were significant(P 0.05), and the effect of temperature was greater than that of copper ion concentration. A model equation of CAT enzyme activity in the digestive gland of C. ariakensis toward the two factors of interest was established, with R 2, Adj. R 2 and Pred. R 2 values as high as 0.943 7, 0.887 3 and 0.838 5, respectively. These findings suggested that the goodness of fit to experimental data and predictive capability of the model were satisfactory, and could be practically applied for prediction under the conditions of the study. Overall, the results suggest that the simultaneous variation of temperature and copper ion concentration alters the activity of the antioxidant enzyme CAT by modulating active oxygen species metabolism, which may be utilized as a biomarker to detect the effects of copper pollution.

关键词： crassostrea ariakensis catalase temperature copper ion concentration combined effects

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Chromosome Segregation in Fertilized Eggs from Triploid Suminoe Oysters,crassostrea ariakensis, following Inhibition of Polar Body 1

Chromosome Segregation in Fertilized Eggs from Triploid Sumi...

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中国动物学会、中国海洋湖沼学会贝类学分会第八次会员代表大会暨第十三次全国贝类学术讨论会

作者： ALLEN Standish K．, Aquaculture Genetics & Breeding Technology Center College of William and MaryVirginia Institute of Marine ScienceGloucester PointVirginia 23062USA Jr

Chromosomes segregation in fertilized eggs from tdploid Suminoe oysters,crassostrea ariakensis,following inhibition of the first polar body(PB1),was studied with acetic orcein staining *** from triploids were fertilized with sperm from *** block the release of PB1,fertilized eggs were treated with 0.5 mg/l of cytochalasin B(CB).The sequential events of meioses observed are *** typical patterns of chromosome segregation were identified,i.e.,"tripolar segregation"(57.3%),"united bipolar segregation"(8.7%)during the second meiosis of fertilized *** behavior of chromosomes in the remaining 34% of developing eggs seemed disorganized,but appeared to be variants of the *** asynchrony of meiosis was remarkable in developing *** was notable that only 18% of the total eggs in CB-treated groups resumed *** seemed clear that"united bipolar segregation"would give rise to tetraploids.

关键词： crassostrea ariakensis meiosis united bipolar segregation tripolar segregation

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Interspecific Hybridization Between crassostrea angulata and C. ariakensis

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Journal of Ocean University of China 2015年第4期14卷 710-716页

作者： YAO Tuo ZHANG Yuehuan YAN Xiwu WANG Zhaoping LI Dongchun SU Jiaqi YU Ruihai Fisheries College Ocean University of China Key Laboratory of Tropical Marine Bio-resources and Ecology South China Sea Institute of Oceanology Chinese Academy of Sciences Engineering Research Center of Shellfish Culture and Breeding of Liaoning Province College of Fisheries and Life Science Dalian Ocean University

lnterspecific hybridization can generate heterosis, which is proven to be a useful tool in selective breeding programs for oyster culture. crassostrea angulata and C. ariakensis are two important economic shellfish species in China. We conducted 2 × 2 reciprocal crosses to determine whether these two species can cross-fertilize and their hybrids can hatch, survive and perform hetero- sis. Fertilization was found symmetrical without delay. The rate of fertilization success of C. angulata ♀× C. ariakensis ♂ was lower than that of C. ariakensis ♀ x C. angulata ♂, and the success rate of both hybridizations was lower than that of two intraspecific crosses each. During the planktonic period, survival rate of the progeny was lower in the hybrid crosses than in the intraspecific crosses. On day 360, mean shell height of the progeny of C. angulata ♀ x C. angulata ♂ was highest, which was followed by that of C. angulata ♀ × C. ariakensis ♂, C. ariakensis ♀x C. ariakensis ♂ and C. ariakensis ♀× C. angulata ♂ in a descending order. Mor- phology of adults produced by the hybrid crosses was similar to that of C. angulata. Both hybrids underwent normal gonad devel- opment and produced mature gametes in the mating season. This study provided new insights into the quantitative traits in interspeci- fic crosses of crassostrea species, thus being of guidance value for selective breeding of oyster.

关键词： crassostrea angulata crassostrea ariakensis interspecific hybridization gonad development heterosis

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中国北方沿海常见牡蛎的分类研究

中国北方沿海常见牡蛎的分类研究

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中国动物学会、中国海洋湖沼学会贝类学分会第八次会员代表大会暨第十三次全国贝类学术讨论会

作者：王海艳郭希明刘晓张素萍徐凤山张国范中国科学院海洋研究所 Haskin Shellfish Research Laboratory Rutgers UniversityPort NorrisNJ 08349USA

牡蛎是我国重要的养殖贝类,已有悠久的养殖历史,由于其外部形态在不同环境中变异很大,因此牡蛎的分类问题一直存在很多争议。其中关于我国北方沿海潮间带及潮下带地区常见牡蛎的分类问题就是一个争论的焦点。本文主要对长江以北典型海... 详细信息

牡蛎是我国重要的养殖贝类,已有悠久的养殖历史,由于其外部形态在不同环境中变异很大,因此牡蛎的分类问题一直存在很多争议。其中关于我国北方沿海潮间带及潮下带地区常见牡蛎的分类问题就是一个争论的焦点。本文主要对长江以北典型海区常见牡蛎的分类地位进行了研究。在形态分类的基础上,用分子生物学方法对其核基因(28SrRNA)和线粒体基因(16SrRNA,COI)部分序列进行测定,并与 Genbank 存在的序列进行聚类分析,结果表明潮间带地区牡蛎与 ***(Thunberg,1793) 聚为一支,黄河口区牡蛎与 ***(Wakiya,1929)聚为一支。通过进一步形态学比较分析认为,我国北方沿海比较常见的牡蛎有二种:一种为生长在潮间带礁石上的长牡蛎(***),从而纠正了以前误认为这种牡蛎为僧帽牡蛎(Ostrea cucullata Born,1778)及褶牡蛎(Ostrea plicatula Gmelin,1791)的说法;另一种为分布在黄河口区的近江牡蛎 ***。

关键词：牡蛎分类 COI 16S rRNA 28S rRNA crassostrea gigas crassostrea ariakensis Ostrea plicatula Ostrea cucullata

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