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First record of abnormal body coloration in a rockfish Sebastes koreanus(Scorpaenoidei:Sebastidae)from coastal water of China based on morphological characteristics and DNA barcoding

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Journal of Oceanology and Limnology 2024年第2期42卷 640-646页

作者： Ang LI Huan WANG Changting AN Shufang LIU yellow sea Fisheries research institute Chinese Academy of Fishery SciencesQingdao 266071China Laboratory for Marine Fisheries Science and Food Production Processes Laoshan LaboratoryQingdao 266071China

The first record of abnormal body coloration in Sebastes koreanus Kim and Lee,1994,from the yellow sea of China,was documented based on morphological characteristics and DNA *** two rockfish specimens were collected from the coastal waters of Qingdao,China,and the whole body and all fins of them were *** the two red-colored rockfish,there were tiny deep red spots on each fin,2 red radial stripes behind and below the eyes and 1 large deep red blotch on the opercula,while the similar stripe and spot patterns are also present in the *** specimens with normal body *** countable characteristics of the two specimens are in the range of the morphometry of *** further clarify the species identity and taxonomic status of the two specimens,DNA barcode analysis was carried *** genetic distance between the red-colored rockfish and *** was 0,and the minimum net genetic distances between the red-colored rockfish and other Sebastes species except for *** were 3.0%,which exceeds the threshold of species *** phylogenetic analysis showed that the DNA barcoding sequences of the two red-colored rockfish clustered with the *** *** above results of DNA barcode analysis also support that the two red-colored rockfish could be identified as the species of *** mechanism of color variation in *** is desirable for further research and the species could be an ideal model to study the color-driven speciation of the rockfishes.

关键词： abnormal body coloration Sebastes koreanus coastal water of China yellow sea morphological characteristics DNA barcoding

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Molecular phylogenetic relationships based on mitochondrial genomes of novel deep-sea corals(Octocorallia:Alcyonacea):Insights into slow evolution and adaptation to extreme deep-sea environments

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Zoological research 2024年第1期45卷 215-225页

作者： Zhan-Fei Wei Kai-Wen Ta Nan-Nan Zhang Shan-Shan Liu Liang Meng Kai-Qiang Liu Chong-Yang Cai Xiao-Tong Peng Chang-Wei Shao National Key Laboratory of Mariculture Biobreeding and Sustainable Goods Yellow Sea Fisheries Research InstituteChinese Academy of Fishery SciencesQingdaoShandong 266071China BGI-Qingdao BGI-ShenzhenQingdaoShandong 266555China institute of Deep-sea Science and Engineering Chinese Academy of SciencesSanyaHainan 572000China

A total of 10 specimens of Alcyonacea corals were collected at depths ranging from 905 m to 1633 m by the manned submersible Shenhai Yongshi during two cruises in the South China sea(SCS).Based on mitochondrial genomic characteristics,morphological examination,and sclerite scanning electron microscopy,the samples were categorized into four suborders(Calcaxonia,Holaxonia,Scleraxonia,and Stolonifera),and identified as 9 possible new cold-water coral *** of GC-skew dissimilarity,phylogenetic distance,and average nucleotide identity(ANI)revealed a slow evolutionary rate for the octocoral mitochondrial *** nonsynonymous(Ka)to synonymous(Ks)substitution ratio(Ka/Ks)suggested that the 14 protein-coding genes(PCGs)were under purifying selection,likely due to specific deep-sea environmental *** analysis of the median Ka/Ks values of five gene families and environmental factors indicated that the genes encoding cytochrome b(cyt b)and DNA mismatch repair protein(mutS)may be influenced by environmental factors in the context of deep-sea species *** study highlights the slow evolutionary pace and adaptive mechanisms of deep-sea corals.

关键词： Mitochondrial genome Alcyonacea Ka/Ks evolution Environmental factors

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Integrative analysis of transcriptomic profile reveals potential roles of miRNAs in regulating development of Marsupenaeus japonicas

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Journal of Oceanology and Limnology 2024年第1期42卷 201-215页

作者： Jing WANG Longjun PU Xiaojuan ZHANG Cuicui LIANG Dandan DONG Jiantao GUAN Huarong GUO Ministry of Education Key Laboratory of Marine Genetics and Breeding College of Marine Life SciencesOcean University of ChinaQingdao 266003China institute of Evolution&Marine Biodiversity Ocean University of ChinaQingdao 266003China yellow sea Fisheries research institute Chinese Academy of Fishery SciencesQingdao 266071China

Regulation of microRNAs(miRNAs)on various biological processes has been a surprising and exciting *** of miRNAs is the first step to comprehensively understand their ***,attempts on global identification and functional verification of miRNAs are very limited in penaeid shrimp Marsupenaeus japonicus,an economically important aquatic *** performing an integrated analysis of transcriptomic profile from gastrula embryos of ***,21conserved miRNAs in ***(mja-miRNAs),belonging to 19 miRNA families,were identified and *** the 21 mja-miRNAs,15 miRNAs were successfully verified to be predominantly expressed in gastrula stage,where they displayed dynamic expression patterns compared with those in naupliuin *** on perfect or near-perfect match to target region,120 target genes were predicted at transcriptome-wide ***,gene ontology(GO)classification and metabolic pathway annotation revealed eight targets that were actively involved in developmental *** the predicted miRNA-mRNA pairs,six targets were then randomly selected and experimentally validated by dual luciferase reporter assay,where three pairs were proved with potential targeting ***,to search for conserved miRNAs potentially involved in early development of ***,we combined in silico and experimental methods,which can be applied in other organisms as *** data implied important roles of miRNAs in the early embryonic development and also suggested the presence of complex miRNA-mRNA functional networks in ***.

关键词： microRNAs(miRNAs) identification Marsupenaeus japonicus embryo transcriptome

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Decoding the fish genome opens a new era in important trait research and molecular breeding in China

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Science China(Life Sciences) 2024年第10期67卷 2064-2083页

作者： Qian Zhou Jialin Wang Jiongtang Li Zhangfan Chen Na Wang Ming Li Lei Wang Yufeng Si Sheng Lu Zhongkai Cui Xuhui Liu Songlin Chen 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 Qingdao Marine Science and Technology CenterQingdaoShandong 266237China Key Laboratory of Aquatic Genomics Ministry of Agriculture and Rural AffairsBeijing Key Laboratory of Fishery BiotechnologyChinese Academy of Fishery SciencesBeijing 100041China

Aquaculture represents the fastest-growing global food production sector,as it has become an essential component of the global food *** has the world's largest aquaculture industry in terms of production ***,the sustainable development of fish culture is hindered by several concerns,including germplasm degradation and disease *** practice of genomic breeding,which relies heavily on genome information and genotypephenotype relationships,has significant potential for increasing the efficiency of aquaculture *** 2014,the completion of the genome sequencing and annotation of the Chinese tongue sole signified the beginning of the fish genomics era in *** then,domestic researchers have made dramatic progress in functional genomic *** date,the genomes of more than 60 species of fish in China have been assembled and *** on these reference genomes,evolutionary,comparative,and functional genomic studies have revolutionized our understanding of a wide range of biologically and economically important traits of fishes,including growth and development,sex determination,disease resistance,metamorphosis,and ***,genomic tools and breeding techniques such as SNP arrays,genomic selection,and genome editing have greatly accelerated genetic improvement through the incorporation of functional genomic information into breeding *** review aims to summarize the current status,advances,and perspectives of the genome resources,genomic study of important traits,and genomic breeding techniques of fish in *** review will provide aquaculture researchers,fish breeders,and farmers with updated information concerning fish genomic research and breeding *** summary will help to promote the genetic improvement of production traits and thus will support the sustainable development of fish aquaculture.

关键词： fish genomics economic traits genomic selection genome editing genomic breeding

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Parent-offspring relationship recognition based on SSR and mtDNA confirmed resource supplement effect of Fenneropenaeus chinensis release

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Acta Oceanologica Sinica 2024年第2期43卷 156-160页

作者： Song Sun Ding Lyu Xianshi Jin Xiujuan Shan Weiji Wang Key Laboratory of Sustainable Development of Marine Fisheries Ministry of Agriculture and Rural AffairsYellow Sea Fisheries Research InstituteChinese Academy of Fishery SciencesQingdao 266071China Function Laboratory for Marine Fisheries Science and Food Production Processes Pilot National Laboratory for Marine Science and Technology(Qingdao)Qingdao 266237China

The resource of Fenneropenaeus chinensis has declined sharply due to excessive fishing intensity,ecological changes and *** order to supplement the fishing yield and restore resources of ***,the relevant authorities have carried out the activities of stock enhancement and *** can increase biomass and recover ***,compared with increasing biomass,there were still few reports on its effect on the recovery of *** recovery is a process related to whether the released individuals can form a reproductive *** to now,there has been a lack of evidence whether the released *** can complete the entire life history,and form reproduction *** this study,gravid female shrimp after spawning migration were captured from coastal waters of Haiyang,Qingdao,and yellow *** identifying parentage relationships using simple sequence repeat(SSR)and mtDNA haplotype,it was finally confirmed that there were eight released individuals in the recapture *** was confirmed for the first time that at least part of the released *** can complete overwintering and reproductive migration,and maintain the migration habits as their wild ***,we infered that the released shrimp can reproduce under natural conditions,these *** can form reproductive populations theoretically if without human *** results indicated that enhancenment and release activities have a positive effect on resource recovery.

关键词： Fenneropenaeus chinensis release simple sequence repeat(SSR) mtDNA resource supplement

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Responding of zooplankton to environmental factor changes in the Changjiang River estuarine regions in spring-summer from 2016 to 2020

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Journal of Oceanology and Limnology 2024年第2期42卷 544-559页

作者： Jieqing YANG Dongrong ZHANG Yuange CHEN Longling OUYANG Yangyang YANG Jin ZHOU Yunrong SHI East China sea Fisheries research institute Chinese Academy of Fishery SciencesKey Laboratory of East China Sea Fishery Resources ExploitationMinistry of Agriculture and Rural AffairsShanghai 200090China Key Laboratory of Engineering Oceanography Second Institute of OceanographyMinistry of Natural ResourcesHangzhou 310012China College of Marine Ecology and Environment Shanghai Ocean UniversityShanghai 201306China

The estuarine areas are under frequent influence from freshwater intrusion and ocean currents,in which zooplankton species are diversified and variable as they are sensitive to physio-chemical variations in ***,understanding the relationships between zooplankton and environmental factors help us know the water *** achieve co-existence with species in similar ecological group or habit,they could inevitably alter themselves to fit the ecology and adjust the function according to the competitive exclusion in ecological ***,information of the co-existence of dominant species in the Changjiang(Yangtze)River estuary(CRE)and adjacent waters remains *** explored the relationships between dominant zooplankton and environmental factors in the study region in spring-summer from 2016 to 2020,involving particularly the composition of dominant species,ecological groups,their relationships with environmental factors,and co-existence of important species,using the non-multidimensional scale analysis(nMDS)method and redundancy *** show that Labidocera euchaeta and Tortanus vermiculus were dominant species in the study *** turnover rate of dominant zooplankton was greater(>50%)in spring while the species number was higher in *** dominant species were estuarine,offshore,and eurytopic based on the adaptation to *** spring,the ecological groups were dominated by estuarine species,while in summer by estuarine and offshore *** addition,the nMDS showed that the dominant species in the same ecological group were more dispersed and not prominently clustered;the dominant species were staggered among different ecological *** temperature,salinity,pH,dissolved oxygen,and chlorophyll a were the main environmental factors on the distribution of the dominant species in spring,while in summer were dissolved oxygen,temperature,salinity,and *** domination of medusae of Nemopsis bachei and Pleurobrachia globosa in zo

关键词： Changjiang River estuary(CRE) zooplankton dominant species ecological group environmental factor co-existence

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Water quality and habitat drive phytoplankton taxonomic and functional group patterns in the Yangtze River

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Ecological Processes 2024年第1期13卷 144-158页

作者： Wenqi Gao Fangyuan Xiong Ying Lu Wei Xin Haihua Wang Gangpeng Feng Chiping Kong Lei Fang Xiaoping Gao Yushun Chen State Key Laboratory of Freshwater Ecology and Biotechnology Institute of Hydrobiology Chinese Academy of Sciences University of Chinese Academy of Sciences Jiangxi institute for Fisheries Sciences Poyang Lake Fisheries Research Centre of Jiangxi Province East China sea Fisheries research institute Chinese Academy of Fishery Sciences Jiujiang institute of Agricultural Sciences

Background Although phytoplankton are important primary producers in food webs, they are relatively less studied in large rivers compared to other types of systems. To fill this research gap, we studied phytoplankton taxonomic and functional composition and their relationships with water quality, habitat, climate, and land use across 30 river sections in the middle and lower reaches of the Yangtze River during 2017–*** Major observed phytoplankton groups were cyanobacteria, bacillariophyta, and chlorophyta. Phytoplankton total abundance, total biomass, and species richness significantly decreased in the dry season compared to the wet season, with the species and functional composition differing significantly between seasons. Phytoplankton species differences between seasons were mainly contributed by Oscillatoria sp., Pseudanabaena sp., and Melosira granulata. The dfferences in phytoplankton functional groups between seasons were mainly contributed by P（including Closterium sp., Melosira sp.）, Lo（including Merismopedia sp., Peridinium sp., Ceratium sp., and Gymnodinium sp.）, and J（including Pediastrum sp., Tetraedron sp., Crucigenia sp., Scenedesmus sp., and Coelastrum sp.）. The variance partitioning showed that water quality（NO3-N, total suspended solids, turbidity） and habitat（water flow, river bank and river channel conditions） were critical factors in shaping phytoplankton patterns, followed by climate and land *** Results indicated that there was significant seasonal variation of phytoplankton in the Yangtze River, with water quality and habitat primarily driving phytoplankton patterns. Our study contributes to the understanding of natural and anthropogenic factors that drive seasonal successional processes of phytoplankton in the Yangtze River. These findings have important implications for environmental management as well as towards the ecological restoration of large rivers.

关键词： Yangtze River Phytoplankton Functional group Water quality Physical habitat

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Flow Field Characteristics of Multi-Trophic Artificial Reef Based on Computation Fluid Dynamics

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Journal of Ocean University of China 2024年第2期23卷 317-327页

作者： HUANG Junlin LI Jiao LI Yan GONG Pihai GUAN Changtao XIA Xu School of Engineering Ocean University of ChinaQingdao 266100China yellow sea Fisheries research institute Chinese Academy of Fishery SciencesKey Laboratory of Sustainable Development of Marine FisheriesMinistry of Agriculture and Rural AffairsQingdao Key Laboratory for Marine Fish Breeding and BiotechnologyQingdao 266071China Laboratory for Marine Fisheries Science and Food Production Processes Pilot National Laboratory for Marine Science and Technology(Qingdao)Qingdao 266071China

On the basis of computational fluid dynamics,the flow field characteristics of multi-trophic artificial reefs,including the flow field distribution features of a single reef under three different velocities and the effect of spacing between reefs on flow scale and the flow state,were *** indicate upwelling,slow flow,and eddy around a single *** velocity,height,and volume of upwelling in front of a single reef were positively correlated with inflow *** length and volume of slow flow increased with the increase in inflow *** were present both inside and backward,and vorticity was positively correlated with inflow *** between reefs had a minor influence on the maximum velocity and height of *** the increase in space from 0.5 L to 1.5 L(L is the reef lehgth),the length of slow flow in the front and back of the combined reefs increased *** the space was 2.0 L,the length of the slow flow *** four different spaces,eddies were present inside and at the back of each *** maximum vorticity was negatively correlated with space from 0.5 L to 1.5 L,but under 2.0 L space,the maximum vorticity was close to the vorticity of a single reef under the same inflow velocity.

关键词： artificial reef flow field characteristics computation fluid dynamics multi-trophic structure

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Addressing Japan’s disposal of nuclear-contaminated water from the perspective of international human rights law

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Chinese Journal of Population,Resources and Environment 2024年第1期22卷 1-9页

作者： Yen-Chiang Chang Xiaonan Zhao Law School Dalian Maritime UniversityDalian 116026China institute for Bohai and yellow sea Studies Dalian Maritime UniversityDalian 116026China

The discharge of nuclear-contaminated water containing radionuclides into the ocean by Japan will lead to its integration into the entire ecosystem through processes of circulation and biomagnification,eventually entering the human body via the food *** poses a substantial risk of irreversible damage to both the ecosystem and human health,a situation that will worsen with the ongoing discharge of such *** respect and protection of human rights represent an international consensus,and safeguarding fundamental human rights is a substantial obligation that states must undertake in accordance with both international and domestic *** the Fukushima nuclear disaster,Japan has continuously violated its international legal obligations to protect human rights in several areas,including the resettlement of disaster victims,the reduction of nuclear radiation levels,and the handling of contaminated *** actions have compromised and will continue to compromise the basic human rights of not only its citizens but also those of people worldwide,including environmental rights,the right to life,development rights,and food *** the aftermath of the Fukushima meltdown,the public and workers involved in handling nuclear contaminants have been continually exposed to high radiation levels,endangering their rights to life,development,and ***’s inadequate efforts in victim resettlement and environmental restoration have jeopardized the environmental and food rights of its citizens to live healthily and access food in an environment unaffected by nuclear *** release of nuclear-contaminated water poses a risk of Japan’s nuclear pollution to the people of neighboring countries and the global population at *** principle of human rights underpins the theory of a community with a shared future for humanity,and human rights are a crucial area of China’s active participation in United Nations affairs and global *** voicing concerns ove

关键词： Fukushima nuclearcontaminated water Crimes against humanity Remedy for violations of human rights Right to environment Right to life

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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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