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Transcriptome Analysis of Heterosis in Survival in the Hybrid Progenies of‘Haida No.1’and Orange-Shelled Lines of the Pacific Oyster Crassostrea gigas

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Journal of Ocean University of China 2024年第1期23卷 199-208页

作者： YANG Hang LI Qi key laboratory of mariculture Ministry of EducationOcean University of ChinaQingdao 266003China

Heterosis has been exploited to enhance the yield and adaptability in various shellfish species;however,the molecular basis of it remains *** Pacific oyster Crassostrea gigas is one of the most economically important aquaculture species,and its productive traits can be improved by ***,an intraspecific cross between orange shell(O,10th generation)and‘Haida No.1’(H,13th generation)of *** was performed to assess the heterosis of survival *** rates of hybrid family(OH)and inbred families(HH and OO)were compared at larval stage,and eyed-pediveliger larvae of three families were subjected to transcriptome *** analysis results of best-parent heterosis and mid-parent heterosis showed that the hybrid family exhi-bited a high heterosis in survival relative to the parental *** OH-M(OH ***)and OH-P(OH ***)had 425 and 512 dif-ferentially expressed genes(DEGs),*** enrichment analysis of these DEGs revealed that the significantly enrich-ed genes function in virion binding,C-type lectin receptor signaling pathway,cellular defense response and other immune-related pro-cesses,which involves perlucin-like protein,CD209 antigen-like protein,ZNFX1,caspase-3 and acan *** differentially ex-pressed genes in OH-M and OH-P,together with the immune-related processes mentioned above may play an important role in the larval survival of *** addition,three genes(CYP450,fucolectin and perlucin-like)are associated with the orange shell and low survival of maternal oyster *** findings provide support for the application of hybrid with superior survival and will facilitate the understanding of heterosis formation in the Pacific oyster.

关键词： Crassostrea gigas survival rate heterosis transcriptome

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Identification,Characterization,and Probiotic Potentials of Lactobacillus pentosus SF-1

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Journal of Ocean University of China 2024年第2期23卷 509-517页

作者： JIAO Lin LIANG Shufei CHU Ruixia WANG Wentao MAI Kangsen LIU Ming WAN Min key laboratory of Aquaculture Nutrition and Feed Ministry of Agriculture&Key Laboratory of MaricultureMinistry of EducationCollege of FisheriesOcean University of ChinaQingdao 266003China Engineering Research Center of mariculture Ministry of EducationOcean University of ChinaQingdao 266003China

In recent years probiotics have been considered as a potential substitution of antibiotics to control pathogens and treat infectious diseases in *** the present study a strain of Lactobacillus pentosus,named as *** SF-1,was isolated from waters in *** species identification of this strain was conducted by 16S rRNA sequence,and the physiological and biochemical characteristics of this strain were ***,the virulence,antibiotic sensitivity,cell surface characteristics and acid/base-resistance of *** SF-1 were determined to evaluate the probiotic potentials of this ***,*** SF-1 is sensitive to most common antibiotics,and no hemolysin was generated from it,indicating the safety of this strain to *** addition,*** SF-1 was able to tolerate the artificial gastric juice at pH 3 for 4 h and the artificial intestinal fluid at pH 6.8 or 8.0 for 6 ***,the analysis of self-aggregation and the adhesion of *** SF-1 to organic solvents suggested a high potential of *** SF-1 to inhabit the hosts,which was confirmed by testing the colonization of *** SF-1 in germ-free ***,*** SF-1 displayed a high bactericidal activity against several bacterial ***,the incubation of *** SF-1 significantly promoted the expression of antimicrobial components in zebrafish,contributing to the protection of the fish from *** infection in *** together,the probiotic strain *** SF-1 could be applied as anti-infection reagent in aquaculture.

关键词： Lactobacillus pentosus probiotics antibiotics hemolysis cell surface characteristics bactericidal activity infection

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Dietary Supplementation of β-Carotene Reveals miRNAs Involved in the Regulation of Carotenoid Metabolism in Crassostrea gigas

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Journal of Ocean University of China 2024年第4期23卷 1045-1053页

作者： SUN Dongfang WAN Sai YU Hong KONG Lingfeng LI Qi key laboratory of mariculture Ministry of EducationOcean University of ChinaQingdao 266003China laboratory for Marine Fisheries Science and Food Production Processes Laoshan LaboratoryQingdao 266237China

Carotenoids play crucial physiological roles in animals.A comprehensive investigation into the mechanism of carotenoid metabolism in oysters will establish a theoretical foundation for further development of its carotenoid-rich ***,the information on the function of miRNA in β-carotene metabolism in oysters is *** elucidate the mechanisms underlying miRNA regulation of carotenoid metabolism in oysters,we compared the expressions of miRNA in digestive gland tissues of Pacific oyster(Crassostrea gigas)fed with aβ-carotene supplemented diet and a normal diet,respectively.A total of 690 candidate miRNAs in the Pacific oyster digestive gland tissues were identified,including 590 known miRNAs and 111 unknown *** differentially expressed miRNAs were obtained in the carotenoid-fed and normal groups,associated to 137 differentially expressed target ***,the GO enrichment analysis revealed that the differentially expressed target genes were mainly involved in transmembrane transport *** enrichment showed that the differentially expressed target genes were involved in ABC *** of the mRNA-miRNA network revealed that novel0025 played a central role in carotenoid metabolism,and it was negatively correlated with the expression of 46 *** addition,down-regulated expression of novel0025 upregulated the expression of the lipoprotein gene LOC105342186,suggesting a potential regulatory role in carotenoid *** results provide useful information for elucidating the miRNA regulation mechanism during carotenoids metabolism in the Pacific oyster.

关键词： Crassostrea gigas β-carotene microRNA carotenoid metabolism

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Non-Targeted Metabolomics Reveals the Metabolic Alterations in Response to Artificial Selective Breeding in the Fast-Growing Strains of Pacific Oyster

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Journal of Ocean University of China 2024年第2期23卷 518-528页

作者： HU Boyang TIAN Yuan LIU Shikai LI Qi key laboratory of mariculture Ministry of EducationOcean University of ChinaQingdao 266003China laboratory for Marine Fisheries Science and Food Production Processes Laoshan LaboratoryQingdao 266237China

Pacific oyster(Crassostrea gigas)is one of the most important mollusks cultured all around the *** breeding programs of Pacific oysters in China is initiated since 2006 and developed the genetically improved strain with fast-growing ***,little is known about the metabolic signatures of the fast-growing *** the present study,the non-targeted metabolomics was performed to analyze the metabolic signatures of adductor muscle tissue in one-year old Pacific oysters from fast-growing strain and the wild population.A total of 7767 and 10174 valid peaks were extracted and quantified in ESI^(+)and ESI^(−)modes,resulting in 399 and 381 annotated metabolites,*** and OPLS-DA revealed that considerable separation among samples from fastgrowing strain and wild population,suggesting the differences in metabolic ***,81 significantly different metabolites(SDMs)were identified in the comparisons between fast-growing strain and wild population,based on the strict *** was found that there were highly correlation and conserved coordination among these *** enrichment analysis indicated that the SDMs were tightly related to pantothenate and CoA biosynthesis,steroid hormone biosynthesis,riboflavin metabolism,and arginine and proline *** them,the CoA biosynthesis and metabolism,affected by pantetheine and pantothenic acid,might be important for the growth of Pacific oysters under artificial selective *** study provides the comprehensive views of metabolic signatures in response to artificially selective breeding,and is helpful to better understand the molecular mechanism of fastgrowing traits in Pacific oysters.

关键词： metabolic signature Pacific oyster artificial selection fast-growing trait

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Assessment of the Characteristics of Demersal Fish Communities Using Species-and Trait-Based Approaches in the Coastal Habitats Along Rongcheng Bay,Shandong Peninsula,China

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Journal of Ocean University of China 2024年第3期23卷 786-796页

作者： YUAN Shunjie SUN Xin TU Zhong SUN Jie WANG Xianning ZHANG Peidong key laboratory of mariculture(Ocean University of China) Ministry of EducationQingdao 266003China Shandong Fisheries Development and Resource Conservation Center Yantai 264003China

Biodiversity declines have motivated many studies on the relationship between species diversity and ecosystem *** this study,we described the spatial-temporal characteristics of demersal fish communities along a coastal habitat in Rongcheng Bay,Shandong Peninsula,China with both species-based and biological trait-based *** field survey was carried out monthly using traps from April to October of 2018,and divided into three seasons(spring:April and May;summer:June,July and August;autumn:September,October and November).The study area included five distinct habitats:seagrass bed,natural rocky reef,bare sand,artificial reef together with natural rocky reef,and artificial reef together with bare *** analyzed the fish communities with three taxonomic diversity indices,including Shannon-Wiener,Simpson,and Pielou Evenness,as well as four functional diversity indices,including FRic,FEve,FDiv,and FDis,based on 7 functional groups which are categorized into 27 *** results showed that there were no significant differences in taxonomic diversity indices among different habitats in the three ***,significant differences were found in the functional richness of fish communities among different habitats in three *** bed represented the highest functional richness in spring and *** study demonstrates that seagrass bed is very important in enhancing the functional diversity of fish communities in a complex *** study also indicates that the combination of taxonomic diversity and functional diversity will provide a more detailed description of the characteristics of fish communities.

关键词： complex habitat biological traits biodiversity fish communities

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Exceptional points enhance sensing in silicon micromechanical resonators

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Microsystems & Nanoengineering 2024年第1期10卷 17-25页

作者： Man-Na Zhang Lei Dong Li-Feng Wang Qing-An Huang key laboratory of MEMS of the ministry of education Southeast UniversityNanjing 210096China

Exceptional points(EPs)have recently emerged as a new method for engineering the response of open physical systems,that is,systems that interact with the *** systems at the EPs exhibit a strong response to a small ***,we show a method by which the sensitivity of silicon resonant sensors can be enhanced when operated at *** our experiments,we use a pair of mechanically coupled silicon micromechanical resonators constituting a parity-time(PT)-symmetric *** perturbations introduced on the mechanically coupled spring cause the frequency to split from the EPs into the PT-symmetric regime without broadening the two spectrum linewidths,and this frequency splitting scales with the square root of the perturbation *** overall signal-tonoise ratio is still greatly enhanced,although the measured noise spectral density of the EP sensing scheme has a slight increase comparable to the traditional *** results pave the way for resonant sensors with ultrahigh sensitivity.

关键词： resonant symmetric points

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Ultrafast micro/nano-manufacturing of metastable materials for energy

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National Science Review 2024年第4期11卷 283-298页

作者： Xiaoya Cui Yanchang Liu Yanan Chen School of Materials Science and Engineering Key Laboratory of Advanced Ceramics and Machining Technology(Ministry of Education) and Tianjin Key Laboratory of Composite and Functional MaterialsTianjin University ministry of education key laboratory of Protein Sciences School of Life SciencesTsinghua University

The structural engineering of metastable nanomaterials with abundant defects has attracted much attention in energy-related fields. The high-temperature shock(HTS) technique, as a rapidly developing and advanced synthesis strategy, offers significant potential for the rational design and fabrication of high-quality nanocatalysts in an ultrafast, scalable, controllable and eco-friendly way. In this review, we provide an overview of various metastable micro-and nanomaterials synthesized via HTS, including single metallic and bimetallic nanostructures, high entropy alloys, metal compounds(e.g. metal oxides) and carbon nanomaterials. Note that HTS provides a new research dimension for nanostructures, i.e. kinetic modulation. Furthermore, we summarize the application of HTS—as supporting films for transmission electron microscopy grids—in the structural engineering of 2D materials, which is vital for the direct imaging of metastable materials. Finally, we discuss the potential future applications of high-throughput and liquid-phase HTS strategies for non-equilibrium micro/nano-manufacturing beyond energy-related *** is believed that this emerging research field will bring new opportunities to the development of nanoscience and nanotechnology in both fundamental and practical aspects.

关键词： high-temperature shock technique defect engineering metastable phase kinetic modulation non-equilibrium micro/nano-manufacturing

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Integrated multi-scale approach combining global homogenization and local refinement for multi-field analysis of high-temperature superconducting composite magnets

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Applied Mathematics and Mechanics(English Edition) 2024年第5期45卷 747-762页

作者： Hanxiao GUO Peifeng GAO Xingzhe WANG key laboratory of Mechanics on Western Disaster and Environment of ministry of education Key Laboratory of Special Function Materials and Structure Design of Ministry of EducationCollege of Civil Engineering and MechanicsLanzhou UniversityLanzhou 730000China

Second-generation high-temperature superconducting(HTS)conductors,specifically rare earth-barium-copper-oxide(REBCO)coated conductor(CC)tapes,are promising candidates for high-energy and high-field superconducting *** respect to epoxy-impregnated REBCO composite magnets that comprise multilayer components,the thermomechanical characteristics of each component differ considerably under extremely low temperatures and strong electromagnetic *** numerical models include homogenized orthotropic models,which simplify overall field calculation but miss detailed multi-physics aspects,and full refinement(FR)ones that are thorough but computationally ***,we propose an extended multi-scale approach for analyzing the multi-field characteristics of an epoxy-impregnated composite magnet assembled by HTS pancake *** approach combines a global homogenization(GH)scheme based on the homogenized electromagnetic T-A model,a method for solving Maxwell's equations for superconducting materials based on the current vector potential T and the magnetic field vector potential A,and a homogenized orthotropic thermoelastic model to assess the electromagnetic and thermoelastic properties at the macroscopic *** then identify“dangerous regions”at the macroscopic scale and obtain finer details using a local refinement(LR)scheme to capture the responses of each component material in the HTS composite tapes at the mesoscopic *** results of the present GH-LR multi-scale approach agree well with those of the FR scheme and the experimental data in the literature,indicating that the present approach is accurate and *** proposed GH-LR multi-scale approach can serve as a valuable tool for evaluating the risk of failure in large-scale HTS composite magnets.

关键词： epoxy-impregnated high-temperature superconducting(HTS)magnet multi-scale method global homogenization(GH) local refinement(LR) multi-field analysis

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Mating behaviors in ovoviviparous black rockfish(Sebastes schlegelii):molecular function of prostaglandin E2 as both a hormone and pheromone

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Marine Life Science & Technology 2024年第1期6卷 15-30页

作者： Likang Lyu Yijia Yao Songyang Xie Xiaojie Wang Haishen Wen Yun Li Jianshuang Li Chenpeng Zuo Shaojing Yan Jingyi Dong Xin Qi key laboratory of mariculture(Ocean University of China) Ministry of EducationOcean University of ChinaQingdao 266003China Institute of Evolution and Marine Biodiversity Ocean University of ChinaQingdao 266003China

Prostaglandins(PGs)are profound hormones in teleost sexual behavior,especially in *** act as pheromones that affect the olfactory sensory neurons of males,inducing the initiation of a series of mating ***,the molecular mechanism by which PGs trigger mating behavior in ovoviviparous teleosts is still *** the present study,we employed the ovoviviparous black rockfish(Sebastes schlegelii),an economically important marine species whose reproductive production is limited by incomplete fertilization,as a model *** results showed that when the dose of PGE2 was higher than 10 nmol/L,a significant(P<0.05)increase in mating behaviors was ***-fluorescence in situ hybridization indicated that PGE2 could fire specific neurons in different brain regions and receptor cells in the olfactory *** combining with specific neurons in the central nervous system(CNS),a series of genes related to reproduction are *** intracerebroventricular administration of PGE_(2) significantly increased lhb levels(P<0.05)in both ***,steroidogenesis in gonads was also affected,inducing an increase(P<0.05)in E_(2) levels in males and T levels in ***_(2) levels were also increased significantly(P<0.05)in both *** present study revealed that PGE2 can activate mating behavior in black rockfish in both hormone and pheromone pathways,leading to variations in sex steroid levels and activation of reproductive *** results provide not only novel insight into the onset of mating behaviors in ovoviviparous teleosts but also solutions for the incomplete fertilization caused by natural mating in cage aquaculture.

关键词： Black rockfish Mating behavior Ovoviviparity Prostaglandin E2

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Recent advances in protein conformation sampling by combining machine learning with molecular simulation

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Chinese Physics B 2024年第3期33卷 80-87页

作者：唐一鸣杨中元姚逸飞周运谈圆王子超潘瞳熊瑞孙俊力韦广红 Department of Physics State Key Laboratory of Surface Physicsand Key Laboratory for Computational Physical Sciences (Ministry of Education)Shanghai 200438China

The rapid advancement and broad application of machine learning(ML)have driven a groundbreaking revolution in computational *** of the most cutting-edge and important applications of ML is its integration with molecular simulations to improve the sampling efficiency of the vast conformational space of large *** review focuses on recent studies that utilize ML-based techniques in the exploration of protein conformational *** first highlight the recent development of ML-aided enhanced sampling methods,including heuristic algorithms and neural networks that are designed to refine the selection of reaction coordinates for the construction of bias potential,or facilitate the exploration of the unsampled region of the energy ***,we review the development of autoencoder based methods that combine molecular simulations and deep learning to expand the search for protein ***,we discuss the cutting-edge methodologies for the one-shot generation of protein conformations with precise Boltzmann ***,this review demonstrates the promising potential of machine learning in revolutionizing our insight into the complex conformational ensembles of proteins.

关键词： machine learning molecular simulation protein conformational space enhanced sampling

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