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学者姓名：邵光明
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Abstract ：
本发明公开了一种基于靶向基因型检测技术的花鲈液相芯片及其应用，本方案芯片可检测45,459个目标位点的基因型，其包括44,927个均匀分布于全基因组的背景SNPs位点、454个位于编码区且可导致移码突变的INDELs位点及78个与花鲈生长相关功能位点。该芯片基于液相探针杂交的靶向测序基因型检测技术(GBTS)，相比于目前已有的花鲈基因分型方法，本方案提供的液相芯片在目标位点检测的可重复性和准确率以及实验标准化程度、数据分析简易程度和所需计算资源等方面具有极大的优势。本发明填补了花鲈缺乏基因分型芯片的空白，适用于花鲈的基因组选择育种、全基因组关联分析、种质鉴定及遗传多样性分析。
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| GB/T 7714 | 邵光明 , 陈新华 , 周兆隆 . 一种基于靶向基因型检测技术的花鲈液相芯片及其应用 : CN202411915589.8[P]. | 2024-12-24 . |
| MLA | 邵光明 等. "一种基于靶向基因型检测技术的花鲈液相芯片及其应用" : CN202411915589.8. | 2024-12-24 . |
| APA | 邵光明 , 陈新华 , 周兆隆 . 一种基于靶向基因型检测技术的花鲈液相芯片及其应用 : CN202411915589.8. | 2024-12-24 . |
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CD4+ T cells, also known as helper T (Th) cells, are crucial regulators of the adaptive immune system, orchestrating and coordinating immune responses that protect the host against a broad spectrum of pathogenic threats. Two CD4 co-receptor genes, cd4-1 and cd4-2, have been identified in teleost species, including the large yellow croaker Larimichthys crocea. In this study, we developed a monoclonal antibody (mAb) that specifically recognizes croaker CD4-2, enabling the identification and characterization of CD4-2+ T lymphocytes. Croaker CD4-2+ T cells were found predominantly distributed across both systemic and mucosal immune tissues, with the exception of peripheral blood, and were notably more abundant than IgM+ B cells in the liver, gut, head kidney (HK) and gills. Moreover, elevated transcription levels of ifng, il2, il17a/f3, and il6 in sorted HK CD4-2+ T cells suggest their potential for functional differentiation into distinct Th lineages. Functional studies demonstrated that CD4-2+ T cells in the HK and spleen exhibited robust proliferative responses upon in vitro stimulation with T cell mitogens, including Phytohemagglutinin-L and Concanavalin A. More importantly, following infection with the protozoan parasite Cryptocaryon irritans, pronounced proliferations of CD4-2+ T cells were observed in the HK, spleen and gills, whereas the cellular expansion and activation were detected exclusively in the spleen, underscoring the pivotal role of the spleen in the induction and activation of CD4-2+ T cells in large yellow croaker. This study provides an in-depth characterization of CD4-2+ T cells in large yellow croaker and highlights their critical role in immune activation and anti-parasitic defense, offering valuable insights into their potential applications in immunological research and disease control in aquaculture.
Keyword ：
CD4-2+T cells CD4-2+T cells Cryptocaryon irritans infection Cryptocaryon irritans infection Large yellow croaker Large yellow croaker Monoclonal antibody Monoclonal antibody Proliferation Proliferation
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| GB/T 7714 | Li, Xinran , Lai, Guolong , Lin, Yan et al. Phenotypic and functional characterization of CD4-2+T cells in large yellow croaker Larimichthys crocea [J]. | FISH & SHELLFISH IMMUNOLOGY , 2025 , 165 . |
| MLA | Li, Xinran et al. "Phenotypic and functional characterization of CD4-2+T cells in large yellow croaker Larimichthys crocea" . | FISH & SHELLFISH IMMUNOLOGY 165 (2025) . |
| APA | Li, Xinran , Lai, Guolong , Lin, Yan , Liu, Sichang , Bao, Wenbing , Zhang, Wenxuan et al. Phenotypic and functional characterization of CD4-2+T cells in large yellow croaker Larimichthys crocea . | FISH & SHELLFISH IMMUNOLOGY , 2025 , 165 . |
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Large yellow croaker (Larimichthys crocea) is an economically important fish, with the annual production ranking second among maricultured fish in China. Outbreaks of visceral white nodules disease caused by Pseudomonas plecoglossicida have led to substantial economic losses for the L. crocea aquaculture industry. However, L. crocea defense strategies against P. plecoglossicida infection, especially the role of microRNAs (miRNAs) in the defense against P. plecoglossicida, are poorly understood. Here, we analyzed changes in the mRNA and miRNA expression profiles in the spleen of L. crocea at 96 h post-infection and explored its defensive strategies. Principal component analysis (PCA) showed that P. plecoglossicida infection brought about a profound remodeling of both the miRNA and mRNA profiles. Enrichment analysis showed that the inflammatory response (IL-17 signaling pathway, chemokines and chemokine receptor pathway), ATP synthesis (TCA cycle and oxidative phosphorylation), apoptosis and necroptosis (TNF signaling pathway), and proteolysis (proteasome pathway) were enriched and upregulated by P. plecoglossicida. Thus, P. plecoglossicida infection activated the inflammatory response, stimulated ATP synthesis, and accelerated apoptosis and necroptosis, and promoted proteasome-mediated protein degradation. Additionally, integrated analysis identified 568 miRNA-mRNA pairs. KEGG enrichment analysis of the miRNA targets showed that the enriched pathways included cytokine-cytokine receptor interaction, the chemokine signaling pathway, the C-type lectin receptor signaling pathway, and apoptosis. Integrated analysis identified 14 miRNAs which targeted 44 immune-related genes. Altogether, our results revealed not only the role of the inflammatory response, energy metabolism, apoptosis and necroptosis, and the proteasome pathway in L. crocea defense against P. plecoglossicida infection, but also the regulatory networks of miRNAs associated with host defense against P. plecoglossicida.
Keyword ：
comparative transcriptomics comparative transcriptomics Larimichthys crocea Larimichthys crocea microRNAs microRNAs Pseudomonas plecoglossicida Pseudomonas plecoglossicida
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| GB/T 7714 | Shao, Guangming , Zhang, Yameng , Zhou, Zhaolong et al. Integrated transcriptome analysis of mRNA and miRNA revealed defensive strategies in the large yellow croaker Larimichthys crocea against Pseudomonas plecoglossicida infection [J]. | ACTA OCEANOLOGICA SINICA , 2025 , 44 (2) : 37-51 . |
| MLA | Shao, Guangming et al. "Integrated transcriptome analysis of mRNA and miRNA revealed defensive strategies in the large yellow croaker Larimichthys crocea against Pseudomonas plecoglossicida infection" . | ACTA OCEANOLOGICA SINICA 44 . 2 (2025) : 37-51 . |
| APA | Shao, Guangming , Zhang, Yameng , Zhou, Zhaolong , Zhao, Zexu , He, Fengjiao , Ji, Jiawen et al. Integrated transcriptome analysis of mRNA and miRNA revealed defensive strategies in the large yellow croaker Larimichthys crocea against Pseudomonas plecoglossicida infection . | ACTA OCEANOLOGICA SINICA , 2025 , 44 (2) , 37-51 . |
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本发明公开了大黄鱼酷暑高温季节小水体人工繁育方法，其包括在夏季期间挑选体格、体表情况和体重符合预设要求的大黄鱼亲鱼，将其转移到预设培养环境中，然后进行人工催产处理、受精卵小水体中流水孵化处理和在小水体中进行仔稚鱼培育及出苗，完成人工繁育；以往的大黄鱼人工繁育技术主要针对大黄鱼春季和秋季育苗，本发明方案可以在夏季高温季节(5‑7月)开展大黄鱼的繁育；此外，在育种实践如基因组编辑、雌核生殖及杂交育种，人们往往需要对少量的受精卵或仔稚鱼进行繁育，大水体会造成饵料及水电的浪费，增加育种的成本，本方案不仅极大地拓展了育苗时间、而且可以满足小批量大黄鱼的人工繁育需求，对加快大黄鱼品种改良具有重要意义。
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| GB/T 7714 | 邵光明 , 王石 , 陈新华 et al. 大黄鱼酷暑高温季节小水体人工繁育方法 : CN202410534086.X[P]. | 2024-04-30 . |
| MLA | 邵光明 et al. "大黄鱼酷暑高温季节小水体人工繁育方法" : CN202410534086.X. | 2024-04-30 . |
| APA | 邵光明 , 王石 , 陈新华 , 魏泽宏 , 周兆隆 , 何凤姣 et al. 大黄鱼酷暑高温季节小水体人工繁育方法 : CN202410534086.X. | 2024-04-30 . |
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本发明属于鱼类种质资源改良领域，公开了一种黄姑鱼精子诱导大黄鱼雌核发育的方法，包括如下步骤：选择雌性大黄鱼和雄性黄姑鱼作为亲鱼，进行人工催产，获得雌性大黄鱼成熟卵子和雄性黄姑鱼精液；雄性黄姑鱼精液稀释后进行灭活处理，然后与大黄鱼成熟卵子混合授精，进行冷休克处理，再转移至22‑24℃海水的条件下进行持续曝气增氧浮动孵化；孵出的鱼苗能平游时，进行人工饲养，即得雌核发育大黄鱼。本发明采用黄姑鱼精子诱导大黄鱼雌核发育成功选育出雌核发育大黄鱼后代，在养殖过程中，生长速度、抗逆性、肉质等方面明显强于普通大黄鱼，不仅为改良大黄鱼种质资源奠定了良好的基础，而且在鱼类遗传育种和生物进化方面也具有重要意义。
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| GB/T 7714 | 刘少军 , 陈新华 , 王石 et al. 一种黄姑鱼精子诱导大黄鱼雌核发育的方法 : CN202410768777.6[P]. | 2024-06-14 . |
| MLA | 刘少军 et al. "一种黄姑鱼精子诱导大黄鱼雌核发育的方法" : CN202410768777.6. | 2024-06-14 . |
| APA | 刘少军 , 陈新华 , 王石 , 邵光明 , 魏泽宏 , 许庆林 et al. 一种黄姑鱼精子诱导大黄鱼雌核发育的方法 : CN202410768777.6. | 2024-06-14 . |
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Simple Summary Fish farming provides an efficient means of obtaining high-quality protein for humans. However, the decreased growth rate of aquaculture fish due to germplasm degradation often increases production costs and reduces economic benefits. Therefore, it is particularly important to develop fast-growing varieties and elucidate the genetic mechanisms underlying growth traits. In this study, we identified 50 growth-related markers in the genome of Lateolabrax maculatus, an important marine aquaculture species, with the phenotypic variance explained up to 15.82%, which will help in marker-assisted breeding for fast-growing varieties. Additionally, 47 growth-related candidate genes were annotated, and the functions of some of these genes in growth traits have been confirmed in mice or zebrafish through gene knockout or knockdown experiments. The 47 candidate genes are mainly associated with the metabolism of energy, glucose, and lipids and the development of musculoskeletal and nervous systems, which may act as drivers for the growth of L. maculatus. Altogether, our study identified growth-related markers and candidate genes, which will help develop the fast-growing varieties of L. maculatus and elucidate genetic mechanisms underlying its growth traits.Abstract Spotted sea bass (Lateolabrax maculatus) is an important marine economic fish in China, ranking third in annual production among marine fish. However, a declined growth rate caused by germplasm degradation has severely increased production costs and reduced economic benefits. There is an urgent need to develop the fast-growing varieties of L. maculatus and elucidate the genetic mechanisms underlying growth traits. Here, whole-genome resequencing technology combined with extreme phenotype genome-wide association analysis (XP-GWAS) was used to identify candidate markers and genes associated with growth traits in L. maculatus. Two groups of L. maculatus, consisting of 100 fast-growing and 100 slow-growing individuals with significant differences in body weight, body length, and carcass weight, underwent whole-genome resequencing. A total of 4,528,936 high-quality single nucleotide polymorphisms (SNPs) were used for XP-GWAS. These SNPs were evenly distributed across all chromosomes without large gaps, and the average distance between SNPs was only 175.8 bp. XP-GWAS based on the Bayesian-information and Linkage-disequilibrium Iteratively Nested Keyway (Blink) and Fixed and random model Circulating Probability Unification (FarmCPU) identified 50 growth-related markers, of which 17 were related to body length, 19 to body weight, and 23 to carcass weight. The highest phenotypic variance explained (PVE) reached 15.82%. Furthermore, significant differences were observed in body weight, body length, and carcass weight among individuals with different genotypes. For example, there were highly significant differences in body weight among individuals with different genotypes for four SNPs located on chromosome 16: chr16:13133726, chr16:13209537, chr16:14468078, and chr16:18537358. Additionally, 47 growth-associated genes were annotated. These genes are mainly related to the metabolism of energy, glucose, and lipids and the development of musculoskeletal and nervous systems, which may regulate the growth of L. maculatus. Our study identified growth-related markers and candidate genes, which will help to develop the fast-growing varieties of L. maculatus through marker-assisted breeding and elucidate the genetic mechanisms underlying the growth traits.
Keyword ：
genome-wide association analysis genome-wide association analysis growth traits growth traits Lateolabrax maculatus Lateolabrax maculatus whole genome resequencing whole genome resequencing
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| GB/T 7714 | Zhou, Zhaolong , Shao, Guangming , Shen, Yibo et al. Extreme-Phenotype Genome-Wide Association Analysis for Growth Traits in Spotted Sea Bass (Lateolabrax maculatus) Using Whole-Genome Resequencing [J]. | ANIMALS , 2024 , 14 (20) . |
| MLA | Zhou, Zhaolong et al. "Extreme-Phenotype Genome-Wide Association Analysis for Growth Traits in Spotted Sea Bass (Lateolabrax maculatus) Using Whole-Genome Resequencing" . | ANIMALS 14 . 20 (2024) . |
| APA | Zhou, Zhaolong , Shao, Guangming , Shen, Yibo , He, Fengjiao , Tu, Xiaomei , Ji, Jiawen et al. Extreme-Phenotype Genome-Wide Association Analysis for Growth Traits in Spotted Sea Bass (Lateolabrax maculatus) Using Whole-Genome Resequencing . | ANIMALS , 2024 , 14 (20) . |
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本发明涉及分子生物学及遗传育种领域，具体公开了一种与花鲈净膛重性状相关的分子标记及其应用；为更快速准确地在育种中筛选快生长的花鲈作为繁殖亲本，本方案采用全基因组重测序结合极端表型全基因组关联分析的方法鉴定了花鲈净膛重性状相关的遗传标记，其中位于8号染色体第15408385处的SNP标记与花鲈净膛重显著相关，表型方差解释百分比达13.0％，该位点存在C/T突变，基因型为CC的花鲈净膛重显著高于CT及TT基因型的个体。针对该位点我们设计了检测引物并建立了检测方法。花鲈繁殖周期长，需三到四年达到性成熟，本发明提供的SNP标记可应用于花鲈分子标记辅助育种，提高选育的准确定并缩短育种周期，进而加快育种进程。
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| GB/T 7714 | 邵光明 , 陈新华 , 周兆隆 et al. 一种与花鲈净膛重性状相关的分子标记及其应用 : CN202411260103.1[P]. | 2024-09-10 . |
| MLA | 邵光明 et al. "一种与花鲈净膛重性状相关的分子标记及其应用" : CN202411260103.1. | 2024-09-10 . |
| APA | 邵光明 , 陈新华 , 周兆隆 , 季加雯 . 一种与花鲈净膛重性状相关的分子标记及其应用 : CN202411260103.1. | 2024-09-10 . |
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本发明公开了一种基于受精卵卵壳软化的大黄鱼高效基因组编辑方法，包括以下步骤：首先获取大黄鱼自然受精的受精卵，利用5mg/ml的链霉蛋白酶在24℃水温下消化受精卵30min以使卵壳软化，将Cas9蛋白、sgRNA及酚红混合，采用显微注射方法，将混合物注射入胚盘期受精卵中，孵化48h后，可以获得存活率64％，外源靶基因突变率最高达86.3％。本发明第一次利用卵壳软化的方法在海水鱼中建立了基因组编辑方法，相比于以往的基因组编辑方法，该基因组编辑方法不仅操作简单，而且可大大提高基因组编辑受精卵的孵化率和基因组编辑效率，为开展大黄鱼基因的功能研究和大黄鱼遗传改良提供了新的技术手段。
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| GB/T 7714 | 陈新华 , 邵光明 , 崔雪凡 et al. 一种基于受精卵卵壳软化的大黄鱼高效基因组编辑方法 : CN202311667175.3[P]. | 2023-12-06 . |
| MLA | 陈新华 et al. "一种基于受精卵卵壳软化的大黄鱼高效基因组编辑方法" : CN202311667175.3. | 2023-12-06 . |
| APA | 陈新华 , 邵光明 , 崔雪凡 , 石源 , 黎球华 , 段雅如 . 一种基于受精卵卵壳软化的大黄鱼高效基因组编辑方法 : CN202311667175.3. | 2023-12-06 . |
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The Gram-negative bacterium Pseudomonas plecoglossicida has caused visceral granulomas disease in several farmed fish species, including large yellow croaker (Larimichthys crocea), which results in severe economic losses. Type III secretion systems (T3SS) are protein secretion and translocation nanomachines widely employed by many Gram-negative bacterial pathogens for infection and pathogenicity. However, the exact role of T3SS in the pathogenesis of P. plecoglossicida infection is still unclear. In this study, a T3SS translocators deletion strain (opopBD) of P. plecoglossicida was constructed to investigate the function of T3SS. Then comparative secretome analysis of the P. plecoglossicida wild-type (WT) and opopBD mutant strains was conducted by label-free quantitation (LFQ) mass spectrometry. The results show that knockout of T3SS translocators popB and popD has an adverse effect on the effector protein ExoU secretion, flagella assembly, and biofilm formation. Further experimental validations also confirmed that popB-popD deletion could affect the P. plecoglossicida flagella morphology/formation, adherence, mobility, and biofilm formation. These data indicate that a cross-talk exists between the P. plecoglossicida T3SS and the flagella system. Our results, therefore, will facilitate the further under-standing of the pathogenic mechanisms leading to visceral granulomas disease caused by P. plecoglossicida.
Keyword ：
Flagella Flagella popBD popBD Pseudomonas plecoglossicida Pseudomonas plecoglossicida Secretome Secretome Type III secretion systems Type III secretion systems
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| GB/T 7714 | Qin, Pan , Luan, Yingjia , Yang, Jinmei et al. Comparative secretome analysis reveals cross-talk between type III secretion system and flagella assembly in Pseudomonas plecoglossicida [J]. | HELIYON , 2023 , 9 (12) . |
| MLA | Qin, Pan et al. "Comparative secretome analysis reveals cross-talk between type III secretion system and flagella assembly in Pseudomonas plecoglossicida" . | HELIYON 9 . 12 (2023) . |
| APA | Qin, Pan , Luan, Yingjia , Yang, Jinmei , Chen, Xingfu , Wu, Tong , Li, Yousheng et al. Comparative secretome analysis reveals cross-talk between type III secretion system and flagella assembly in Pseudomonas plecoglossicida . | HELIYON , 2023 , 9 (12) . |
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Visceral white nodules disease (VWND), caused by Pseudomonas plecoglossicida, is a common disease among cage-farmed large yellow croaker (Larimichthys crocea) in China. However, comprehensive investigations of the molecular defensive mechanisms used by L. crocea in response to P. plecoglossicida infection remain relatively rare. Here, we constructed transcriptomes of the L. crocea spleen at 12 h and 24 h after P. plecoglossicida challenge. We identified 518 novel miRNAs and 823 known miRNAs in the spleen of L. crocea. Between the challenge and control groups, 32 differentially expressed miRNAs (DEmiRNAs), predicted to target 356 genes, and 1152 differentially expressed mRNAs (DEmRNAs) were identified at 12 h post-infection, while 33 DEmiRNAs, predicted to target 278 genes, and 1067 DEmRNAs were identified at 24 h post-infection. Gene ontology (GO) analysis showed that 146 and 126 GO terms were significantly enriched in the target genes at 12 h and 24 h, respectively. Twenty-eight and four immune-associated Kyoto Encyclopedia of Genes and Genomes (KEGG) pathways were significantly enriched in the target genes at 12 h and 24 h, respectively. Three immune-associated pathways were among those most enriched in the target genes: Toll-like receptor signaling, endocytosis, and C-type lectin receptor signaling. Network analysis identified 47 DEmRNA-DEmiRNA pairs. In particular, the immune-related genes TLR5S and PIGR were targeted by the miRNAs lcr-miR-7132c and dre-miR-183-5p, respectively. Dual-luciferase assays verified that lcr-miR-7132c downregulated TLR5S, suggesting that this miRNA may participate in regulating the immune response of L. crocea to P. plecoglossicida infection through the TLR5S-mediated signaling pathway. Our results help to clarify the miRNA-mediated immune response of L. crocea to P. plecoglossicida infection.
Keyword ：
immune response immune response large yellow croaker (Larimichthys crocea) large yellow croaker (Larimichthys crocea) microRNA microRNA Pseudomonas plecoglossicida Pseudomonas plecoglossicida
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| GB/T 7714 | Chen, Huazhi , Zhang, Yameng , Shao, Guangming et al. Comparative Transcriptomics Reveals the microRNA-Mediated Immune Response of Large Yellow Croaker (Larimichthys crocea) to Pseudomonas plecoglossicida Infection [J]. | FISHES , 2023 , 8 (1) . |
| MLA | Chen, Huazhi et al. "Comparative Transcriptomics Reveals the microRNA-Mediated Immune Response of Large Yellow Croaker (Larimichthys crocea) to Pseudomonas plecoglossicida Infection" . | FISHES 8 . 1 (2023) . |
| APA | Chen, Huazhi , Zhang, Yameng , Shao, Guangming , Chen, You , Shen, Yibo , Mu, Yinnan et al. Comparative Transcriptomics Reveals the microRNA-Mediated Immune Response of Large Yellow Croaker (Larimichthys crocea) to Pseudomonas plecoglossicida Infection . | FISHES , 2023 , 8 (1) . |
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