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学者姓名:石源
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The T cell receptor (TCR) plays a crucial role in antigen recognition and signal transduction during T cell immunity. While the TCR locus has been well characterized in mammals, its knowledge in teleosts remains limited. In this study, we identified the TCR beta locus in large yellow croaker (Larimichthys crocea), an important mariculture species in China, and found 31 V, 2 D, 13 J, and 2 C gene segments. The 2 C gene segments are highly similar in amino acid sequences, and share conserved residues with TCR beta from other species. A consensus recombination signal sequence (RSS) is found to flank the V, D, and J gene segments, with conserved spacer lengths as observed in mammals. The V gene segments are consisted of a leader exon, an intron, and a V beta exon, and could be categorized into fourteen families based on the nucleotide identity. Furthermore, we found that the recombination of V, D, and J gene segments in the TCR beta locus occurred at the genomic DNA level, followed by fusion with the C gene segments at the mRNA level. Additionally, the usage of J gene segments is restricted to their adjacent downstream C gene segments. qRT-PCR analysis showed that the TCR beta was highly expressed in immune organs and was upregulated after PHA treatment. By exploring a previously published RNA-seq dataset, we found that the V gene segments were differentially expressed after P. plecoglossicida infection, suggesting their involvement in T cell immunity. In summary, we characterized the TCR beta locus in large yellow croaker, which would promote the understanding of T cell immunity in teleosts.
Keyword :
Large yellow croaker (Larimichthys crocea) Large yellow croaker (Larimichthys crocea) T cells T cells TCR beta locus TCR beta locus V(D)J recombination V(D)J recombination
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| GB/T 7714 | Shi, Yuan , Zhu, Zhuo , Chen, Qiuxuan et al. Identification and annotation of the T cell receptor beta (TCRβ) locus in large yellow croaker (Larimichthys crocea) [J]. | DEVELOPMENTAL AND COMPARATIVE IMMUNOLOGY , 2025 , 164 . |
| MLA | Shi, Yuan et al. "Identification and annotation of the T cell receptor beta (TCRβ) locus in large yellow croaker (Larimichthys crocea)" . | DEVELOPMENTAL AND COMPARATIVE IMMUNOLOGY 164 (2025) . |
| APA | Shi, Yuan , Zhu, Zhuo , Chen, Qiuxuan , Teng, Yan , Li, Xinran , Chen, Xinhua . Identification and annotation of the T cell receptor beta (TCRβ) locus in large yellow croaker (Larimichthys crocea) . | DEVELOPMENTAL AND COMPARATIVE IMMUNOLOGY , 2025 , 164 . |
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The large yellow croaker (Larimichthys crocea), an economically important marine fish in China, often suffers serious losses due to visceral white nodule disease caused by Pseudomonas plecoglossicida infection. IgM+ B cells play critical roles in the defense against bacterial infection, yet their immune response and underlying mechanisms against the P. plecoglossicida infection in large yellow croaker remain poorly characterized. In this study, we used fluorescence-activated cell sorting (FACS) and RNA sequencing to profile the transcriptomes of head kidney IgM+ B cells at different time points after P. plecoglossicida infection. The results showed that P. plecoglossicida infection induced time-dependent transcriptomic changes in IgM+ B cells. Mfuzz analysis categorized genes into 9 different clusters based on their expression patterns. Notably, cluster 9, 8 and 1 exhibited specific upregulation at 1, 3, and 7 days post infection (dpi), respectively, while cluster 2 displayed a sustained upregulation pattern throughout infection. KEGG enrichment analysis revealed enhanced energy metabolism and proliferation ability of IgM+ B cells after infection. Furthermore, we found that the MAPK signaling pathway was rapidly activated after infection (enriched in cluster 9). qPCR results further confirmed the upregulation of MAPK signaling related genes (cacna1g, map2k1, map3k4, map3k10) at 1 dpi, suggesting its role in regulating the early immune response of B cells. Together, this study comprehensively analyzed the transcriptomic dynamics of IgM+ B cells after P. plecoglossicida infection, which would provide insights into the understanding of teleost B cell immunity and offer potential strategies for bacterial disease control in large yellow croaker aquaculture.
Keyword :
IgM plus B cells IgM plus B cells Large yellow croaker Large yellow croaker MAPK signaling MAPK signaling Pseudomonas plecoglossicida Pseudomonas plecoglossicida RNA-seq RNA-seq
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| GB/T 7714 | Zhu, Zhuo , Chen, Qiuxuan , Li, Qiuhua et al. Transcriptomic analysis reveals the role of MAPK signaling pathway in IgM plus B cells against Pseudomonas plecoglossicida infection in large yellow croaker (Larimichthys crocea) [J]. | FISH & SHELLFISH IMMUNOLOGY , 2025 , 165 . |
| MLA | Zhu, Zhuo et al. "Transcriptomic analysis reveals the role of MAPK signaling pathway in IgM plus B cells against Pseudomonas plecoglossicida infection in large yellow croaker (Larimichthys crocea)" . | FISH & SHELLFISH IMMUNOLOGY 165 (2025) . |
| APA | Zhu, Zhuo , Chen, Qiuxuan , Li, Qiuhua , Wang, Meiyan , Zhang, Yihan , Cui, Zhengwei et al. Transcriptomic analysis reveals the role of MAPK signaling pathway in IgM plus B cells against Pseudomonas plecoglossicida infection in large yellow croaker (Larimichthys crocea) . | FISH & SHELLFISH IMMUNOLOGY , 2025 , 165 . |
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The transcription factor Tcf3 is a key regulator during mammalian B cell development and activation, which is highly expressed in precursor B cells, downregulated in mature B cells, and re-expressed upon B cell activation. Despite the extensive studies in mammals, its role in teleost B cells remains poorly characterized. Here, using the economically important marine teleost large yellow croaker (Larimichthys crocea) as a model, we identified two Tcf3 homologs (LcTcf3a and LcTcf3b) and found that both genes were upregulated during B cell activation. By cloning the predicted promoter region and serial truncation, we found that the core promoter regions of LcTcf3a and LcTcf3b were located about 600 bp around the transcription start sites. Interestingly, while both of the two gene promoters contain CpG islands, bisulfite sequencing showed constitutive hypomethylation both before and after B cell activation. However, in vitro methylation suppressed the promoter activities of LcTcf3a and LcTcf3b, indicating their DNA methylation-dependent regulation. Together, these results suggested a "poised" state of LcTcf3a and LcTcf3b in resting B cells, where LcTcf3a and LcTcf3b were repressed but preparing for fast upregulation during immune response. Our findings proposed that LcTcf3a and LcTcf3b likely contribute to B cell activation in a teleost model and their promoter activities may be regulated by DNA methylation, thus providing insights into the understanding of the teleost B cell immunity.
Keyword :
DNA methylation DNA methylation IgM plus B cells IgM plus B cells Large yellow croaker (Larimichthys crocea) Large yellow croaker (Larimichthys crocea) Tcf3 Tcf3
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| GB/T 7714 | Chen, Qiuxuan , Zhu, Zhuo , Li, Xinran et al. Functional characterization and epigenetic regulation of Tcf3a and Tcf3b during IgM plus B cell activation in large yellow croaker (Larimichthys crocea) [J]. | FISH & SHELLFISH IMMUNOLOGY , 2025 , 166 . |
| MLA | Chen, Qiuxuan et al. "Functional characterization and epigenetic regulation of Tcf3a and Tcf3b during IgM plus B cell activation in large yellow croaker (Larimichthys crocea)" . | FISH & SHELLFISH IMMUNOLOGY 166 (2025) . |
| APA | Chen, Qiuxuan , Zhu, Zhuo , Li, Xinran , Lai, Guolong , Cui, Zhengwei , Chen, Xinhua et al. Functional characterization and epigenetic regulation of Tcf3a and Tcf3b during IgM plus B cell activation in large yellow croaker (Larimichthys crocea) . | FISH & SHELLFISH IMMUNOLOGY , 2025 , 166 . |
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Excessive-reliance on antibiotics to treat Pseudomonas plecoglossicida is detrimental to the sustainable development of large yellow croaker (Larimichthys crocea). In this research, we isolated Ligilactobacillus murinus for the first time in the aquatic animal (large yellow croaker) and named it S27. with potential as an alternative to antibiotics. In vitro testing demonstrated that strain S27 exhibits potential as an alternative to antibiotics. A total of 1, 280 fish were divided into four groups and fed diets with varying L. murinus strain S27 concentrations: 0 CFU/g (CON), 3 x 10(7) CFU/g (LM1), 3 x 10(8) CFU/g (LM2), and 3 x 10(9) CFU/g (LM3). Following an 8-week feeding trial, dietary supplementation with L. murinus strain S27 significantly improved growth performance, including final body weight (FBW), weight gain rate (WGR), specific growth rate (SGR), and feed efficiency (FE), compared to the CON (p < 0.05). We also found that the L. murinus strain S27 diet improved intestinal health by upregulating the expression of tight junction protein coding genes (p < 0.05), downregulating the expression of proinflammatory cytokines (p < 0.05), and increasing the activities of antioxidant enzymes (p < 0.05). Gut microflora analysis revealed that L. murinus strain S27 significantly affected the composition of gut microflora community. Furthermore, following infection with Pseudomonas plecoglossicida strain PQLYC4, the L. murinus strain S27 diet groups improved intestinal structure and increased antimicrobial peptide genes (p < 0.05) and nitric oxide content (p < 0.05), accompanied by a reduced bacterial load (p < 0.05) and improved survival rate of large yellow croaker (p < 0.01). Together, our findings suggest that L. murinus strain S27 may have the potential to replace antibiotics for the prevention and control of P. plecoglossicida, contributing to the sustainable development of large yellow croaker farming industry.
Keyword :
Anti-inflammation Anti-inflammation Antioxidant capacity Antioxidant capacity Gut microflora Gut microflora Larimichthys crocea Larimichthys crocea Ligilactobacillus murinus Ligilactobacillus murinus Pseudomonas plecoglossicida Pseudomonas plecoglossicida
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| GB/T 7714 | Lin, Zhixin , Zeng, Jianping , Zhai, Yu et al. Multiple probiotic effects of Ligilactobacillus murinus strain S27 on large yellow croaker (Larimichthys crocea): Promoting growth, improving intestinal health, and enhancing resistance against Pseudomonas plecoglossicida [J]. | AQUACULTURE , 2025 , 607 . |
| MLA | Lin, Zhixin et al. "Multiple probiotic effects of Ligilactobacillus murinus strain S27 on large yellow croaker (Larimichthys crocea): Promoting growth, improving intestinal health, and enhancing resistance against Pseudomonas plecoglossicida" . | AQUACULTURE 607 (2025) . |
| APA | Lin, Zhixin , Zeng, Jianping , Zhai, Yu , Shi, Yuan , Chen, Xinhua . Multiple probiotic effects of Ligilactobacillus murinus strain S27 on large yellow croaker (Larimichthys crocea): Promoting growth, improving intestinal health, and enhancing resistance against Pseudomonas plecoglossicida . | AQUACULTURE , 2025 , 607 . |
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Myocardial infarction triggers limited repair in adult mammals but robust regeneration in zebrafish. Epigenetic regulation and immune responses are recognized as critical for successful regeneration. However, the molecular links between these processes have not been fully elucidated. By performing single-cell RNA sequencing of zebrafish ventricular cardiomyocytes after injury, we identified a regeneration-induced immunomodulatory cluster that specifically expressed the histone demethylase gene kdm7aa. Functional perturbations, including CRISPR/Cas9-mediated kdm7aa mutation and pharmacological inhibition of Kdm7aa activity using TC-E5002, impaired cardiac regeneration. Bulk RNA sequencing showed that kdm7aa drives an inflammatory transcriptional program, prominently activating chemokines such as cxcl8a and cxcl19 that coordinate immune cell recruitment. Cross-species analyses revealed injury-induced Kdm7a upregulation in regeneration-competent neonatal mouse hearts but not in adult mouse or human hearts. These data identified Kdm7aa as a regeneration-induced epigenetic regulator that enabled cardiomyocytes to adopt a transient immune-activating phenotype, linking histone demethylation to chemokine signaling and suggesting a potential therapeutic strategy to enhance mammalian cardiac repair.
Keyword :
chemokines chemokines heart regeneration heart regeneration immune response immune response kdm7aa kdm7aa zebrafish zebrafish
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| GB/T 7714 | Lin, Weibin , Shi, Yuan , Tian, Jin et al. Kdm7aa Orchestrates an Immunomodulatory Cardiomyocyte Program to Enable Zebrafish Heart Regeneration [J]. | INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES , 2025 , 26 (20) . |
| MLA | Lin, Weibin et al. "Kdm7aa Orchestrates an Immunomodulatory Cardiomyocyte Program to Enable Zebrafish Heart Regeneration" . | INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES 26 . 20 (2025) . |
| APA | Lin, Weibin , Shi, Yuan , Tian, Jin , Liu, Xinru , Weng, Fubin , Wu, Zekai . Kdm7aa Orchestrates an Immunomodulatory Cardiomyocyte Program to Enable Zebrafish Heart Regeneration . | INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES , 2025 , 26 (20) . |
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In mammals, the transcription factor Pax5 is a key regulator of B cell development and maturation and specifically expressed in naive/mature B cells but repressed upon B cell activation. Despite the long-standing proposal that Pax5 repression is essential for proper B cell activation, the underlying mechanisms remain largely elusive. In this study, we used a teleost model to elucidate the mechanisms governing Pax5 repression during B cell activation. Treatment with lipopolysaccharide (LPS) and chitosan oligosaccharide (COS) significantly enhanced the antibody secreting ability and phagocytic capacity of IgM+ B cells in large yellow croaker (Larimichthys crocea), coinciding with upregulated expression of activation-related genes, such as Bcl6, Blimp1, and sIgM, and downregulated expression of Pax5. Intriguingly, two CpG islands were identified within the promoter region of Pax5. Both CpG islands exhibited hypomethylation in naive/mature B cells, while CpG island1 was specifically transited into hypermethylation upon B cell activation. Furthermore, treatment with DNA methylation inhibitor 5-aza-2'-deoxycytidine (AZA) prevented the hypermethylation of CpG island1, and concomitantly impaired the downregulation of Pax5 and activation of B cells. Finally, through in vitro methylation experiments, we demonstrated that DNA methylation exerts an inhibitory effect on promoter activities of Pax5. Taken together, our findings unveil a novel mechanism underlying Pax5 repression during B cell activation, thus promoting the understanding of B cell activation process.
Keyword :
B cells B cells DNA methylation DNA methylation IgM IgM large yellow croaker (Larimichthys crocea) large yellow croaker (Larimichthys crocea) Pax5 Pax5
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| GB/T 7714 | Shi, Yuan , Zhu, Zhuo , Chen, Qiuxuan et al. DNA methylation regulates B cell activation via repressing Pax5 expression in teleost [J]. | FRONTIERS IN IMMUNOLOGY , 2024 , 15 . |
| MLA | Shi, Yuan et al. "DNA methylation regulates B cell activation via repressing Pax5 expression in teleost" . | FRONTIERS IN IMMUNOLOGY 15 (2024) . |
| APA | Shi, Yuan , Zhu, Zhuo , Chen, Qiuxuan , Chen, Xinhua . DNA methylation regulates B cell activation via repressing Pax5 expression in teleost . | FRONTIERS IN IMMUNOLOGY , 2024 , 15 . |
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Mucosal immunity in mucosa-associated lymphoid tissues (MALTs) plays crucial roles in resisting infection by pathogens, including parasites, bacteria and viruses. However, the mucosal immune response in the MALTs of large yellow croaker (Larimichthys crocea) upon parasitic infection remains largely unknown. In this study, we investigated the role of B cells and T cells in the MALTs of large yellow croaker following Cryptocaryon irritans infection. Upon C. irritans infection, the total IgM and IgT antibody levels were significantly increased in the skin mucus and gill mucus. Notably, parasite-specific IgM antibody level was increased in the serum, skin and gill mucus following parasitic infection, while the level of parasite-specific IgT antibody was exclusively increased in MALTs. Moreover, parasitic infection induced both local and systemic aggregation and proliferation of IgM+ B cells, suggesting that the increased levels of IgM in mucus may be derived from both systemic and mucosal immune tissues. In addition, we observed significant aggregation and proliferation of T cells in the gill, head kidney and spleen, suggesting that T cells may also be involved in the systemic and mucosal immune responses upon parasitic infection. Overall, our findings provided further insights into the role of immunoglobulins against pathogenic infection, and the simultaneous aggregation and proliferation of both B cells and T cells at mucosal surfaces suggested potential interactions between these two major lymphocyte populations during parasitic infection.
Keyword :
B cells B cells Cryptocaryon irritans Cryptocaryon irritans Immunoglobulins Immunoglobulins Large yellow croaker ( Larimichthys crocea ) Large yellow croaker ( Larimichthys crocea ) T cells T cells
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| GB/T 7714 | Ding, Yangyang , Zhang, Yameng , Shen, Yibo et al. Aggregation and proliferation of B cells and T cells in MALTs upon Cryptocaryon irritans infection in large yellow croaker Larimichthys crocea [J]. | FISH & SHELLFISH IMMUNOLOGY , 2024 , 149 . |
| MLA | Ding, Yangyang et al. "Aggregation and proliferation of B cells and T cells in MALTs upon Cryptocaryon irritans infection in large yellow croaker Larimichthys crocea" . | FISH & SHELLFISH IMMUNOLOGY 149 (2024) . |
| APA | Ding, Yangyang , Zhang, Yameng , Shen, Yibo , Zhang, Yihan , Li, Zhangqi , Shi, Yuan et al. Aggregation and proliferation of B cells and T cells in MALTs upon Cryptocaryon irritans infection in large yellow croaker Larimichthys crocea . | FISH & SHELLFISH IMMUNOLOGY , 2024 , 149 . |
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Background: Mesaconitine (MA), a diester-diterpenoid alkaloid extracted from the medicinal herb Aconitum carmichaelii, is commonly used to treat various diseases. Previous studies have indicated the potent toxicity of aconitum despite its pharmacological activities, with limited understanding of its effects on the nervous system and the underlying mechanisms.Methods: HT22 cells and zebrafish were used to investigate the neurotoxic effects of MA both in vitro and in vivo, employing multi-omics techniques to explore the potential mechanisms of toxicity.Results: Our results demonstrated that treatment with MA induces neurotoxicity in zebrafish and HT22 cells. Subsequent analysis revealed that MA induced oxidative stress, as well as structural and functional damage to mitochondria in HT22 cells, accompanied by an upregulation of mRNA and protein expression related to autophagic and lysosomal pathways. Furthermore, methylated RNA immunoprecipitation sequencing (MeRIP-seq) showed a correlation between the expression of autophagy-related genes and N6-methyladenosine (m6A) modification following MA treatment. In addition, we identified METTL14 as a potential regulator of m6A methylation in HT22 cells after exposure to MA.Conclusion: Our study has contributed to a thorough mechanistic elucidation of the neurotoxic effects caused by MA, and has provided valuable insights for optimizing the rational utilization of traditional Chinese medicine formulations containing aconitum in clinical practice.
Keyword :
autophagy autophagy mesaconitine mesaconitine N6-methyladenosine modification N6-methyladenosine modification neurotoxicity neurotoxicity proteomic proteomic
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| GB/T 7714 | Lin, Xiaohuang , Zhang, Jian , Wu, Zekai et al. Involvement of autophagy in mesaconitine-induced neurotoxicity in HT22 cells revealed through integrated transcriptomic, proteomic, and m6A epitranscriptomic profiling [J]. | FRONTIERS IN PHARMACOLOGY , 2024 , 15 . |
| MLA | Lin, Xiaohuang et al. "Involvement of autophagy in mesaconitine-induced neurotoxicity in HT22 cells revealed through integrated transcriptomic, proteomic, and m6A epitranscriptomic profiling" . | FRONTIERS IN PHARMACOLOGY 15 (2024) . |
| APA | Lin, Xiaohuang , Zhang, Jian , Wu, Zekai , Shi, Yuan , Chen, Mengting , Li, Maodong et al. Involvement of autophagy in mesaconitine-induced neurotoxicity in HT22 cells revealed through integrated transcriptomic, proteomic, and m6A epitranscriptomic profiling . | FRONTIERS IN PHARMACOLOGY , 2024 , 15 . |
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V(D)J recombination is crucial for generating a diverse repertoire of immunoglobulins. Although the V(D)J recombination process has been well characterized in mammals, this process remains largely unexplored in teleosts. In this study, we comprehensively analyzed the IgH locus of a marine fish species large yellow croaker (Larimichthys crocea), and identified 28 V, 19 D, and 8 J gene segments, following a pattern of V-D -J -C -D mu -J mu C mu 1-C mu 2. The V, D, and J gene segments are flanked by consensus recombination signal sequences, with spacer lengths similar to those observed in mammals. The V gene segments are categorized into three distinct families, and exhibited a higher sequence identity compared to those in mammals. Additionally, we designed a set of primers for the examination of the V(D)J recombination in large yellow croaker. RNA-seq analysis showed increased expression of genes related to immunoglobulin production and lymphocyte chemotaxis in IgM + B cells upon Pseudomonas plecoglossicida infection, accompanied by altered expression of V gene segments, suggesting their involvement in the response to P. plecoglossicida infection. Taken together, we identified the IgH locus and V (D)J recombination process of large yellow croaker, which contribute to the understanding of immunoglobulin production and B cell immunity in teleosts, and may provide insights into vaccine development in large yellow croaker.
Keyword :
B cells B cells IgH locus IgH locus Large yellow croaker (Larimichthys crocea) Large yellow croaker (Larimichthys crocea) V(D)J recombination V(D)J recombination
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| GB/T 7714 | Shi, Yuan , Zhu, Zhuo , Li, Qiuhua et al. length Molecular characterization of the IgH locus and V(D)J recombination in large yellow croaker ( Larimichthys crocea) ) [J]. | FISH & SHELLFISH IMMUNOLOGY , 2024 , 154 . |
| MLA | Shi, Yuan et al. "length Molecular characterization of the IgH locus and V(D)J recombination in large yellow croaker ( Larimichthys crocea) )" . | FISH & SHELLFISH IMMUNOLOGY 154 (2024) . |
| APA | Shi, Yuan , Zhu, Zhuo , Li, Qiuhua , Chen, Qiuxuan , Jiang, Wenwu , Chen, Chenyi et al. length Molecular characterization of the IgH locus and V(D)J recombination in large yellow croaker ( Larimichthys crocea) ) . | FISH & SHELLFISH IMMUNOLOGY , 2024 , 154 . |
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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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