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1.
Cancer Immunol Immunother ; 73(9): 164, 2024 Jul 02.
Article in English | MEDLINE | ID: mdl-38954022

ABSTRACT

T cell receptor-engineered T cells (TCR-Ts) therapy is promising for cancer immunotherapy. Most studies have focused on identifying tumor-specific T cell receptors (TCRs) through predicted tumor neoantigens. However, current algorithms for predicting tumor neoantigens are unreliable and many neoantigens are derived from non-coding regions. Thus, the technological platform for identifying tumor-specific TCRs using natural antigens expressed on tumor cells is urgently needed. In this study, tumor organoids-enriched tumor infiltrating lymphocytes (oeT) were obtained by repeatedly stimulation of autologous patient-derived organoids (PDO) in vitro. The oeT cells specifically responded to autologous tumor PDO by detecting CD137 expression and the secretion of IFN-γ using enzyme-linked immunospot assay. The measurement of oeT cell-mediated killing of three-dimensional organoids was conducted using a caspase3/7 flow cytometry assay kit. Subsequently, tumor-specific T cells were isolated based on CD137 expression and their TCRs were identified through single-cell RT-PCR analysis. The specificity cytotoxicity of TCRs were confirmed by transferring to primary peripheral blood T cells. The co-culture system proved highly effective in generating CD8+ tumor-specific oeT cells. These oeT cells effectively induced IFN-γ secretion and exhibited specificity in killing autologous tumor organoids, while not eliciting a cytotoxic response against normal organoids. The analysis conducted by TCRs revealed a significant expansion of T cells within a specific subset of TCRs. Subsequently, the TCRs were cloned and transferred to peripheral blood T cells generation engineered TCR-Ts, which adequately recognized and killed tumor cell in a patient-specific manner. The co-culture system provided an approach to generate tumor-specific TCRs from tumor-infiltrating lymphocytes of patients with colorectal cancer, and tumor-specific TCRs can potentially be used for personalized TCR-T therapy.


Subject(s)
Coculture Techniques , Lymphocytes, Tumor-Infiltrating , Organoids , Receptors, Antigen, T-Cell , Humans , Lymphocytes, Tumor-Infiltrating/immunology , Lymphocytes, Tumor-Infiltrating/metabolism , Receptors, Antigen, T-Cell/immunology , Receptors, Antigen, T-Cell/metabolism , Organoids/immunology , Antigens, Neoplasm/immunology , Neoplasms/immunology , Neoplasms/therapy , Neoplasms/pathology
2.
Clin Transl Sci ; 17(4): e13784, 2024 04.
Article in English | MEDLINE | ID: mdl-38563414

ABSTRACT

The inhibition of coagulation factor XI (FXI) presents an attractive approach for anticoagulation as it is not expected to increase the risk of clinically relevant bleeding and is anticipated to be at least as effective as currently available anticoagulants. Fesomersen is a conjugated antisense oligonucleotide that selectively inhibits the expression of FXI. The article describes three clinical studies that investigated the safety, pharmacokinetic (PK), and pharmacodynamic (PD) profiles of fesomersen after subcutaneous (s.c.) injection to healthy participants. The studies included participants from diverse ethnic backgrounds (Caucasian, Japanese, and Chinese). Fesomersen demonstrated good safety and tolerability in all three studies. No major bleeding events were observed. After single-dose s.c. injection, fesomersen was rapidly absorbed into the systemic circulation, with maximum fesomersen-equivalent (fesomersen-eq) concentrations (Cmax) in plasma observed within a few hours. After reaching Cmax, plasma fesomersen-eq concentrations declined in a biphasic fashion. The PD analyses showed that the injection of fesomersen led to dose-dependent reductions in FXI activity and increases in activated partial thromboplastin time (aPTT). The maximum observed PD effects were reached between Day 15 and 30, and FXI activity and aPTT returned to near-baseline levels by Day 90 after a single dose. The PK/PD profiles after a single injection were similar among the various ethnic groups. Collectively, the study results suggest that fesomersen has a favorable safety profile and predictable and similar PK and PD profiles across Chinese, Japanese, and Caucasian participants.


Subject(s)
Factor XI , Hemorrhage , Humans , Dose-Response Relationship, Drug , Double-Blind Method , Healthy Volunteers , Partial Thromboplastin Time , East Asian People , White People
3.
Clin Pharmacol Ther ; 115(5): 1025-1032, 2024 May.
Article in English | MEDLINE | ID: mdl-38105467

ABSTRACT

In the past, rifampicin was well-established as strong index CYP3A inducer in clinical drug-drug interaction (DDI) studies. However, due to identified potentially genotoxic nitrosamine impurities, it should not any longer be used in healthy volunteer studies. Available clinical data suggest carbamazepine as an alternative to rifampicin as strong index CYP3A4 inducer in clinical DDI studies. Further, physiologically-based pharmacokinetic (PBPK) modeling is a tool with increasing importance to support the DDI risk assessment of drugs during drug development. CYP3A4 induction properties and the safety profile of carbamazepine were investigated in two open-label, fixed sequence, crossover clinical pharmacology studies in healthy volunteers using midazolam as a sensitive index CYP3A4 substrate. Carbamazepine was up-titrated from 100 mg twice daily (b.i.d.) to 200 mg b.i.d., and to a final dose of 300 mg b.i.d. for 10 consecutive days. Mean area under plasma concentration-time curve from zero to infinity (AUC(0-∞)) of midazolam consistently decreased by 71.8% (ratio: 0.282, 90% confidence interval (CI): 0.235-0.340) and 67.7% (ratio: 0.323, 90% CI: 0.256-0.407) in study 1 and study 2, respectively. The effect was adequately described by an internally developed PBPK model for carbamazepine which has been made freely available to the scientific community. Further, carbamazepine was safe and well-tolerated in the investigated dosing regimen in healthy participants. The results demonstrated that the presented design is appropriate for the use of carbamazepine as alternative inducer to rifampicin in DDI studies acknowledging its CYP3A4 inductive potency and safety profile.


Subject(s)
Midazolam , Rifampin , Humans , Rifampin/adverse effects , Midazolam/pharmacokinetics , Cytochrome P-450 CYP3A , Drug Interactions , Models, Biological , Carbamazepine/adverse effects , Cytochrome P-450 CYP3A Inhibitors/pharmacology
4.
J Migr Health ; 7: 100185, 2023.
Article in English | MEDLINE | ID: mdl-37007282

ABSTRACT

The current study aims to examine the mental health conditions and the associated predictors among Chinese international students. A sample of 256 Chinese international students aged 16 or above living primarily in Canada were asked to complete an online survey. Mental health conditions were assessed with the Depression, Anxiety, and Stress Scale-21 and the Physical and Mental Health Summary Scales. 15.3%, 20.4%, and 10.5% of respondents reported severe to extremely severe depression, anxiety, and stress levels, respectively. Univariate analysis of variance models and multiple linear regression models identified education and financial status as significant sociodemographic predictors while controlling for the effect of physical health status. Higher financial status and lower level of education were associated with better mental health conditions. These findings shed light on our understanding of mental health conditions and the risk factors among Chinese international students during the COVID-19 pandemic.

5.
ACS Nano ; 17(3): 1739-1763, 2023 02 14.
Article in English | MEDLINE | ID: mdl-36683285

ABSTRACT

The outbreak of COVID-19 provided a warning sign for society worldwide: that is, we urgently need to explore effective strategies for combating unpredictable viral pandemics. Protective textiles such as surgery masks have played an important role in the mitigation of the COVID-19 pandemic, while revealing serious challenges in terms of supply, cross-infection risk, and environmental pollution. In this context, textiles with an antivirus functionality have attracted increasing attention, and many innovative proposals with exciting commercial possibilities have been reported over the past three years. In this review, we illustrate the progress of textile filtration for pandemics and summarize the recent development of antiviral textiles for personal protective purposes by cataloging them into three classes: metal-based, carbon-based, and polymer-based materials. We focused on the preparation routes of emerging antiviral textiles, providing a forward-looking perspective on their opportunities and challenges, to evaluate their efficacy, scale up their manufacturing processes, and expand their high-volume applications. Based on this review, we conclude that ideal antiviral textiles are characterized by a high filtration efficiency, reliable antiviral effect, long storage life, and recyclability. The expected manufacturing processes should be economically feasible, scalable, and quickly responsive.


Subject(s)
COVID-19 , Humans , Pandemics/prevention & control , Textiles , Masks , Filtration
6.
J Med Virol ; 95(1): e28348, 2023 01.
Article in English | MEDLINE | ID: mdl-36436921

ABSTRACT

Viral infections trigger a wide range of immune responses thought to drive tumorigenesis and malignant progression. Dissecting virus-induced changes in the tumor immune microenvironment (TIME) is therefore crucial to identify key leukocyte populations that may represent novel targets for cancer therapy. Single-cell sequencing approaches have now been widely applied to the analysis of various tumors, thus enabling multiomics characterization of the highly heterogeneous TIME that bulk-sequencing cannot fully elucidate. In this review, we summarized key recent findings from sequencing studies of the immune infiltrate and antitumor response in virus-associated cancers at single cell resolution. Additionally, we also reviewed recent developments in immunotherapy for virus-associated cancers. We anticipate that the strategic use of single-cell sequencing will advance our understanding of the TIME of viral cancers, leading to the development of more potent novel treatments.


Subject(s)
Head and Neck Neoplasms , Humans , Immunotherapy , Cell Transformation, Neoplastic , Tumor Microenvironment
7.
Antibiotics (Basel) ; 13(1)2023 Dec 19.
Article in English | MEDLINE | ID: mdl-38275314

ABSTRACT

Antimicrobial peptides (AMPs) that exert multiple functions are considered promising candidates to combat the bacterial drug resistance crisis. Nowadays, targeted peptide modification has been widely recognised to improve biological activity and make up for deficiencies in clinical applications such as toxicity. In this study, a helix-loop peptide was isolated and identified from the skin secretion of the Wuyi torrent frog Amolops wuyiensis, namely, ranatuerin-2-AW (R2AW) (GFMDTAKNVAKNVAATLLDKLKCKITGGC). Target modifications were made to R2AW to study the structure-activity relationships and to optimise its bioactivities. Five analogues were progressively designed via residue substitution and truncation and the antibacterial and anticancer activities were evaluated. We found that the serine-substitution and cyclic-domain-deletion products showed similar antibacterial activity to the natural peptide R2AW, implying that the disulphide bridge and Rana box were dispensable for the antibacterial activity of ranatuerin-2 peptides. Notably, the cationicity- and hydrophobicity-enhanced variant, [Lys4,19, Leu20]R2AW(1-22)-NH2, exhibited significantly optimised antibacterial and anticancer activities. Additionally, it killed bacteria by membrane disruption at a highly efficient rate. Moreover, [Lys4,19, Leu20]R2AW(1-22)-NH2 exerted potential in vivo efficacy in a methicillin-resistant Staphylococcus aureus (MRSA)-infected waxworm model. Overall, this study demonstrated some rational design ideas for optimising the dual antibacterial and anticancer activities of ranatuerin-2 peptides and it proposes [Lys4,19, Leu20]R2AW(1-22)-NH2 as an appealing candidate for therapeutic development.

8.
Front Cell Infect Microbiol ; 12: 1014530, 2022.
Article in English | MEDLINE | ID: mdl-36325463

ABSTRACT

Purpose: Leptospirosis is a zoonotic disease caused by pathogenic spirochetes of the genus Leptospira. However, there is currently no consensual definition or diagnostic criteria for severe and different forms of leptospirosis. Therefore, more insight on clinical manifestations, risk factors, and outcomes of leptospirosis is warranted. The identification of leptospirosis with distinct clinical manifestations and prognosis in our population. Methods: Multiple correspondence analysis and hierarchical classification on principal components were presented to identify different clinical types of leptospirosis. The outcomes were clinical phenotypes, laboratory and imaging findings, and prognosis. Results: The 95 enrolled patients had median values of 54.0 years (39.0-65.0) for age, 9.0 (7.0-14.0) for total hospital stay lengths, of whom 86.3% was male and 40.0% was transferred to ICU. Three clinical types were distinguished: mild leptospirosis (n=43, 45.3%) with less organ dysfunction and shorter hospital stays; respiratory leptospirosis (n=28, 29.5%) with hemoptysis, and respiratory and circulatory failure; and hepato-renal leptospirosis (n=24, 25.3%) with worst liver and kidney dysfunction. Total hospital mortality was 15.8% and was associated with dyspnea and high levels of neutrophil counts. Conclusions: The identification of leptospirosis with distinct clinical manifestations and prognosis in our population may assist clinicians to distinguish leptospirosis-like disease. Moreover, dyspnea and neutrophil count were found to be independent risk factors for severe leptospirosis progression.


Subject(s)
Leptospira , Leptospirosis , Animals , Male , Leptospirosis/diagnosis , Retrospective Studies , Zoonoses , Dyspnea/complications
9.
J Leukoc Biol ; 112(5): 1079-1087, 2022 11.
Article in English | MEDLINE | ID: mdl-35730799

ABSTRACT

Primary biliary cholangitis (PBC) is characterized as interlobular bile duct injury and fibrosis, which results from the loss of tolerance to self-antigens. However, the exact pathologic mechanism leading to injury and fibrosis in PBC patients is not fully understood. Therefore, in this study, we examined the role of the T cell subsets in PBC patients and healthy controls (HCs). A higher number of invariant Natual killer T (iNKT) cells as well as CD3+ CD56+ αGalcer-CD1d tetramer- T cells were found in patients with PBC compared with HCs. Moreover, these 2 T subpopulations produced significantly higher levels of Interleukin (IL)-17A in PBC patients than those in in HCs, which has also been positively correlated with the disease severity. Furthermore, the level of IL-17A produced by these 2 subpopulations was increased after stimulation of the autoantibodies in patients with PBC. Also, the elevated IL-17A levels promoted the PBC-related fibrosis, thus presenting a change in frequencies and functions of these cell phenotypes in the deterioration of the duct damage-related fibrosis. This study clarified PBC patients' distinct T subpopulations characteristics, providing evidence-based diagnostic and therapies for these patients. The correlation between unclassical T subsets and IL-17A may provide a novel target for the immunotherapy of PBC.


Subject(s)
Liver Cirrhosis, Biliary , Natural Killer T-Cells , Humans , Interleukin-17 , Liver Cirrhosis , Fibrosis , Autoantigens , Autoantibodies , Antigens, CD1d
10.
Cancer Med ; 10(23): 8338-8351, 2021 12.
Article in English | MEDLINE | ID: mdl-34664425

ABSTRACT

BACKGROUND: Cetuximab is used for colorectal cancer (CRC) treatment. However, the early biomarker of treatment efficacy of cetuximab has not been identified. METHODS: After 1 year of cetuximab treatment, patients were divided into an effective group and an ineffective group. The interleukin-33 (IL-33) level and the distribution of lymphatic cells in patients were investigated by analyzing the peripheral blood mononuclear cells via flow cytometry analysis and ELISA. The correlation between IL-33 immunomodulatory effect and cetuximab treatment efficacy was determined through experiments in vivo and in vitro. RESULTS: The IL-33 level in the peripheral blood was increased at 4 weeks after cetuximab administration of effective group, meanwhile, the osteopontin (OPN) was reduced. Whereas neither IL-33 level nor OPN level of ineffective patients changed. In the effective group, the number of natural killer (NK) and CD8+ T cells were increased. Moreover, CD137 and CD107a expression on NK cells were higher in the effective group compared to the ineffective group. In vitro cetuximab treatment also increased the number of NK and CD8+ T cells as well as CD137 and CD107a expression upon IL-33 stimulation. Moreover, the secretion of OPN was inhibited by IL-33 administration in cetuximab-treated PBMCs from the effective group patients. IL-33 upregulated the cytotoxicity of NK cells and inhibited tumor cells growth in the effective cetuximab treatment mice. CONCLUSION: Effective cetuximab treatment induced a change of IL-33 and OPN at the early stage and triggered the NK cells antitumor activity. Consequently, significantly increased IL-33 level and decreased OPN level in the peripheral blood at the early treatment are proposed as potential predictors of cetuximab treatment efficacy.


Subject(s)
Antineoplastic Agents, Immunological/therapeutic use , Cetuximab/therapeutic use , Colorectal Neoplasms/drug therapy , Interleukin-33/metabolism , Animals , Antineoplastic Agents, Immunological/pharmacology , Biomarkers, Tumor/metabolism , CD8-Positive T-Lymphocytes/metabolism , Case-Control Studies , Cetuximab/pharmacology , Female , Humans , Killer Cells, Natural/metabolism , Lysosomal-Associated Membrane Protein 1/metabolism , Male , Mice , Mice, Nude , Middle Aged , Osteopontin/metabolism , Tumor Necrosis Factor Receptor Superfamily, Member 9/metabolism , Xenograft Model Antitumor Assays
11.
Front Immunol ; 12: 666370, 2021.
Article in English | MEDLINE | ID: mdl-34168644

ABSTRACT

Background: Chronic liver fibrosis is an inevitable stage for the development of patients with chronic hepatitis B (CHB). However, anti-fibrotic therapies have been unsuccessful so far. The biological functions and molecular mechanisms of long non-coding RNAs (lncRNAs) in the host immune system during chronic hepatitis B virus (HBV) infection, especially in fibrosis, are still largely unknown. Method: The total RNA of peripheral blood mononuclear cells (PBMCs) from asymptomatic carriers (ASCs) or CHB receiving at least 8 years of anti-viral treatments was analyzed using Arraystar microarray and validated via quantitative real-time PCR (qRT-PCR). Correlation analysis was conducted based on correlation coefficients, Clusterprofile, and RNA Interactome Database (RAID). The functions of lncRNA in monocytes were determined via loss-of-function RNAi or gain-of-function lentivirus assays. The expression levels of mRNAs or proteins were evaluated using qRT-PCR, western blotting assay, or enzyme linked immunosorbent assays (ELISA). Results: A total of 1,042 mRNA transcripts (630 up-regulated and 412 down-regulated) were identified being differentially expressed between ASC and CHB patients. Through enrichment analysis we focused on the transforming growth factor beta (TGF-ß) signaling pathway and validated their expression in a larger cohort. Moreover, we found that lncRNA ENST00000519726 (lncRNA-HEIM) was highly expressed in monocytes and further up-regulated upon HBV infection. LncRNA-HEIM played an important role in CHB patients with long-term antiviral treatments, and its elevated expression was remarkably correlated with the TGF-ß signaling pathway, especially with the two members namely TGF-ß and SMAD4. Furthermore, altering the endogenous lncRNA-HEIM level in monocytes significantly affected the production of TGF-ß, as well as the fibrosis of hepatic stellate cells by affecting the expression of collagen I and α-smooth muscle actin (α-SMA). Conclusion: These findings not only added knowledge to the understanding of the roles of which lncRNA-HEIM played in the activation of HSCs in CHB patients with long-term medication, but also provided a promising therapeutic target in the future treatment for liver fibrosis.


Subject(s)
Hepatitis B, Chronic/immunology , Liver Cirrhosis/immunology , RNA, Long Noncoding/physiology , Transforming Growth Factor beta/metabolism , Adult , Antiviral Agents/therapeutic use , Carrier State/immunology , Female , Hepatic Stellate Cells/metabolism , Hepatic Stellate Cells/pathology , Hepatitis B virus , Hepatitis B, Chronic/drug therapy , Hepatitis B, Chronic/pathology , Humans , Leukocytes, Mononuclear/metabolism , Liver Cirrhosis/drug therapy , Liver Cirrhosis/pathology , Male , Middle Aged , Monocytes/metabolism , RNA, Long Noncoding/genetics , RNA, Messenger/genetics , Signal Transduction , Smad4 Protein/genetics , Smad4 Protein/metabolism , Transforming Growth Factor beta/genetics
12.
Mikrochim Acta ; 187(6): 322, 2020 05 12.
Article in English | MEDLINE | ID: mdl-32394285

ABSTRACT

Nitrogen-doped graphene quantum dots (N-GQDs) were synthesized by direct electrolysis of a carbon cloth electrode coated with nitrogen-doped nanomesh graphene (NG) in high yield (~ 25%). The N-GQDs emit intense blue fluorescence with a quantum yield (QY) of 10% ± 3%. Meanwhile, the N-GQDs are rich in hydroxyl, carboxyl, basic pyridinic nitrogen, and nitro groups, which are conducive to strengthen the interaction between N-GQDs and Fe3+ for highly sensitive determination of Fe3+ ions. Specifically, the determination for Fe3+ was conducted at different concentrations of N-GQD solution with a wide linear range of 10-1000 µM (150 µg·mL-1) and a low detection limit of 0.19 µM (10 µg·mL-1). Moreover, the fluorescence quenching mechanism illustrated that the functional groups generated by electrochemical oxidation enhanced the interaction of N-GQDs and Fe3+, and the narrow band gap (2.83 eV) of N-GQDs accomplished electron transfer from N-GQDs to Fe3+ easily. Graphical abstract A highly conductive carbon cloth electrode coated with nitrogen-doped nanomesh graphene (NG) was developed to prepared nitrogen-doped graphene quantum dots (N-GQDs) which was endowed with a wide linear range from 10 to 1000 µM (150 µg/mL) and a low detection limit of 0.19 µM (10 µg/mL) in the determination of Fe3+.

13.
Phys Rev E ; 101(1-1): 012126, 2020 Jan.
Article in English | MEDLINE | ID: mdl-32069594

ABSTRACT

Heat transport in one-dimensional (1D) momentum-conserved lattices is generally assumed to be anomalous, thus yielding a power-law divergence of thermal conductivity with system length. However, whether heat transport in a two-dimensional (2D) system is anomalous or not is still up for debate because of the difficulties involved in experimental measurements or due to the insufficiently large simulation cell size. Here we simulate energy and momentum diffusion in the 2D nonlinear lattices using the method of fluctuation correlation functions. Our simulations confirm that energy diffusion in the 2D momentum-conserved lattices is anomalous and can be well described by the Lévy-stable distribution. As is expected, we verify that 2D nonlinear lattices with on-site potentials exhibit normal energy diffusion, independent of the dimension. Contrary to the hypothesis of a 1D system, we further clarify that anomalous heat transport in the 2D momentum-conserved system cannot be corroborated by the momentum superdiffusion any longer. Our findings offer some valuable insights into mechanisms of thermal transport in 2D system.

14.
Phytochemistry ; 136: 65-69, 2017 Apr.
Article in English | MEDLINE | ID: mdl-28104231

ABSTRACT

Polyacetylene glycosides, (6Z, 12E)-tetradecadiene-8,10-diyne-1-ol-3(R)-O-ß-D-glucopyranoside (trivially named coreoside E) and (6Z, 12E)-tetradecadiene-8,10-diyne-1-ol-3(R)-O-ß-L-arabinopyranosyl-(1 â†’ 2)-ß-D-glucopyranoside (trivially named coreoside F), were isolated from buds of Coreopsis tinctoria Nutt., together with one known compound, coreoside B. Their chemical structures were elucidated by extensive spectroscopic analysis and on the basis of their chemical reactivities. Coreoside E exhibited high levels of antimicrobial activity against Staphylococcus aureus and Bacillus anthracis with minimum inhibitory concentrations of 27 ± 0.27 and 18 ± 0.40 µM, respectively, whereas coreoside F and coreoside B showed weak antimicrobial activity against S. aureus and B. anthracis.


Subject(s)
Anti-Infective Agents/isolation & purification , Anti-Infective Agents/pharmacology , Coreopsis/chemistry , Glycosides/isolation & purification , Glycosides/pharmacology , Polyynes/isolation & purification , Polyynes/pharmacology , Anti-Infective Agents/chemistry , Bacillus anthracis/drug effects , Glucosides , Glycosides/chemistry , Microbial Sensitivity Tests , Molecular Structure , Polyynes/chemistry , Staphylococcus aureus/drug effects
15.
Mitochondrial DNA A DNA Mapp Seq Anal ; 27(6): 4261-4263, 2016 11.
Article in English | MEDLINE | ID: mdl-27207561

ABSTRACT

Beach conger (Conger japonicus) is a demersal and carnivorous species belonging to the family Congridae. In the present study, the complete mitochondrial genome of the C. japonicus was first determined. The mitochondrial genome of C. japonicus is 17,778 nucleotides, comprising 13 protein-coding genes, 2 ribosomal RNA genes, 22 tRNA genes, and 2 main non-coding regions (the control region and the origin of the light strand replication), which is consistent with other vertebrates. However, its gene order is different from other vertebrates (except for C. myriaster). The Cytb gene, tRNAThr and the control region are located between the ND5 gene and the ND6 gene in C. japonicus while they are between the ND6 gene and the tRNAPhe gene in other vertebrates. The same gene order also appeared in C. myriaster. The mitochondrial genome of C. japonicus and C. myriaster, which are currently the only two members of Conger genus with complete mitochondrial genome, appeared in the gene rearrangement, so we speculated that the mitochondrial genome of all species from Conger genus may appear in the gene rearrangement. However, to clarify the speculation, more mitochondrial genomes of Conger genus will be needed in the future. In addition, phylogenetic analysis result demonstrated that C. japonicus and C. myriaster clustered in a clade and formed a sister relationship.


Subject(s)
Eels/genetics , Gene Order/ethics , Genome, Mitochondrial/genetics , Animals , DNA, Mitochondrial/genetics , Gene Rearrangement/genetics , Phylogeny , RNA, Transfer/genetics , Sequence Analysis, DNA/methods
16.
Sci Rep ; 6: 21902, 2016 Feb 23.
Article in English | MEDLINE | ID: mdl-26902509

ABSTRACT

The miiuy croaker, Miichthys miiuy, is a representative Sciaenidae known for its exceptionally large otoliths. This species mainly inhabits turbid aquatic environments with mud to sandy mud bottoms. However, the characteristics of the immune system of this organism and its specific aquatic environment adaptations are poorly understood. Thus, we present a high-quality draft genome of miiuy croaker. The expansions of several gene families which are critical for the fish innate immune system were identified. Compared with the genomes of other fishes, some changes have occurred in the miiuy croaker sensory system including modification of vision and expansion of taste and olfaction receptors. These changes allow miiuy croaker to adapt to the environment during the long-term natural selection. The genome of miiuy croaker may elucidate its relatively well-developed immune defense and provide an adaptation model of the species thriving in turbid deep aquatic environments.


Subject(s)
Fish Proteins/genetics , Genome , Perciformes/genetics , Phylogeny , Smell/genetics , Vision, Ocular/genetics , Adaptation, Physiological , Animals , Biological Evolution , Female , Fish Proteins/immunology , Gene Expression , Gene Ontology , Immunity, Innate/genetics , Molecular Sequence Annotation , Perciformes/classification , Perciformes/immunology , Receptors, G-Protein-Coupled/genetics , Receptors, G-Protein-Coupled/immunology , Receptors, Odorant/genetics , Receptors, Odorant/immunology , Selection, Genetic , Smell/immunology , Taste Buds/immunology , Taste Buds/metabolism , Vision, Ocular/immunology
17.
Dev Comp Immunol ; 55: 138-43, 2016 Feb.
Article in English | MEDLINE | ID: mdl-26598111

ABSTRACT

The major histocompatibility complex is a highly polymorphic gene superfamily in vertebrates that plays an important role in adaptive immune response. In the present study, we identified 40 full-length miiuy croaker MHC class IIA (Mimi-DAA) functional alleles from 26 miiuy croaker individuals and found that the alleles encode 30 amino acid sequences. A high level of polymorphism in Mimi-DAA was detected in miiuy croaker. The rate of non-synonymous substitutions (d(N)) occurred at a significantly higher frequency than that of synonymous substitutions (d(S)) in the peptide-binding region (PBR) and non-PBR. This result suggests that balancing selection maintains polymorphisms at the Mimi-DAA locus. Phylogenetic analysis based on the full-length sequences showed that the Mimi-DAA alleles clustered into three groups. However, the phylogenetic tree constructed using the exon 2 sequences indicated that the Mimi-DAA alleles clustered into two groups. A total of 22 positively selected sites were identified on the Mimi-DAA alleles after testing for positive selection, and five sites were predicted to be associated with the binding of peptide antigen, suggesting that a few selected residues may play a significant role in immune function.


Subject(s)
Fish Proteins/metabolism , Histocompatibility Antigens Class II/metabolism , Perciformes/immunology , Amino Acid Sequence , Animals , Antigens/immunology , Antigens/metabolism , Binding Sites/genetics , Evolution, Molecular , Fish Proteins/genetics , Histocompatibility Antigens Class II/genetics , Models, Molecular , Molecular Sequence Data , Mutation/genetics , Phylogeny , Polymorphism, Genetic , Protein Binding , Sequence Alignment
18.
Mitochondrial DNA A DNA Mapp Seq Anal ; 27(3): 1599-600, 2016 05.
Article in English | MEDLINE | ID: mdl-25208183

ABSTRACT

The complete mitochondrial genome of the Squatina nebulosa was determined first in the present study. The mitochondrial genome is 16,698 nucleotides, encoding a standard set of 13 protein-coding genes and 2 ribosomal RNA genes, 22 tRNA genes, 1 control region and 1 origin of the light strand replication. The overall base composition of Squatina nebulosa is T 31.4%, C 24.1%, A 30.7%, and G 13.8%, and the A + T content is higher than G + C content. These mitogenome sequence data will play an important role in population genetics and phylogenetic analysis of the Suqatinids.


Subject(s)
Genome, Mitochondrial , Sharks/genetics , Animals , Base Composition , Codon, Initiator/genetics , Codon, Terminator/genetics , DNA, Mitochondrial/chemistry , DNA, Mitochondrial/classification , DNA, Mitochondrial/genetics , Databases, Genetic , Open Reading Frames/genetics , Phylogeny , RNA, Ribosomal/chemistry , RNA, Ribosomal/genetics , RNA, Transfer/chemistry , RNA, Transfer/genetics , Sharks/classification
19.
Chin Med J (Engl) ; 128(20): 2805-11, 2015 Oct 20.
Article in English | MEDLINE | ID: mdl-26481750

ABSTRACT

OBJECTIVE: This review aimed to summarize the relationship between intestinal microbiota metabolism and cardiovascular disease (CVD) and to propose a novel CVD therapeutic target. DATA SOURCES: This study was based on data obtained from PubMed and EMBASE up to June 30, 2015. Articles were selected using the following search terms: "Intestinal microbiota", "trimethylamine N-oxide (TMAO)", "trimethylamine (TMA)", "cardiovascular", and "atherosclerosis". STUDY SELECTION: Studies were eligible if they present information on intestinal microbiota metabolism and atherosclerosis. Studies on TMA-containing nutrients were also included. RESULTS: A new CVD risk factor, TMAO, was recently identified. It has been observed that several TMA-containing compounds may be catabolized by specific intestinal microbiota, resulting in TMA release. TMA is subsequently converted to TMAO in the liver. Several preliminary studies have linked TMAO to CVD, particularly atherosclerosis; however, the details of this relationship remain unclear. CONCLUSIONS: Intestinal microbiota metabolism is associated with atherosclerosis and may represent a promising therapeutic target with respect to CVD management.


Subject(s)
Atherosclerosis/metabolism , Atherosclerosis/microbiology , Gastrointestinal Microbiome/physiology , Humans , Methylamines/metabolism
20.
Dev Comp Immunol ; 52(1): 17-25, 2015 Sep.
Article in English | MEDLINE | ID: mdl-25912355

ABSTRACT

Akirins, which are highly conserved nuclear proteins, are present throughout the metazoan and regulate innate immunity, embryogenesis, myogenesis, and carcinogenesis. This study reports all akirin genes from miiuy croaker and analyzes comprehensively the akirin gene family combined with akirin genes from other species. A second nuclear localization signal (NLS) is observed in akirin2 homologues, which is not in akirin1 homologues in all teleosts and most other vertebrates. Thus, we deduced that the loss of second NLS in akirin1 homologues in teleosts likely occurred in an ancestor to all Osteichthyes after splitting with cartilaginous fish. Significantly, the akirin2(2) gene included six exons interrupted by five introns in the miiuy croaker, which may be caused by the intron insertion event as a novel evidence for the variation of akirin gene structure in some species. In addition, comparison of the genomic neighborhood genes of akirin1, akirin2(1), and akirin2(2) demonstrates a strong level of conserved synteny across the teleost classes, which further proved the deduction of Macqueen and Johnston 2009 that the produce of akirin paralogues can be attributed to whole-genome duplications and the loss of some akirin paralogues after genome duplications. Furthermore, akirin gene family members and relish gene are ubiquitously expressed across all tissues, and their expression levels are increased in three immune tissues after infection with Vibrio anguillarum. Combined with the expression patterns of LEAP-1 and LEAP-2 from miiuy croaker, an intricate network of co-regulation among family members is established. Thus, it is further proved that akirins acted in concert with the relish protein to induce the expression of a subset of downstream pathway elements in the NF-kB dependent signaling pathway.


Subject(s)
Fish Proteins/metabolism , Genes, rel , NF-kappa B/metabolism , Perciformes/physiology , Transcription Factors/metabolism , Amino Acid Sequence , Animals , Computational Biology , Evolution, Molecular , Fish Proteins/genetics , Genome , Humans , Mice , Molecular Sequence Data , Nuclear Proteins/genetics , Phylogeny , Sequence Homology, Amino Acid , Signal Transduction , Transcription Factors/genetics , Transcriptome
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