Publications by authors named "Xiuli Chen"

115 Publications

Proteomics analysis reveals a critical role for the WSSV immediate-early protein IE1 in modulating the host prophenoloxidase system.

Virulence 2022 May 17. Epub 2022 May 17.

Institute of Marine Sciences and Guangdong Provincial Key Laboratory of Marine Biotechnology, Shantou University, Shantou 515063, China.

White spot syndrome virus (WSSV) is a large enveloped double-stranded DNA virus that is a major impediment for shrimp aquaculture worldwide. So far, the mechanisms of WSSV-host interactions are ill-defined. Recent studies have revealed that IE1, an immediate-early protein encoded by WSSV, is a multifunctional modulator implicated in virus-host interactions. In this study, the biological functions of IE1 were further explored by identifying its interacting proteins using GST-pull down and mass spectrometry analysis. A total of 361 host proteins that potentially bind to IE1 were identified. Bioinformatics analysis revealed that the identified IE1-interacting proteins were key molecules involved in various signaling pathways such as prophenoloxidase (proPO) system, PI3K-AKT, MAPK, Focal adhesion, and cell cycle. Among these, the regulatory role of IE1 in the shrimp proPO system was further studied. The Co-immunoprecipitation (Co-IP) results confirmed that IE1 interacted with the Ig-like domain of proPO or proPO-like proteins (proPO1/2 and hemocyanin). In addition, we found that RNAi mediated knockdown of IE1 reduced the viral genes expression and viral loads, as well as caused an increase in the PO activity of hemocytes during infection, whereas recombinant IE1 protein could inhibit the PO activity in a dose-dependent manner. Finally, our result demonstrated that WSSV could suppress the PO activity of hemocytes at the early infection stage. Collectively, our current data indicate that IE1 is a novel viral regulator that negatively modulates the shrimp proPO system, which provide additional insights into the biological functions of IE1 during WSSV infection.
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http://dx.doi.org/10.1080/21505594.2022.2078471DOI Listing
May 2022

Tetracycline biotransformation by a novel bacterial strain Alcaligenes sp. T17.

Sci Total Environ 2022 Apr 8:155130. Epub 2022 Apr 8.

State Key Joint Laboratory of Environmental Simulation and Pollution Control, College of Environmental Sciences and Engineering, Peking University, Beijing 100871, China. Electronic address:

Comprehensive knowledge on the biotransformation of tetracycline (TC) is critical for the improvement of TC removal in the bioremediation process. This work isolated a novel TC-degrading bacterial strain Alcaligenes sp. T17 and explored its degradation ability under different conditions. Temperature and pH could affect the degradation efficiency, and higher temperature as well as neutral and weakly acidic conditions were conducive to the biotransformation. Response surface methodology predicted the maximum degradation rate of TC (94.35%) under the condition of 25.15 mg/L TC, pH 7.23, and inoculation dosage 1.17% at 40 °C. According to the result of disk diffusion tests, the biodegradation products had lower antimicrobial potency than the parent compound. Five potential biodegradation products were identified, and a possible degradation pathway (degrouping, oxidation and ring-opening) was proposed. The draft genome of strain T17 was also determined. Genomic analysis indicated that strain T17 harbored multiple genes that participated in the metabolism of aromatic compounds as well as genes encoding oxygenases. These functional genes may be relevant to TC biotransformation. This study could provide new insights towards the biotransformation of TC mediated by bacteria.
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http://dx.doi.org/10.1016/j.scitotenv.2022.155130DOI Listing
April 2022

Repurposing of the gold drug auranofin and a review of its derivatives as antibacterial therapeutics.

Drug Discov Today 2022 Feb 19. Epub 2022 Feb 19.

Jiangsu Collaborative Innovation Center of Chinese Medicinal Resources Industrialization, School of Pharmacy, School of Medicine & Holistic Integrative Medicine, Nanjing University of Chinese Medicine, 210023 Nanjing, China; State Key Laboratory of Coordination Chemistry, Nanjing University, 210023 Nanjing, China. Electronic address:

Multidrug resistance (MDR) is a significant issue associated with the clinical application of antibiotics. It is also challenging to discover and develop new antibiotics with novel scaffolds. Therefore, the repurposing of existing drugs has become a promising strategy for antibiotic drug discovery. Auranofin, an approved gold metallic drug, has been used for the treatment of rheumatoid arthritis (RA) for many years. Recent research revealed that auranofin has strong antibacterial activity against multiple Gram-positive bacteria by inhibiting thioredoxin reductase (TrxR). These results inspired the development of gold complexes as antibacterial agents. Herein, we discuss recent advances in the development of auranofin and other gold complexes as antibacterial agents, providing a new viewpoint for the treatment of bacterial infection.
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http://dx.doi.org/10.1016/j.drudis.2022.02.010DOI Listing
February 2022

Single-Cell Ribonucleic Acid Sequencing Clarifies Cold Tolerance Mechanisms in the Pacific White Shrimp ().

Front Genet 2021 12;12:792172. Epub 2022 Jan 12.

Guangxi Key Laboratory of Aquatic Genetic Breeding and Healthy Aquaculture, Guangxi Academy of Fishery Sciences, Nanning, China.

To characterize the cold tolerance mechanism of the Pacific white shrimp (), we performed single-cell RNA sequencing (scRNA-seq) of ∼5185 hepatopancreas cells from cold-tolerant (Lv-T) and common (Lv-C) at preferred and low temperatures (28°C and 10°C, respectively). The cells fell into 10 clusters and 4 cell types: embryonic, resorptive, blister-like, and fibrillar. We identified differentially expressed genes between Lv-T and Lv-C, which were mainly associated with the terms "immune system," "cytoskeleton," "antioxidant system," "digestive enzyme," and "detoxification," as well as the pathways "metabolic pathways of oxidative phosphorylation," "metabolism of xenobiotics by cytochrome P450," "chemical carcinogenesis," "drug metabolism-cytochrome P450," and "fatty acid metabolism." Reconstruction of fibrillar cell trajectories showed that, under low temperature stress, hepatopancreas cells had two distinct fates, cell fate 1 and cell fate 2. Cell fate 1 was mainly involved in signal transduction and sensory organ development. Cell fate 2 was mainly involved in metabolic processes. This study preliminarily clarifies the molecular mechanisms underlying cold tolerance in , which will be useful for the breeding of shrimp with greater cold tolerance.
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http://dx.doi.org/10.3389/fgene.2021.792172DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8790290PMC
January 2022

A comprehensive review on biodegradation of tetracyclines: Current research progress and prospect.

Sci Total Environ 2022 Mar 4;814:152852. Epub 2022 Jan 4.

State Key Joint Laboratory of Environmental Simulation and Pollution Control, College of Environmental Sciences and Engineering, Peking University, Beijing 100871, China. Electronic address:

The release of tetracyclines (TCs) in the environment is of significant concern because the residual antibiotics may promote resistance in pathogenic microorganisms, and the transfer of antibiotic resistance genes poses a potential threat to ecosystems. Microbial biodegradation plays an important role in removing TCs in both natural and artificial systems. After long-term acclimation, microorganisms that can tolerate and degrade TCs are retained to achieve efficient removal of TCs under the optimum conditions (e.g. optimal operational parameters and moderate concentrations of TCs). To date, cultivation-based techniques have been used to isolate bacteria or fungi with potential degradation ability. Moreover, the biodegradation mechanism of TCs can be unveiled with the development of chemical analysis (e.g. UPLC-Q-TOF mass spectrometer) and molecular biology techniques (e.g. 16S rRNA gene sequencing, multi-omics sequencing, and whole genome sequencing). In this review, we made an overview of the biodegradation of TCs in different systems, refined functional microbial communities and pure isolates relevant to TCs biodegradation, and summarized the biodegradation products, pathways, and degradation genes of TCs. In addition, ecological risks of TCs biodegradation were considered from the perspectives of metabolic products toxicity and resistance genes. Overall, this article aimed to outline the research progress of TCs biodegradation and propose future research prospects.
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http://dx.doi.org/10.1016/j.scitotenv.2021.152852DOI Listing
March 2022

Metagenomic analysis reveals the response of microbial community in river sediment to accidental antimony contamination.

Sci Total Environ 2022 Mar 16;813:152484. Epub 2021 Dec 16.

State Key Joint Laboratory of Environmental Simulation and Pollution Control, College of Environmental Sciences and Engineering, Peking University, Beijing 100871, China.

The mining of deposits containing metals like antimony (Sb) causes serious environmental issues that threaten human health and ecological systems. However, information on the effect of Sb on freshwater sediment microorganisms and the mechanism of microbial Sb resistance is still very limited. This was the first attempt to explore microbial communities in river sediments impacted by accidental Sb spill. Metagenomic analysis revealed the high relative abundance of Proteobacteria and Actinobacteria in all the studied river sediments, showing their advantage in resistance to Sb pollution. Under Sb stress, microbial functions related to DNA repair and ion transport were enhanced. Increase in heavy metal resistance genes (HMRGs), particularly Sb transport-related arsB gene, was observed at Sb spill-impacted sites. HMRGs were significantly correlated with ARGs and MGEs, and the abundant MGEs at Sb spill-impacted sites might contribute to the increase in HMRGs and ARGs via horizontal gene transfer. Deinococcus, Sphingopyxis and Paracoccus were identified as potential tolerant genera under Sb pressure and might be related to the transmission of HMRGs and ARGs. This study can add new insights towards the effect of accidental metal spill on sediment microbial community.
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http://dx.doi.org/10.1016/j.scitotenv.2021.152484DOI Listing
March 2022

Identification and expression pattern of the sex determination gene fruitless-like in Cherax quadricarinatus.

Comp Biochem Physiol B Biochem Mol Biol 2022 Apr-May;259:110704. Epub 2021 Dec 14.

Guangxi Key Laboratory of Aquatic Genetic Breeding and Healthy Aquaculture, Guangxi Academy of Fisheries Sciences, Nanning, China. Electronic address:

The fruitless (fru) gene has an important function in the courtship behavior and sex determination pathway of Drosophila melanogaster; however, the fru gene has never been reported in shrimps. In this study, the fruitless-like gene was identified in Cherax quadricarinatus (Cqfru) and is reported here for the first time. A sequence analysis revealed a conserved BTB domain in Cqfru which is the same as fru in D. melanogaster. An analysis of the expression level of Cqfru showed that it was highly expressed in the gastrula stage during embryonic development. Furthermore, in situ hybridization and expression distribution in tissues showed that its sexually dimorphic expression may be focused on the hepatopancreas, brains, and gonads. The gonads, brains, and hepatopancreas of males had a higher expression level of Cqfru than those of females; however, the expression level of the abdominal ganglion was found to be higher in females than in males in this study. The results of an RNA interference treatment showed that a knockdown of Cqfru reduced the expression of the insulin-like androgenic gland hormone (IAG) and tumor necrosis factor (TNF). The characteristic fru gene in shrimps is reported here for the first time, with the results providing basic information for research into the sex-determination mechanism in C. quadricarinatus.
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http://dx.doi.org/10.1016/j.cbpb.2021.110704DOI Listing
March 2022

Transcriptome Analysis Reveals Sexual Disparities between Olfactory and Immune Gene Expression in the Olfactory Epithelium of .

Int J Mol Sci 2021 Dec 1;22(23). Epub 2021 Dec 1.

Key Lab of Agricultural Animal Genetics, Breeding and Reproduction of Ministry of Education/Key Lab of Freshwater Animal Breeding, Ministry of Agriculture and Rural Affairs, College of Fisheries, Huazhong Agricultural University, Wuhan 430070, China.

The olfactory organ is an important chemoreceptor in vertebrates. However, the sexual disparities in gene expression patterns in the olfactory organ in fish remain unstudied. Here, we conducted a transcriptome analysis of the olfactory epithelium (OE) of male and female blunt snout bream (Megalobrama amblycephala) to identify the differences. The histological analysis showed that there were 22 leaf-like olfactory lamellaes on one side of the OE of the adult blunt snout bream. The sensory area of OE is enriched with ciliated receptor cells and microvilli receptor cells. The transcriptome analysis showed that only 10 out of 336 olfactory receptor genes (224 ORs, 5 V1Rs, 55 V2Rs, and 52 TAARs) exhibited significant expression differences between males and females, and most of the differentially expressed genes were related to the immune system. We also validated these results using qPCR: 10 OR genes and 6 immunity-related genes significantly differed between males and females. The FISH analysis results indicated that the ORs were mainly expressed at the edge of the olfactory lamellae. Collectively, our study reveals that gender is not an important factor influencing the expression of olfactory receptors, but the expression of immune genes varies greatly between the genders in blunt snout bream.
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http://dx.doi.org/10.3390/ijms222313017DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8658043PMC
December 2021

Comparison of the efficacy and safety of tenofovir and telbivudine in interrupting mother-to-child transmission of hepatitis B virus.

Medicine (Baltimore) 2021 Nov;100(44):e27695

Department of Laboratory Medicine, The Fifth Hospital of Shijiazhuang, North China University of Science and Technology, Shijiazhuang, China.

Abstract: The present study is aimed to evaluate and compare the efficacy and safety of tenofovir (TDF) and telbivudine (TBV) in interrupting hepatitis B virus (HBV) mother-to-child transmission (MTCT), and to provide evidence-based treatment options to clinicians and patients.Hepatitis B e-antigen (HBeAg)-positive pregnant women (644 in total) with high HBV DNA load (≥2 × 105 IU/mL) and who received TDF (n = 214) or TBV (n = 380) in the second or third trimester, or received no treatment (n = 50) were included in this retrospective analysis.HBV DNA levels in mothers at delivery were significantly lower than baseline in the 2 treatment groups. HBV DNA levels in the TDF group were significantly different between the mothers receiving treatment in the second trimester and those receiving treatment in the third trimester; however, significant difference was not observed in the TBV group. The proportion of hepatitis B surface antigen (HBsAg)-positive infants at the age of 7 to 12 months in the TDF, TBV, and control groups were 0.00% (0/174), 0.30% (1/331), and 5.0% (2/40) with a significant difference between the treatment groups and the control group, but no difference between the TDF and TBV group (P > .05). However, no serious adverse events were observed in infants and mothers of all groups.TBV and TDF can effectively reduce the HBV DNA level and MTCT rate in pregnant women with high HBV DNA load (≥2 × 105 IU/mL); both antiviral drugs are safe for infants and mothers. Since TDF was more effective in reducing HBV DNA levels during the second trimester, its use during the period is recommended to prevent HBV MTCT.
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http://dx.doi.org/10.1097/MD.0000000000027695DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8568400PMC
November 2021

Comprehensive Metabolomics Study in Children With Graves' Disease.

Front Endocrinol (Lausanne) 2021 16;12:752496. Epub 2021 Nov 16.

Department of Endocrinology, Genetics and Metabolism, Children's Hospital of Soochow University, Suzhou, China.

Objective: Graves' disease (GD) related hyperthyroidism (HT) has profound effects on metabolic activity and metabolism of macromolecules affecting energy homeostasis. In this study, we aimed to get a comprehensive understanding of the metabolic changes and their clinical relevance in GD children.

Methods: We investigated serum substances from 30 newly diagnosed GD children and 30 age- and gender-matched healthy controls. We explored the metabolomics using ultra-high-performance liquid chromatography-quadrupole time-of-flight mass spectrometry (UHPLC-QTOF/MS) analysis, and then analyzed the metabolomic data multivariate statistical analysis.

Results: By untargeted metabolomic analysis, a total of 730 metabolites were identified in all participants, among which 48 differential metabolites between GD and control groups were filtered out, including amino acids, dipeptides, lipids, purines, etc. Among these metabolites, 33 were detected with higher levels, while 15 with lower levels in GD group compared to controls. Pathway analysis showed that HT had a significant impact on aminoacyl-transfer ribonucleic acid (tRNA) biosynthesis, several amino acids metabolism, purine metabolism, and pyrimidine metabolism.

Conclusion: In this study, untargeted metabolomics analysis, significant variations of serum metabolomic patterns were detected in GD children.
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http://dx.doi.org/10.3389/fendo.2021.752496DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8635134PMC
February 2022

Rapid detection of Decapod iridescent virus 1 (DIV1) by recombinase polymerase amplification.

J Virol Methods 2022 02 18;300:114362. Epub 2021 Nov 18.

Guangxi Key Laboratory of Aquatic Genetic Breeding and Healthy Aquaculture, Guangxi Academy of Fishery Sciences, Nanning, 530021, China. Electronic address:

A recombinase polymerase amplification (RPA) assay was established for the rapid detection of Decapod iridescent virus 1 using primers targeted to the virus's ATPase gene (ORF114R). Optimization experiments showed that the optimal amplification temperature of the RPA assay was 37 °C and that the reaction could be completed within only 15 min. The target band of 15 min. is bright enough. In order to shorten the operational reaction time, consequently, 15 min was the optimal amplification time for our new RPA assay for DIV1. Specificity tests showed that the RPA assay did not exhibit any cross-reactivity with other shrimp pathogens(TSV, MrNV, YHV-1, WSSV, EHP, AHPND, EHNV, RSIV, RGV and IHHNV). Sensitivity tests further showed that the detection limit of the new RPA assay was 200 copies/50 μL, indicating that this assay was more sensitive than a nested polymerase chain reaction (PCR) method. A total of 509 clinical samples were assayed using the RPA and the PCR assays; analysis showed that the RPA method could detect weak-positive samples more effectively than the PCR method. Collectively, these findings indicated that the RPA assay was fast, simple, specific, sensitive and has significant potentials for clinical and on-site testing.
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http://dx.doi.org/10.1016/j.jviromet.2021.114362DOI Listing
February 2022

In-situ active Bisphenol A-degrading microorganisms in mangrove sediments.

Environ Res 2022 04 22;206:112251. Epub 2021 Oct 22.

State Key Joint Laboratory of Environmental Simulation and Pollution Control, College of Environmental Sciences and Engineering, Peking University, Beijing, 100871, China. Electronic address:

Bisphenol A (BPA), as both an endocrine disrupting compound and an important industrial material, is broadly distributed in coastal regions and may cause adverse effects on mangrove ecosystems. Although many BPA degraders have been isolated from various environments, the in-situ active BPA-degrading microorganisms in mangrove ecosystem are still unknown. In this study, DNA-based stable isotope probing in combination with high-throughput sequencing was adopted to pinpoint the microbes actually involved in BPA metabolism in mangrove sediments. Five bacterial genera were speculated to be associated with BPA degradation based on linear discriminant analysis (LDA) effect size (LEfSe) analysis, including Truepera, Methylobacterium, Novosphingobium, Rhodococcus and Rhodobacter. The in-situ BPA degraders were different between mudflat and forest sediments. The Shannon index of microbes in heavy fractions was significantly lower than that in light fractions. Besides, phylogenetic investigation of communities by reconstruction of unobserved states (PICRUSt) demonstrated that the functional genes relevant to cytochrome P450, benzoate degradation, bisphenol degradation and citrate cycle were up-regulated significantly in in-situ BPA-degrading microbes. These findings greatly expanded the knowledge of indigenous BPA metabolic microorganisms in mangrove ecosystems.
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http://dx.doi.org/10.1016/j.envres.2021.112251DOI Listing
April 2022

[Clinical and genetic analysis of five Chinese pedigrees affected with short stature due to variants of ACAN gene].

Zhonghua Yi Xue Yi Chuan Xue Za Zhi 2021 Oct;38(10):942-946

Children's Hospital Affiliated to Soochow University, Suzhou, Jiangsu 215000, China.

Objective: To analyze the clinical and genetic characteristics of five Chinese pedigrees affected with short stature.

Methods: A retrospective analysis was carried out for the clinical data and results of genetic testing for the probands. A literature search was also conducted.

Results: The five probands have all featured short stature with a family history. Genetic testing has revealed that they have harbored variants of the ACAN gene, including p.Val2042Argfs*6, p.Val1597del, c.630-1G>A, c.23delT and c.2026+1G>A(previously reported).

Conclusion: Except for short stature, children harboring heterozygous variants of the ACAN gene may have no involvement of other systems. Some of these children may response to short-term growth hormone treatment.
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http://dx.doi.org/10.3760/cma.j.cn511374-20201021-00737DOI Listing
October 2021

Shifts in structure and function of bacterial community in river and fish pond sediments after a phenol spill.

Environ Sci Pollut Res Int 2022 Feb 8;29(10):14987-14998. Epub 2021 Oct 8.

State Key Joint Laboratory of Environmental Simulation and Pollution Control, College of Environmental Sciences and Engineering, Peking University, Beijing, 100871, China.

Phenol is widely used in industrial processes and has microbial toxicity. However, the effects of a phenol spill on the microbial community are not clear. The present study explored the changes of bacterial communities in river and fish pond sediments after a phenol spill. The bacterial richness and diversity in river sediments were lower on day 30 (36 days after the spill) than on day 0, while they increased in fish pond sediments. The structures and functions of bacterial communities in both river and fish pond sediments were changed, and a more dramatical variation was detected in fish pond sediments. In river sediments, Proteobacteria, Chloroflexi, Acidobacteria, Bacteroidetes, and Nitrospirae were the major bacterial phyla, and Chloroflexi was enriched. In fish pond sediments, genera Brevibacillus dominated bacterial communities initially, and bacterial composition showed a dramatic change on day 30. Most predicted metabolism functions, as well as genetic information processing functions of translation, replication, and repair, were enhanced in both river and fish pond sediments, while they showed an opposite change trend for xenobiotic degradation function. This work could strengthen our understanding of the effects of phenol spills on sediment bacterial communities in both lotic and lentic ecosystems.
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http://dx.doi.org/10.1007/s11356-021-16514-6DOI Listing
February 2022

Corrigendum: Glycated Hemoglobin (HbA1c) Concentrations Among Children and Adolescents With Diabetes in Middle- and Low-Income Countries, 2010-2019: A Retrospective Chart Review and Systematic Review of Literature.

Front Endocrinol (Lausanne) 2021 20;12:714389. Epub 2021 Sep 20.

Department of Pediatric Endocrinology and Inherited Metabolic Diseases, Children's Hospital of Fudan University, Shanghai, China.

[This corrects the article DOI: 10.3389/fendo.2021.651589.].
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http://dx.doi.org/10.3389/fendo.2021.714389DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8485776PMC
September 2021

The complete mitochondrial genome of (Perciformes, Scatophagidae) from Beibu Bay and phylogenetic analysis.

Mitochondrial DNA B Resour 2021 2;6(9):2544-2545. Epub 2021 Aug 2.

Guangxi Key Laboratory of Aquatic Genetic Breeding and Healthy Aquaculture, Nanning, China.

The spotted scat (, Linnaeus, 1766) is a subtropical fish that is widely distributed in the coastal waters of Indo-Pacific. Here, we report the complete mitochondrial genome of . The mitogenome is 16,783 base pairs (56.0% A + T content) in length and consists of 13 protein-coding genes, 22 tRNA genes, 2 rRNA genes and a 1007 bp D-loop region. Phylogenetic analysis showed that the relationship between and was close.
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http://dx.doi.org/10.1080/23802359.2021.1959445DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8344227PMC
August 2021

Identification of Novel Environmental Substances Relevant to Pediatric Graves' Disease.

Front Endocrinol (Lausanne) 2021 23;12:691326. Epub 2021 Jun 23.

Department of Endocrinology, Genetics and Metabolism, Children's Hospital of Soochow University, Suzhou, China.

Graves' disease (GD) is the most common cause of hyperthyroidism, yet a relatively rare disease in the pediatric population. GD is a complex disorder influenced by both genetic and environmental factors. In this study, we aimed to find new environmental factors influencing the pathogenesis of GD. We investigated serum substances in 30 newly diagnosed GD children and 30 age- and gender-matched healthy controls. We measured total iodine by inductively coupled plasma-mass spectrometry (ICP-MS), analyzed perfluorinated compounds ultra-high-performance liquid chromatography coupled with multiple reaction monitoring mass spectrometry (UHPLC-MRM-MS), and explored other environmental substances using ultra-high-performance liquid chromatography-quadrupole time-of-flight mass spectrometry (UHPLC-QTOF/MS) analysis. Twenty-nine single-nucleotide polymorphisms (SNPs) in eight genes related to GD were analyzed by SNaPshot. The serum total iodine was significantly higher in GD group, but its association with GD onset was weak, only with Exp(B) value near 1. The perfluorinated compound levels were not different between the two groups. More importantly, we found 16 environmental substances significantly different between GD and control groups, among which ponasterone A is a risk factor ( = 0.007 and Exp(B) = 14.14), while confertifoline is a protective factor against GD onset ( = 0.002 and Exp(B) = 0.001). We also identified 10 substances correlated significantly with thyroid indices in GD patients, among which seven associated with levels of the thyroid autoantibody TPOAb. No known SNPs were found predisposing GD. In this study, we explored a broad variety of environmental substances and identified novel factors that are potentially involved in the pediatric GD pathogenesis.
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http://dx.doi.org/10.3389/fendo.2021.691326DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8261246PMC
December 2021

The Notch receptor-ligand Delta is involved in the immune response of Penaeus vannamei.

Dev Comp Immunol 2021 12 8;125:104147. Epub 2021 Jun 8.

Department of Biology and Guangdong Provincial Key Laboratory of Marine Biotechnology, Shantou University, Shantou, 515063, China; STU-UMT Joint Shellfish Research Laboratory, Shantou University, Shantou, 515063, China. Electronic address:

In the Notch signaling pathway in vertebrates and invertebrates, the ligand Delta plays crucial roles in cell proliferation, differentiation, and immunity. Although the Notch signaling pathway has recently been implicated in the immune defense of Penaeus vannamei, the association of Delta with this immune response remains unclear. Here, we cloned and characterized the Delta homolog in P. vannamei (designated as PvDelta). PvDelta has a 2493 bp open reading frame (ORF) encoding a putative protein of 830 amino acids. Bioinformatics analysis revealed that PvDelta contains an N-terminal signal peptide, a conserved Notch ligand (MNNL) domain, a Delta/Serrate/Lag-2 segment, 9 epidermal growth factors segments, a transmembrane domain, and shares high homology with other Delta family members. Transcripts of PvDelta were detected in all shrimp tissues tested and were induced by Vibrio parahaemolyticus, white spot syndrome virus (WSSV), and lipopolysaccharide (LPS), indicating its involvement in shrimp immune response. Moreover, after PvDelta knockdown followed by LPS stimulation, the expression of Notch signaling pathway genes (i.e., PvNotch, PvCSL, and PvHey) was downregulated. Finally, shrimp depleted of PvDelta showed a lower survival rate in response to V. parahaemolyticus challenge. In sum, our data reveal that PvDelta is involved in the innate immunity of shrimp by positively modulating the Notch signaling pathway.
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http://dx.doi.org/10.1016/j.dci.2021.104147DOI Listing
December 2021

Characterization of the gut DNA and RNA Viromes in a Cohort of Chinese Residents and Visiting Pakistanis.

Virus Evol 2021 Jan 24;7(1):veab022. Epub 2021 Mar 24.

School of Medicine, Nanjing University of Chinese Medicine, 138 Xianlin Road, Qixia District, Nanjing 210029, China.

Trillions of viruses inhabit the gastrointestinal tract. Some of them have been well-studied on their roles in infection and human health, but the majority remains unsurveyed. It has been established that the composition of the gut virome is highly variable based on the changes of diet, physical state, and environmental factors. However, the effect of host genetic factors, for example ethnic origin, on the gut virome is rarely investigated. Here, we characterized and compared the gut virome in a cohort of local Chinese residents and visiting Pakistani individuals, each group containing twenty-four healthy adults and six children. Using metagenomic shotgun sequencing and assembly of fecal samples, a huge number of viral operational taxonomic units (vOTUs) were identified for profiling the DNA and RNA viromes. National background contributed a primary variation to individuals' gut virome. Compared with the Chinese adults, the Pakistan adults showed higher macrodiversity and different compositional and functional structures in their DNA virome and lower diversity and altered composition in their RNA virome. The virome variations of Pakistan children were not only inherited from that of the adults but also tended to share similar characteristics with the Chinese cohort. We also analyzed and compared the bacterial microbiome between two cohorts and further revealed numerous connections between viruses and bacterial host. Statistically, the gut DNA and RNA viromes were covariant to some extent (<0.001), and they both correlated the holistic bacterial composition and vice versa. This study provides an overview of the gut viral community in Chinese and visiting Pakistanis and proposes a considerable role of ethnic origin in shaping the virome.
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http://dx.doi.org/10.1093/ve/veab022DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8087960PMC
January 2021

The miR-302s/367 Cluster Inhibits the Proliferation and Apoptosis in Sheep Fetal Fibroblasts via the Cell Cycle and PI3K-Akt Pathways.

Mamm Genome 2021 06 6;32(3):183-194. Epub 2021 May 6.

School of Life Science and Technology, Inner Mongolia University of Science and Technology, Baotou, Inner Mongolia, China.

The miR-302s/367 family has the ability to induce mouse and human somatic cell reprogramming into induced pluripotent stem cells (iPSCs), inhibit the proliferation of several types of cancer cells, and even cause cancer cell apoptosis. However, the functions of the miR-302s/367 family in other mammals have not been explored. In the present study, the effects of miR-302s/367 on reprogramming, proliferation, and apoptosis in sheep fetal fibroblasts (SFFs) were evaluated by the delivery of a plasmid vector containing synthetic precursor miRNAs into cells, followed by the induction of mature miR-302s/367 expression. The results showed that miR-302s/367 could not reprogram SFFs into iPSCs; however, they could inhibit both the proliferation and apoptosis of SFFs by targeting CDK2, E2F1, E2F2, and PTEN in the cell cycle and PI3K-Akt pathways. Based on our findings, a novel mechanism was proposed in which the miR-302s/367 family functions in both the proliferation and apoptosis of somatic cells in mammals, suggesting that caution is needed when using miR-302s/367 as therapeutic agent.
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http://dx.doi.org/10.1007/s00335-021-09873-5DOI Listing
June 2021

Glycated Hemoglobin (HbA1c) Concentrations Among Children and Adolescents With Diabetes in Middle- and Low-Income Countries, 2010-2019: A Retrospective Chart Review and Systematic Review of Literature.

Front Endocrinol (Lausanne) 2021 12;12:651589. Epub 2021 Apr 12.

Department of Pediatric Endocrinology and Inherited Metabolic Diseases, Children's Hospital of Fudan University, Shanghai, China.

Objectives: To explore the glycemic control [represented by glycated hemoglobin (HbA1c) concentrations] in children with diabetes mellitus (DM) in east China and middle- and low-income countries, from 2010 to 2019.

Methods: Retrospective data of children with DM from two hospital-based health records were reviewed. Data on HbA1c concentrations, hospitalization due to diabetic ketoacidosis, and patient demographics were collected and analyzed. A systematic review was subsequently performed to analyze publications that report HbA1c concentrations in patients aged <18 years. Patients' characteristics extracted from each publication were used to generate simulated individual data for pooled analysis. HbA1c estimates were derived from steady-state iterations.

Results: Data of 843 diabetic children (aged 11.2 ± 3.9 years) with 2,658 HbA1c measures were retrieved from the two hospitals during the period 2010-2020. The duration of diabetes in the patients was 4.4 ± 2.8 years, and their HbA1c was 8.1 ± 2.2%. Patients who were internal migrants had significantly higher HbA1c concentration than resident patients (8.4 7.9%). The literature review yielded 1,164 publications, and the majority (74.1%) of patient data were published in high-income countries. The patient data extracted from these publications generated 486,416 HbA1c concentration estimates between 2005 and 2019. The average HbA1c concentration during the 15 years was 9.07 ± 2.15%. The mean HbA1c concentrations among children were 8.23, 8.73, 9.20, and 10.11% in high-income country (HIC), upper-middle income country (UMIC), lower-middle income country (LMIC), and low-income country (LIC) respectively. The mean rate of optimized glycemic control (HbA1c <7.5%) among children was 32.4, 27.5, 21.7, and 12.7% in HIC, UMIC, LMIC, and LIC, respectively.

Conclusions: The current study indicated that there is substantial room for improvement in glycemic control in children with DM worldwide, especially in middle- and low-income countries.
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http://dx.doi.org/10.3389/fendo.2021.651589DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8072468PMC
January 2022

The complete mitochondrial genome of the mudskipper, (Gobiiformes, Oxudercidae) from Beibu Bay.

Mitochondrial DNA B Resour 2021 Apr 5;6(4):1337-1338. Epub 2021 Apr 5.

Guangxi Key Laboratory of Aquatic Genetic Breeding and Healthy Aquaculture, Nanning, China.

The mudskipper, (), is an amphibious fish that lives in the intertidal mudflats. It is a cultured economic fish with nutritional and pharmacological value. Here, we report the complete mitochondrial genome sequence of , which is 17,111 base pairs (55.3% A + T content) in length and consists of 13 protein-coding genes, 22 transfer RNAs, 2 ribosomal RNAs, and a 1453 bp D-loop region. The complete mitochondrial genome of will provide useful genetic information for future phylogenetic and taxonomic classification of .
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http://dx.doi.org/10.1080/23802359.2021.1909433DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8023618PMC
April 2021

Cyanobacterial bloom induces structural and functional succession of microbial communities in eutrophic lake sediments.

Environ Pollut 2021 Sep 16;284:117157. Epub 2021 Apr 16.

State Key Joint Laboratory of Environmental Simulation and Pollution Control, College of Environmental Sciences and Engineering, Peking University, Beijing, 100871, China. Electronic address:

Cyanobacterial blooms have considerable effects on lacustrine microbial communities. The current study explored the temporal pattern of sedimentary archaea and bacteria during cyanobacterial bloom in a eutrophic lake. With the sampling period divided into bloom phase, interval phase and end phase according to the variation of physicochemical parameters, the structures and functions of both kingdoms presented a significant difference among phases. Bloom phases could be characterized with the lowest diversity and up-regulated functions in biodegradation of cyanobacterial metabolites driven by bacteria. Archaeal community showed an increased metabolic function during interval phases, including active methanogenesis sensitive to carbon input. The highest diversity and an enrichment of hub genera in microbial network were both observed in end phase, allowing for closer cooperation among groups involved in cyanobacteria-derived organic matter transformation. Although the archaeal community was less variable or diverse than bacteria, methanogenic functions dramatically fluctuated with cyanobacterial dynamics. And microbial groups related to methane cycling played an important role in microbial network. The results provided new insights into temporal dynamics of lacustrine microbial communities and microbial co-occurrence, and highlighted the significant ecological role of methane cycling-related microbes in lake sediments under the influence of cyanobacterial blooms.
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http://dx.doi.org/10.1016/j.envpol.2021.117157DOI Listing
September 2021

The complete mitochondrial genome of yellowfin seabream, (Percoiformes, Sparidae) from Beibu Bay.

Mitochondrial DNA B Resour 2021 Mar 31;6(4):1313-1314. Epub 2021 Mar 31.

Guangxi Key Laboratory of Aquatic Genetic Breeding and Healthy Aquaculture, Guangxi Academy of Fishery Sciences, Nanning, China.

The yellowfin seabream, Houttuyn 1782, is a commercially and ecologically important species and a good model for studies of sexual differentiation. In this study, the complete mitochondrial genome of has been determined, which is 16,635 base pairs (54.3% A + T content) in length and consists of 13 protein-coding genes, 22 transfer RNAs, two ribosomal RNAs, and a 948 bp D-loop region. The phylogenetic analyses showed that has a close relationship with Bleeker 1854.
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http://dx.doi.org/10.1080/23802359.2021.1907804DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8018338PMC
March 2021

The first complete mitochondrial genome of (Schumacher, 1817) (Veneroida: Veneridae).

Mitochondrial DNA B Resour 2021 Mar 24;6(3):1212-1213. Epub 2021 Mar 24.

Guangxi Key Laboratory of Aquatic Genetic Breeding and Healthy Aquaculture, Guangxi Academy of Fishery Sciences, Nanning, China.

Venus clams (Veneridae) including are commercially important fishery resources by their dominance in local benthic communities. However, despite their great diversity, the phylogenetic and taxonomic relationships in venus clams remain poorly understood. In this study, we report the first complete mitochondrial genome of . The mitogenome has 17,532 base pairs (67.9% A + T content) and is made up of a total of 37 genes (13 protein-coding, 22 transfer RNAs and 2 ribosomal RNAs), plus a putative control region. This study will provide useful molecular resources for clarifying taxonomic and phylogenetic confusion in venus clams.
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http://dx.doi.org/10.1080/23802359.2021.1902406DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7995898PMC
March 2021

Long-term safety of infants from mothers with chronic hepatitis B treated with tenofovir disoproxil in China.

Gut 2022 04 31;71(4):798-806. Epub 2021 Mar 31.

Hepatology Center Department 4, Beijing Youan Hospital Capital Medical University, Beijing, China.

Objective: The physical and neuromental development of infants remains uncertain after fetal exposure to tenofovir disoproxil fumarate (TDF) for the prevention of mother-to-child transmission of HBV. We aimed to investigate the safety of TDF therapy during the third trimester of pregnancy.

Design: Infants from a previous randomised controlled trial were recruited for our long-term follow-up (LTFU) study. Mothers with chronic hepatitis B were randomised to receive TDF therapy or no treatment during the third trimester. Infants' physical growth or malformation, bone mineral density (BMD) and neurodevelopment, as assessed using Bayley-III assessment, were examined at 192 weeks of age.

Results: Of 180 eligible infants, 176/180 (98%) were enrolled and 145/176 (82%) completed the LTFU (control group: 75; TDF-treated group: 70). In the TDF-treated group, the mean duration of fetal exposure to TDF was 8.57±0.53 weeks. Congenital malformation rates were similar between the two groups at week 192. The mean body weight of boys in the control and TDF-treated groups was significantly higher (19.84±3.46 kg vs. 18.47±2.34 kg; p=0.03) and within the normal range (18.48±2.35 kg vs. 17.80±2.50 kg; p=0.07), respectively, when compared with the national standard. Other prespecified outcomes (head circumference, height, BMD, and cognitive, motor, social-emotional, and adaptive behaviour measurements) were all comparable between the groups.

Conclusion: Infants with fetal exposure to TDF had normal physical growth, BMD and neurodevelopment at week 192. Our findings provide evidence on the long-term safety of infants after fetal exposure to maternal TDF therapy for preventing hepatitis B transmission.

Trial Registration Number: NCT01488526.
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http://dx.doi.org/10.1136/gutjnl-2020-322719DOI Listing
April 2022

Adsorptive granulomonocytapheresis alters the gut bacterial microbiota in patients with active ulcerative colitis.

J Clin Apher 2021 Jun 18;36(3):454-464. Epub 2021 Feb 18.

Department of Gastroenterology, First Affiliated Hospital of Dalian Medical University, Dalian, Liaoning, China.

Background: Ulcerative colitis (UC) is a refractory disease with unclear etiology. Studies have shown that UC is closely associated with gut microbiota dysbiosis. Adsorptive granulomonocytapheresis (GMA) using an Adacolumn has been found to treat UC effectively, but its underlying mechanism of treatment has not been fully elucidated. In this study, we aimed to investigate the influence of GMA on the gut microbiota in patients with active UC.

Methods: We conducted a single-center prospective analysis of patients with active UC who received GMA therapy and ultimately achieved clinical remission. Stool samples of healthy controls and patients before and after 5 or 10 sessions of GMA therapy were collected. Subsequently, high-throughput sequencing of the 16S rRNA V3 and V4 gene region of the stool was conducted and clustering of operational taxonomic units and species annotation were performed.

Results: Gut microbial profiles in patients with UC were characterized by low bacterial diversity. After 5 or 10 sessions of GMA therapy, the gut microbiota diversity in patients with UC increased and was similar to that of healthy controls. UC was further characterized by increased abundances of Proteobacteria and Bacteroides, as well as decreased abundances of Faecalibacterium, Roseburia, Firmicutes, and Dialister; however, after GMA therapy, the abundance of Bacteroides decreased, whereas those of Faecalibacterium, Roseburia, and Firmicutes increased.

Conclusions: Active UC is associated with gut microbiota dysbiosis. GMA therapy exerts a strong regulatory effect on the gut microbiota in patients with UC.
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http://dx.doi.org/10.1002/jca.21887DOI Listing
June 2021

The complete mitochondrial genome of (Decapoda: Matutidae) from Beibu Bay.

Mitochondrial DNA B Resour 2021 Jan 20;6(1):241-242. Epub 2021 Jan 20.

Guangxi Key Laboratory of Aquatic Genetic Breeding and Healthy Aquaculture, Guangxi Academy of Fishery Sciences, Nanning, China.

The true crabs (Brachyura) including Calappidea are one of the most diverse groups of Decapod crustaceans However, despite their great diversity and commercial importance, phylogenetic and classification relationships within Calappidea are still complicated and controversial. In this study, we report the first complete mitochondrial genome of . The mitogenome has 17,782 base pairs (70.1% A + T content) and is made up of a total of 37 genes (13 protein-coding, 22 transfer RNAs and two ribosomal RNAs), plus a putative control region. This study will provide useful molecular resources for clarifying evolutionary and phylogenetic confusion within Calappidea.
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http://dx.doi.org/10.1080/23802359.2020.1861999DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7832593PMC
January 2021

The complete mitochondrial genome of (Gobiidae: Gobionellinae).

Mitochondrial DNA B Resour 2020 Sep 22;5(3):3406-3407. Epub 2020 Sep 22.

Guangxi Academy of Fishery Sciences, Nanning, Guangxi, China.

is a small freshwater fish with brilliant color in southern China, belonging to the subfamily Gobionellinae. In this study, the complete mitochondrial genome of 16,496 bp from was reported for the first time. It composed of 13 protein-coding genes, 22 tRNA genes, 2 rRNA genes, and 2 non-coding genes. Phylogenetic tree showed that formed a separate lineage. The findings here would be helpful to further researches of
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http://dx.doi.org/10.1080/23802359.2020.1823279DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7781900PMC
September 2020

Liposomes Encapsulating Neoantigens and Black Phosphorus Quantum Dots for Enhancing Photothermal Immunotherapy.

J Biomed Nanotechnol 2020 Sep;16(9):1394-1405

Colorectal cancer frustrates with high relapse after the traditional treatment including surgery and chemotherapy. Neoantigen-based therapeutic vaccine has achieved high response rate in the clinical trials rising the immunotherapy as a promising alternative for colorectal cancer. Herein, colon cancer cells derived neoantigen peptide Adpgk were employed to be co-encapsulated with black phosphorus quantum dots into liposome (Adpgk-BPQDs-liposome) as therapeutic vaccine. Adpgk-BPQDs-liposome were dispersed in F127 gel containing GM-CSF. The heat generated by black phosphorus (BP) under 808 nm near-infrared laser irradiation accelerates the F127 gel ablation and the release of GM-CSF, which recruit APC cells and prime the native T cells. The tumor bearing mice received the programmed cell death protein 1 (PD-1) checkpoint blockade antibody combined with photo-thermal gel intensively prevented the tumor progress. Furthermore, the tumor infiltrating CD8+ T cells were significantly increased which lead to the elimination of the tumor.
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http://dx.doi.org/10.1166/jbn.2020.2977DOI Listing
September 2020
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