Comparison of stomach microRNA transcriptomes of Tibetan and Yorkshire pigs by deep sequencing

Wen‑kui Sun,Yanyue Li,Chi Cheng,Yi‑hui Chen,Kai Zeng,Xiaohui Chen,Yiren Gu,Rui Liu,Xuebin Lv,Rong Gao 한국유전학회 2018 Genes & Genomics Vol.40 No.9

MiRNAs regulate the expression of target genes in diverse cellular processes and hence play important roles in different physiological processes, yet little is known about the stomach microRNAome (miRNAome) of the Tibetan pig. The objective of this experiment was to investigate differentially expressed stomach miRNAs participating in digestion. Firstly, we isolated total RNA by Trizol reagent from three Tibetan and three Yorkshire purebred pigs stomach samples at 90-day-old. Secondly, a comprehensive analysis of Tibetan and Yorkshire pig stomach miRNAomes was performed by small RNA sequencing in the Illumina HiSeq 2000 system. Finally, SYBR Green Real-time RT-PCR was performed to validate the differentially expressed miRNAs. We identified 318 unique miRNAs, 260 were co-expressed in both libraries, 17 and 31 miRNAs were specifically expressed in Tibetan and Yorkshire pigs respectively. Fifty six differentially expressed miRNAs were identified by the identifying differentially expressed genes 6 (IDEG6). Kyoto encyclopedia of genes and genomes analysis revealed that some of the differentially expressed miRNAs were associated with protein and fat digestion. Two differentially expressed miRNAs (miR-214-3p and ssc-un39) participating in the digestion of lipid were identified. Additionally, qRT-PCR results suggested that a higher expression of miR-214-3p in the Tibetan pig stomach could lead to relatively lower expression of calcium-dependent phospholipase A2, which is an enzyme important for the digestion of glycerol phospholipid. This study has delineated the different stomach miRNAs expression patterns of Tibetan and Yorkshire pigs, which would help explain the regulatory mechanisms of miRNAs in digestion of Tibetan pigs, and contribute to utilize a the unique digestion merits of Tibetan pig in future porcine hybridization breeding.

Association of Polymorphisms in Stress-Related TNFα and NPY Genes with the Metabolic Syndrome in Han and Hui Ethnic Groups

Bu, De-Yun,Ji, Wen-Wu,Bai, Dan,Zhou, Jian,Li, Hai-Xia,Yang, Hui-Fang Asian Pacific Journal of Cancer Prevention 2014 Asian Pacific journal of cancer prevention Vol.15 No.14

Background: Metabolic syndrome (MS) is a cluster of complicated disorders caused by the interactive influencing factors of heredity and environment, which predisposes to many cnacers. Results from epidemic research indicate that stress is tightly related to the pathogenesis of MS and neoplasia. This paper aims to investigate the association between psychological stress and MS with respect to the tumor necrosis factor alpha (TNF${\alpha}$) and neuropeptide Y (NPY) genes in the Han and Hui ethnic groups. Methods: All subjects for this case-control study matched strict enrollment criteria (nationality, gender and age) and lived in the city of Wu Zhong of Ningxia Province in China. The enrolled group contained 102 matched pairs of Hui ethnic individuals and 98 matched pairs of Han ethnic individuals. Enrolled subjects completed the general Symptom Checklist-90 (SCL-90). The TNF${\alpha}$-308G/A variant and NPYrs16147 polymorphism were detected in case (81 males, 119 females) and control (81 males, 119 females) groups by polymerase chain reaction (PCR) amplification. Results: Nine factors of the SCL-90 were found to be statistically different (p<0.05) between case and control groups. The homozygous mutant genotype (AA) and the mutant allele (A) of the TNF${\alpha}$-308G/A gene were less frequently observed in the control population compared to the case group. The odds ratio (95% confidence interval) in "Allele" for MS was 2.28 (1.47-3.53), p=0.0001, while "OR" was 1.11 (0.83-1.47), p=0.15, for the NPYrs16147 gene polymorphism. Conclusions: Psychological stress has been positively associated with MS. A previous study from our group suggested there were differences in the level of psychological stress between Hui and Han ethnic groups. Furthermore, we found that the stress-related TNF${\alpha}$ gene was associated with MS for both Han and Hui ethnic groups. In contrast, NPY may be a possible contributor to MS and associated cancer for the Han ethnic group.

Mitochondrial citrate accumulation drives alveolar epithelial cell necroptosis in lipopolysaccharide-induced acute lung injury

Yang Hui-Hui,Jiang Hui-Ling,Tao Jia-Hao,Zhang Chen-Yu,Xiong Jian-Bing,Yang Jin-Tong,Liu Yu-Biao,Zhong Wen-Jing,Guan Xin-Xin,Duan Jia-Xi,Zhang Yan-Feng,Liu Shao-Kun,Jiang Jian-Xin,Zhou Yong,Guan Cha-Xi 생화학분자생물학회 2022 Experimental and molecular medicine Vol.54 No.-

Necroptosis is the major cause of death in alveolar epithelial cells (AECs) during acute lung injury (ALI). Here, we report a previously unrecognized mechanism for necroptosis. We found an accumulation of mitochondrial citrate (citratemt) in lipopolysaccharide (LPS)-treated AECs because of the downregulation of Idh3α and citrate carrier (CIC, also known as Slc25a1). shRNA- or inhibitor–mediated inhibition of Idh3α and Slc25a1 induced citratemt accumulation and necroptosis in vitro. Mice with AEC-specific Idh3α and Slc25a1 deficiency exhibited exacerbated lung injury and AEC necroptosis. Interestingly, the overexpression of Idh3α and Slc25a1 decreased citratemt levels and rescued AECs from necroptosis. Mechanistically, citratemt accumulation induced mitochondrial fission and excessive mitophagy in AECs. Furthermore, citratemt directly interacted with FUN14 domain-containing protein 1 (FUNDC1) and promoted the interaction of FUNDC1 with dynamin-related protein 1 (DRP1), leading to excessive mitophagy-mediated necroptosis and thereby initiating and promoting ALI. Importantly, necroptosis induced by citratemt accumulation was inhibited in FUNDC1-knockout AECs. We show that citratemt accumulation is a novel target for protection against ALI involving necroptosis.

Molecular Characterization of Taenia multiceps Isolates from Gansu Province, China by Sequencing of Mitochondrial Cytochrome C Oxidase Subunit 1

Wen Hui Li,Wan Zhong Jia,Zi Gang Qu,Zhi Zhou Xie,Jian Xun Luo,Hong Yin,Xiao Lin Sun,Radu Blaga,Bao Quan Fu 대한기생충학열대의학회 2013 The Korean Journal of Parasitology Vol.51 No.2

Hydrogen-water ameliorates radiation-induced gastrointestinal toxicity via MyD88’s effects on the gut microbiota

Hui-wen Xiao,Yuan Li,Dan Luo,Jia-li Dong,Li-xin Zhou,Shu-yi Zhao,Qi-sheng Zheng,Hai-chao Wang,Ming Cui,Sai-jun Fan 생화학분자생물학회 2018 Experimental and molecular medicine Vol.50 No.-

Although radiation therapy is a cornerstone of modern management of malignancies, various side effects are inevitably linked to abdominal and pelvic cancer after radiotherapy. Radiation-mediated gastrointestinal (GI) toxicity impairs the life quality of cancer survivors and even shortens their lifespan. Hydrogen has been shown to protect against tissue injuries caused by oxidative stress and excessive inflammation, but its effect on radiation-induced intestinal injury was previously unknown. In the present study, we found that oral gavage with hydrogen-water increased the survival rate and body weight of mice exposed to total abdominal irradiation (TAI); oral gavage with hydrogen-water was also associated with an improvement in GI tract function and the epithelial integrity of the small intestine. Mechanistically, microarray analysis revealed that hydrogen-water administration upregulated miR-1968-5p levels, thus resulting in parallel downregulation of MyD88 expression in the small intestine after TAI exposure. Additionally, high-throughput sequencing showed that hydrogen-water oral gavage resulted in retention of the TAI-shifted intestinal bacterial composition in mice. Collectively, our findings suggested that hydrogen-water might be used as a potential therapeutic to alleviate intestinal injury induced by radiotherapy for abdominal and pelvic cancer in preclinical settings.

Correlation between rearing temperature and the dual cellulolytic system of Coptotermes formosanus Shiraki and its intestinal microenvironment

Wen-Hui Zeng,Zhi-Qiang Li,Bing-Rong Liu,Qiu-Jian Li,Jun-Hong Zhong 한국응용곤충학회 2016 Journal of Asia-Pacific Entomology Vol.19 No.1

The lower termite, Coptotermes formosanus Shiraki, is an important model species for studying the dual cellulolytic system of termites. The effect of rearing temperature on the interaction between the intestinal symbiont community and the host in lignocelluloses digestion was investigated by assaying the activity and gene expression of cellulase, and monitoring the population size of intestinal protozoan community, which was followed by rearing C. formosanus at a temperature gradient (15–37 °C) for 3 d. The results showed that the rearing temperature of C. formosanus had a much greater impact on cellulase activity and gene transcription of the intestinal symbiont than on the host. The transcriptional variations of endogenous and symbiotic cellulase genes presented mutual complement and restrained when C. formosanus living in high temperature environment (32 and 37 °C). Additionally, the optimum survival temperature of Pseudotrichonympha grassii Koidzumi (22 °C) was found lower than that of Holomastigotoides mirabile Koidzumi (28 °C) and Spirotrichonympha leidyi Koidzumi (28 °C).The optimum rearing temperature for cellulase activity and protozoan survival of C. formosanus was found much lower than its optimum temperature for feeding. These findings provide a novel glimpse into host-symbiotic mutualism in lower termite digestion.

Optimal SVM learning method based on adaptive sparse sampling and granularity shift factor

Hui Wen,Dongshun Jia,Zhiqiang Liu,Hang Xu,Guangtao Hao 한국인터넷정보학회 2022 KSII Transactions on Internet and Information Syst Vol.16 No.4

To improve the training efficiency and generalization performance of a support vector machine (SVM) in a large-scale set, an optimal SVM learning method based on adaptive sparse sampling and the granularity shift factor is presented. The proposed method combines sampling optimization with learner optimization. First, an adaptive sparse sampling method based on the potential function density clustering is designed to adaptively obtain sparse sampling samples, which can achieve a reduction in the training sample set and effectively approximate the spatial structure distribution of the original sample set. A granularity shift factor method is then constructed to optimize the SVM decision hyperplane, which fully considers the neighborhood information of each granularity region in the sparse sampling set. Experiments on an artificial dataset and three benchmark datasets show that the proposed method can achieve a relatively higher training efficiency, as well as ensure a good generalization performance of the learner. Finally, the effectiveness of the proposed method is verified.

Molecular Characterization of the Recombinant A-chain of a Type 2 Ribosome-Inactivating Protein (RIP) from Viscum album coloratum and Structural Basis on its Ribosome-Inactivating Activity and the Sugar-binding Properties of the B-chain

( Wen Hui Ye ),( Ravi Prakash Reddy Nanga ),( Cong Bao Kang ),( Joo Hye Song ),( Seong Kyu Song ),( Ho Sup Yoon ) 생화학분자생물학회 2006 BMB Reports Vol.39 No.5

A quantitative analysis of the wing outlines of owlflies (Insecta: Neuroptera: Ascalaphidae)

Hui Wen,Heping Yang,Xinli Wang 한국통합생물학회 2015 Animal cells and systems Vol.19 No.2

We quantitatively described and analyzed variation in the wing outlines of owlflies using 135 forewings and 135 hindwings from eight species in five genera. We captured and digitized images of the wing outlines from 135 individual specimens and subjected them to Elliptic Fourier analysis to produce matrices of Fourier coefficients based on 20 harmonics. The first five principal components extracted from the Fourier coefficient matrices described the wing outlines, explaining 94.87% of the total forewing variation and 95.06% of the total hindwing variation. Relationships among species were estimated using multivariate analysis of variance, principal component analysis, and cluster analysis. The results indicated highly significant differences in the wing outlines among the eight owlfly species. Pair-wise comparisons indicated significant differences between 96% of the species pairs based on the forewing outlines and between 100% of the species pairs based on the hindwing outlines. The results of the cluster analysis were partially consistent with the existing classification system of Ascalaphidae. Our results show that quantitative data of wing outlines can effectively differentiate Libelloides from the other four owlfly genera.

Aspergillus sensitization associated with current asthma in children: NHANES 2005-2006

Wen Hui-Ju,Wang Shu-Li,Li Ming-Chieh,Guo Yue Leon 한국역학회 2022 Epidemiology and Health Vol.44 No.-

OBJECTIVES: To investigate the association between allergen sensitization and current asthma in children from the National Health and Nutrition Examination Survey (NHANES) 2005-2006. METHODS: Children from the NHANES 2005-2006, aged 6 to 19 years, were included in this study. A structured questionnaire was used to assess asthma status, including without asthma, asthma in remission, and current asthma. Nineteen specific IgE (sIgE) levels were measured using the Pharmacia Diagnostics ImmunoCAP 1000 System (Kalamazoo, Michigan, USA). A machine-learning method was applied to select important sIgEs related to childhood asthma. Multivariate regression analysis was used to test this hypothesis. RESULTS: A total of 2,875 children were recruited. The prevalence of ever having asthma and current asthma was, 16.5% and 5.6%, respectively. Six specific IgE levels were found to contribute to asthma using bootstrap forest selection. After adjusting for child’s sex, age, and family income, children with the double of sIgE levels of Dermatophagoides farinae, dog, and Aspergillus were related to current asthma, as compared to children without asthma [odds ratio (95% confident interval)= 1.11 (1.04-1.19), 1.30 (1.16-1.46), and 1.54 (1.38-1.72), respectively]. CONCLUSIONS: Our findings suggested that allergen sensitization, especially to Aspergillus, is associated with current asthma in children. Strategies to reduce sensitization may help prevent and manage asthma.