11 results on '"Yan, Fengbin"'
Search Results
2. Global investigation of estrogen-responsive genes regulating lipid metabolism in the liver of laying hens
- Author
-
Ren, Junxiao, Tian, Weihua, Jiang, Keren, Wang, Zhang, Wang, Dandan, Li, Zhuanjian, Yan, Fengbin, Wang, Yanbin, Tian, Yadong, Ou, Kepeng, Wang, Hongjun, Kang, Xiangtao, Li, Hong, and Liu, Xiaojun
- Published
- 2021
- Full Text
- View/download PDF
3. Use of transcriptomic analysis to identify microRNAs related to the effect of stress on thymus immune function in a chicken stress model
- Author
-
Aru Su, Xiangtao Kang, Kui Li, Huihui Tian, Yadong Tian, Guirong Sun, Mengxia Ding, Jiang Ruirui, Yan Fengbin, Ruili Han, Minxi Zhai, and Yujie Guo
- Subjects
General Veterinary ,Gene Expression Profiling ,Immunity ,RNA-Seq ,Biology ,Cell biology ,Transcriptome ,MicroRNAs ,Immune system ,Downregulation and upregulation ,microRNA ,Animals ,KEGG ,Gene ,Chickens - Abstract
In modern poultry production, stress-induced immunosuppression leads to serious economic losses and harm to animals, but the molecular mechanisms governing the effects of stress on the chicken thymus have not been elucidated. In this study, we successfully constructed a stress model of 7-day-old Gushi chickens by adding exogenous corticosterone (CORT) to their diet and determined the microRNA (miRNA) expression profile of thymus tissues using RNA-seq technology. The results identified 51 differentially expressed miRNAs (DEMs), including 30 upregulated miRNAs and 21 downregulated miRNAs. A total of 164 target genes of the DEMs were predicted based on bioinformatic analysis methods, and Gene Ontology (GO) enrichment and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analyses of these target genes were performed. The results from the GO enrichment analysis of the target genes identified 349 significantly enriched terms, including terms associated with the stress response and immune function that are primarily involved in the negative regulation of phagocytosis, the response to stress and the cellular response to stimulus. The KEGG pathway analysis indicated that the enriched pathways related to immunity or stress included the MAPK signaling pathway, lysosomes, endocytosis, and the RIG-I-like receptor signaling pathway. Among these pathways, DEMs (such as gga-miR-2954, gga-miR-106-5p, and gga-miR-16-5p) and corresponding target genes (such as IL11Ra, SIKE1, and CX3CL1) might be strongly correlated with thymic immunity in chickens. The results of this study provide a reference for further research on the molecular regulatory mechanisms governing the effect of stress on the immune function of the chicken thymus.
- Published
- 2021
4. Global investigation of estrogen-responsive genes regulating lipid metabolism in the liver of laying hens
- Author
-
Yadong Tian, Kepeng Ou, Dandan Wang, Yanbin Wang, Zhang Wang, Zhuanjian Li, Junxiao Ren, Keren Jiang, Weihua Tian, Hong Li, Xiangtao Kang, Xiaojun Liu, Yan Fengbin, and Hongjun Wang
- Subjects
miR-144, estrogen ,medicine.drug_class ,Estrogen receptor ,RNA-Seq ,QH426-470 ,Biology ,Proteomics ,ChIP-Seq ,03 medical and health sciences ,0302 clinical medicine ,microRNA ,Genetics ,medicine ,Animals ,Gene ,030304 developmental biology ,0303 health sciences ,Estrogens ,Lipid metabolism ,Lipid Metabolism ,Chicken ,Cell biology ,MicroRNAs ,Liver ,Estrogen ,030220 oncology & carcinogenesis ,Female ,RNA, Long Noncoding ,DNA microarray ,Chickens ,TP248.13-248.65 ,hormones, hormone substitutes, and hormone antagonists ,Research Article ,Biotechnology - Abstract
Background Estrogen plays an essential role in female development and reproductive function. In chickens, estrogen is critical for lipid metabolism in the liver. The regulatory molecular network of estrogen in chicken liver is poorly understood. To identify estrogen-responsive genes and estrogen functional sites on a genome-wide scale, we determined expression profiles of mRNAs, lncRNAs, and miRNAs in estrogen-treated ((17β-estradiol)) and control chicken livers using RNA-Sequencing (RNA-Seq) and studied the estrogen receptor α binding sites by ChIP-Sequencing (ChIP-Seq). Results We identified a total of 990 estrogen-responsive genes, including 962 protein-coding genes, 11 miRNAs, and 17 lncRNAs. Functional enrichment analyses showed that the estrogen-responsive genes were highly enriched in lipid metabolism and biological processes. Integrated analysis of the data of RNA-Seq and ChIP-Seq, identified 191 genes directly targeted by estrogen, including 185 protein-coding genes, 4 miRNAs, and 2 lncRNAs. In vivo and in vitro experiments showed that estrogen decreased the mRNA expression of PPARGC1B, which had been reported to be linked with lipid metabolism, by directly increasing the expression of miR-144-3p. Conclusions These results increase our understanding of the functional network of estrogen in chicken liver and also reveal aspects of the molecular mechanism of estrogen-related lipid metabolism.
- Published
- 2021
5. Analysis of miRNA and mRNA reveals core interaction networks and pathways of dexamethasone-induced immunosuppression in chicken bursa of Fabricius
- Author
-
Kui Li, Aru Su, Yadong Tian, Yan Fengbin, Yujie Guo, Guirong Sun, Huihui Tian, Yanting Zhou, Xiangtao Kang, Jiang Ruirui, and Wenting Li
- Subjects
0301 basic medicine ,Small RNA ,Immunology ,RNA-Seq ,Biology ,Dexamethasone ,03 medical and health sciences ,0302 clinical medicine ,Bursa of Fabricius ,microRNA ,Immune Tolerance ,IKBKE ,Animals ,Gene Regulatory Networks ,Protein Interaction Maps ,RNA, Messenger ,Molecular Biology ,Gene ,cDNA library ,Cell biology ,MicroRNAs ,030104 developmental biology ,High-mobility group ,Chickens ,Immunosuppressive Agents ,Stress, Psychological ,030215 immunology - Abstract
Stress-induced immunosuppression is a serious problem affecting the production value of poultry, but its specific molecular mechanism has not yet been elucidated. We selected 7-day-old Gushi cocks as test animals and successfully established a stress-induced immunosuppression model by injecting 2.0 mg/kg (body weight) dexamethasone (Dex). We then constructed six cDNA libraries and two small RNA libraries of Bursa of Fabricius from the control group and the Dex group. RNA-seq results revealed 21,028 transcripts including 3920 novel transcripts; 500 miRNAs including 68 novel miRNAs were identified. Correlation analysis of miRNA, target genes and mRNA results indicated that the gga-miR-15 family, gga-miR-103-3p, gga-miR-456-3p, and gga-miR-27b-3p, as core differentially expressed miRNAs, may potentially regulate multiple genes which are involved in immune-related pathways; and that the core genes Suppressor of IKBKE 1 (SIKE1) and high mobility group AT-hook 2 (HMGA2) are associated with the miR-17 family (gga-miR-20a-5p, gga-miR-20b-5p, gga-miR-106-5p, and gga-miR-17-5p) and gga-let -7 family (gga-let-7b, gga-let-7i, gga-let-7c-5p, and gga-let-7f-5p). The interaction networks of mRNAs of significantly enrichment pathways and PPI (protein-protein interaction) networks showed that IL6, IL1B, IL8L1, CCL5, SOCS3, SOCS1, ITGB5, GSTA3, SQLE, FDFT1, FN1, IL18, IL10, MAPK11 and MAPK12 are network core nodes and that most of them are strongly associated with immune response. One of the candidate miRNAs, gga-miR-20b-5p, may play an important role in stress-induced immunosuppression. Luciferase assay and over-expression experiments suggested that gga-miR-20b-5p negatively regulated the expression of target gene SIKE1. These results provide better understanding of the mechanism of stress-induced immunosuppression in Gushi chicken bursa, and provide novel targets for subsequent research to improve poultry anti-stress capability.
- Published
- 2020
6. Sequencing and characterization of lncRNAs in the breast muscle of Gushi and Arbor Acres chickens
- Author
-
Xuelian Liu, Yu Zhou, Ruili Han, Zhuanjian Li, Hong Li, Tuanhui Ren, Xiangtao Kang, Guirong Sun, Yan Fengbin, and Wang Yongcai
- Subjects
0301 basic medicine ,Muscle tissue ,Meat ,animal structures ,Muscle Proteins ,RNA-Seq ,Computational biology ,Biology ,Breast muscle ,03 medical and health sciences ,0302 clinical medicine ,Databases, Genetic ,Food Quality ,Genetics ,medicine ,Animals ,KEGG ,Muscle, Skeletal ,Molecular Biology ,Gene ,Oligonucleotide Array Sequence Analysis ,Sequence Analysis, RNA ,Gene ontology ,Gene Expression Profiling ,Gene Expression Regulation, Developmental ,Skeletal muscle ,Molecular Sequence Annotation ,General Medicine ,Gene Ontology ,030104 developmental biology ,medicine.anatomical_structure ,RNA, Long Noncoding ,Signal transduction ,Chickens ,030217 neurology & neurosurgery ,Signal Transduction ,Biotechnology - Abstract
Chicken muscle quality is one of the most important factors determining the economic value of poultry, and muscle development and growth are affected by genetics, environment, and nutrition. However, little is known about the molecular regulatory mechanisms of long non-coding RNAs (lncRNAs) in chicken skeletal muscle development. Our study aimed to better understand muscle development in chickens and thereby improve meat quality. In this study, Ribo-Zero RNA-Seq was used to investigate differences in the expression profiles of muscle development related genes and associated pathways between Gushi (GS) and Arbor Acres (AA) chickens. We identified two muscle tissue specific expression lncRNAs. In addition, the target genes of these lncRNAs were significantly enriched in certain biological processes and molecular functions, as demonstrated by Gene Ontology (GO) analysis, and these target genes participate in five signaling pathway, as revealed by an analysis of the Kyoto Encyclopedia of Genes and Genomes (KEGG) database. Taken together, these data suggest that different lncRNAs might be involved in regulating chicken muscle development and growth and provide new insight into the molecular mechanisms of lncRNAs.
- Published
- 2018
7. Transcriptomic Analysis of Spleen Revealed Mechanism of Dexamethasone-Induced Immune Suppression in Chicks
- Author
-
Kui Li, Jiang Ruirui, Yadong Tian, Yujie Guo, Huihui Tian, Yan Fengbin, Wenting Li, Guirong Sun, Aru Su, Xiangtao Kang, Ruili Han, and Minxi Zhai
- Subjects
Blood Glucose ,Male ,0301 basic medicine ,medicine.medical_treatment ,Growth hormone receptor ,Dexamethasone ,Transcriptome ,Random Allocation ,stress ,0302 clinical medicine ,Protein Interaction Mapping ,Genetics (clinical) ,immunosuppression ,Immunosuppression ,Blood Proteins ,medicine.anatomical_structure ,030220 oncology & carcinogenesis ,Cytokines ,Interleukin 1 receptor, type I ,Immunosuppressive Agents ,Signal Transduction ,medicine.drug ,lcsh:QH426-470 ,chicken ,Spleen ,Biology ,Article ,03 medical and health sciences ,Immune system ,Stress, Physiological ,Genetics ,medicine ,Animals ,Humans ,RNA, Messenger ,Receptors, Cytokine ,Poultry Diseases ,Gene Expression Profiling ,Molecular biology ,Fold change ,Immunoglobulin A ,lcsh:Genetics ,Gene Ontology ,030104 developmental biology ,Gene Expression Regulation ,spleen ,RNA-seq ,Corticosterone ,Chickens - Abstract
Stress-induced immunosuppression is a common problem in the poultry industry, but the specific mechanism of its effect on the immune function of chicken has not been clarified. In this study, 7-day-old Gushi cocks were selected as subjects, and a stress-induced immunosuppression model was successfully established via daily injection of 2.0 mg/kg (body weight) dexamethasone. We characterized the spleen transcriptome in the control (B_S) and model (D_S) groups, and 515 significant differentially expressed genes (SDEGs) (Fragments Per Kilobase of transcript sequence per Millions base pairs sequenced (FPKM) >, 1, adjusted p-value (padj) <, 0.05 and Fold change (|FC|) &ge, 2) were identified. The cytokine-cytokine receptor interaction signaling pathway was identified as being highly activated during stress-induced immunosuppression, including the following SDEGs&mdash, CXCL13L2, CSF3R, CSF2RB, CCR9, CCR10, IL1R1, IL8L1, IL8L2, GHR, KIT, OSMR, TNFRSF13B, TNFSF13B, and TGFBR2L. At the same time, immune-related SDEGs including CCR9, CCR10, DMB1, TNFRSF13B, TNFRSF13C and TNFSF13B were significantly enriched in the intestinal immune network for the IgA production signaling pathway. The SDEG protein-protein interaction module analysis showed that CXCR5, CCR8L, CCR9, CCR10, IL8L2, IL8L1, TNFSF13B, TNFRSF13B and TNFRSF13C may play an important role in stress-induced immunosuppression. These findings provide a background for further research on stress-induced immunosuppression. Thus, we can better understand the molecular genetic mechanism of chicken stress-induced immunosuppression.
- Published
- 2020
8. Sequencing and characterization of lncRNAs in the breast muscle of Gushi and Arbor Acres chickens.
- Author
-
Ren, Tuanhui, Li, Zhuanjian, Zhou, Yu, Liu, Xuelian, Han, Ruili, Wang, Yongcai, Yan, FengBin, Sun, GuiRong, Li, Hong, Kang, Xiangtao, and Ryan, A.K.
- Subjects
CHICKENS ,RNA ,MUSCLE growth ,GENE ontology ,NUCLEIC acids - Abstract
Copyright of Genome is the property of Canadian Science Publishing and its content may not be copied or emailed to multiple sites or posted to a listserv without the copyright holder's express written permission. However, users may print, download, or email articles for individual use. This abstract may be abridged. No warranty is given about the accuracy of the copy. Users should refer to the original published version of the material for the full abstract. (Copyright applies to all Abstracts.)
- Published
- 2018
- Full Text
- View/download PDF
9. Transcriptomic Analysis of Spleen Revealed Mechanism of Dexamethasone-Induced Immune Suppression in Chicks.
- Author
-
Guo, Yujie, Su, Aru, Tian, Huihui, Zhai, Minxi, Li, Wenting, Tian, Yadong, Li, Kui, Sun, Guirong, Jiang, Ruirui, Han, Ruili, Yan, Fengbin, and Kang, Xiangtao
- Subjects
IMMUNOSUPPRESSION ,SPLEEN ,CHICKS ,PROTEIN-protein interactions ,POULTRY industry - Abstract
Stress-induced immunosuppression is a common problem in the poultry industry, but the specific mechanism of its effect on the immune function of chicken has not been clarified. In this study, 7-day-old Gushi cocks were selected as subjects, and a stress-induced immunosuppression model was successfully established via daily injection of 2.0 mg/kg (body weight) dexamethasone. We characterized the spleen transcriptome in the control (B_S) and model (D_S) groups, and 515 significant differentially expressed genes (SDEGs) (Fragments Per Kilobase of transcript sequence per Millions base pairs sequenced (FPKM) > 1, adjusted p-value (padj) < 0.05 and Fold change (|FC|) ≥ 2) were identified. The cytokine-cytokine receptor interaction signaling pathway was identified as being highly activated during stress-induced immunosuppression, including the following SDEGs—CXCL13L2, CSF3R, CSF2RB, CCR9, CCR10, IL1R1, IL8L1, IL8L2, GHR, KIT, OSMR, TNFRSF13B, TNFSF13B, and TGFBR2L. At the same time, immune-related SDEGs including CCR9, CCR10, DMB1, TNFRSF13B, TNFRSF13C and TNFSF13B were significantly enriched in the intestinal immune network for the IgA production signaling pathway. The SDEG protein-protein interaction module analysis showed that CXCR5, CCR8L, CCR9, CCR10, IL8L2, IL8L1, TNFSF13B, TNFRSF13B and TNFRSF13C may play an important role in stress-induced immunosuppression. These findings provide a background for further research on stress-induced immunosuppression. Thus, we can better understand the molecular genetic mechanism of chicken stress-induced immunosuppression. [ABSTRACT FROM AUTHOR]
- Published
- 2020
- Full Text
- View/download PDF
10. Analysis of miRNA and mRNA reveals core interaction networks and pathways of dexamethasone-induced immunosuppression in chicken bursa of Fabricius.
- Author
-
Su, Aru, Guo, Yujie, Tian, Huihui, Zhou, Yanting, Li, Wenting, Tian, Yadong, Li, Kui, Sun, Guirong, Jiang, Ruirui, Yan, Fengbin, and Kang, Xiangtao
- Subjects
- *
IMMUNOSUPPRESSION , *NON-coding RNA , *MESSENGER RNA , *MICRORNA , *CHICKENS , *ANTISENSE DNA - Abstract
• Dexamethasone-Induced immunosuppression models were constructed in Gushi cocks. • MiR-103-3p, miR-456-3p and miR-15/17 family were essential miRNAs. • Some DEGs, such as SIKE1 , HMGA2 , IL6 , SOCS3 , ITGB5 were crucial mRNAs. • Gga-miR-20b-5p negatively regulated SIKE1 may play a role in immunosuppression. Stress-induced immunosuppression is a serious problem affecting the production value of poultry, but its specific molecular mechanism has not yet been elucidated. We selected 7-day-old Gushi cocks as test animals and successfully established a stress-induced immunosuppression model by injecting 2.0 mg/kg (body weight) dexamethasone (Dex). We then constructed six cDNA libraries and two small RNA libraries of Bursa of Fabricius from the control group and the Dex group. RNA-seq results revealed 21,028 transcripts including 3920 novel transcripts; 500 miRNAs including 68 novel miRNAs were identified. Correlation analysis of miRNA, target genes and mRNA results indicated that the gga-miR-15 family, gga-miR-103-3p, gga-miR-456-3p, and gga-miR-27b-3p, as core differentially expressed miRNAs, may potentially regulate multiple genes which are involved in immune-related pathways; and that the core genes Suppressor of IKBKE 1 (SIKE1) and high mobility group AT-hook 2 (HMGA2) are associated with the miR-17 family (gga-miR-20a-5p, gga-miR-20b-5p, gga-miR-106-5p, and gga-miR-17-5p) and gga-let -7 family (gga-let-7b, gga-let-7i, gga-let-7c-5p, and gga-let-7f-5p). The interaction networks of mRNAs of significantly enrichment pathways and PPI (protein-protein interaction) networks showed that IL6 , IL1B , IL8L1 , CCL5 , SOCS3 , SOCS1 , ITGB5 , GSTA3 , SQLE , FDFT1 , FN1 , IL18 , IL10, MAPK11 and MAPK12 are network core nodes and that most of them are strongly associated with immune response. One of the candidate miRNAs, gga-miR-20b-5p, may play an important role in stress-induced immunosuppression. Luciferase assay and over-expression experiments suggested that gga-miR-20b-5p negatively regulated the expression of target gene SIKE1. These results provide better understanding of the mechanism of stress-induced immunosuppression in Gushi chicken bursa, and provide novel targets for subsequent research to improve poultry anti-stress capability. [ABSTRACT FROM AUTHOR]
- Published
- 2021
- Full Text
- View/download PDF
11. Identification of genes related to effects of stress on immune function in the spleen in a chicken stress model using transcriptome analysis.
- Author
-
Guo, Yujie, Jiang, Ruirui, Su, Aru, Tian, Huihui, Zhang, Yanhua, Li, Wenting, Tian, Yadong, Li, Kui, Sun, Guirong, Han, Ruili, Yan, Fengbin, and Kang, Xiangtao
- Subjects
- *
CORTISONE , *PSYCHONEUROIMMUNOLOGY , *SPLEEN , *GENES , *PROTEIN-protein interactions , *RNA sequencing , *ENDOPLASMIC reticulum - Abstract
• 7-day-old Gushi cocks stress model was successfully constructed by adding corticosterone (CORT) 30 mg/kg basic diet for 7 days. • A total of 269 CORT-induced spleen significantly differentially expressed genes were obtained by RNA-seq. • HSPA8, HSPA2 and IL8L1 may play important roles in the regulation of CORT-induced stress effects on immune function. Stress is a physiological manifestation of the body's defense against adverse effects of external environment, but the molecular regulatory mechanism of stress effects on immune function of poultry has not been fully clarified. In this study, 7-day-old Chinese local breed Gushi cocks were used as model animal, and the stress model was successfully constructed by adding corticosterone (CORT) 30 mg/kg basic diet for 7 days. The spleen transcriptomes of the control group (B_S group) and the stress model group (C_S group) was determined by high-throughput mRNA sequencing (RNA-Seq) technology, and a total of 269 significantly differentially expressed genes (SDEGs) were obtained (P adj < 0.05, |FC| ≥ 2 and FPKM > 1). Compared with B_S group, there were 140 significantly up-regulated genes and 129 significantly down-regulated genes in C_S group. The immune/stress-related Gene Ontology (GO) terms included positive regulation of T cell mediated immunity, chemokine-mediated signaling pathway, T cell mediated immunity and so on. The SDEGs such as IL8L1 , HSPA8 , HSPA2 , RSAD2 , CCR8L and DMB1 were involved in these GO terms. Kyoto encyclopedia of genes and genomes (KEGG) enrichment analysis showed that the SDEGs participated in many immune-related signaling pathways. The immune-related genes HSPA2 , HSPA8 , HSP90AA1 , HSPH1 and HERPUD1 were enriched in Protein processing in endoplasmic reticulum pathway, IL8L1 , CXCL13L2 , CCR6 , LEPR , CCR9 and CCR8L were enriched in Cytokine-cytokine receptor interaction pathway. The protein-protein interactions (PPI) analysis showed HSPA8 , HSPA2 and IL8L1 as key core nodes had 7 interactions and may play important roles in the regulation of CORT-induced stress effects on immune function. The data onto this study enriched the genomic study of stress effects on immune function, and provided unique insights into the molecular mechanism of stress effects on immune function, and the genes identified in this study can be candidates for future research on stress response. [ABSTRACT FROM AUTHOR]
- Published
- 2020
- Full Text
- View/download PDF
Catalog
Discovery Service for Jio Institute Digital Library
For full access to our library's resources, please sign in.