A5018451568- Cancer-related molecular mechanisms research
- MicroRNA in disease regulation
- Genetic and phenotypic traits in livestock
- RNA Research and Splicing
- Cardiovascular Disease and Adiposity
- Circular RNAs in diseases
- Extracellular vesicles in disease
- Animal Genetics and Reproduction
- Adipose Tissue and Metabolism
- Genomics and Chromatin Dynamics
- Genomics and Phylogenetic Studies
- Animal Nutrition and Physiology
- Chromosomal and Genetic Variations
- RNA modifications and cancer
- Adipokines, Inflammation, and Metabolic Diseases
- Kruppel-like factors research
- Genetic and Clinical Aspects of Sex Determination and Chromosomal Abnormalities
- Immune cells in cancer
- interferon and immune responses
- Reproductive Physiology in Livestock
- Genetic Mapping and Diversity in Plants and Animals
- Cardiac Fibrosis and Remodeling
- Genetic diversity and population structure
- Hedgehog Signaling Pathway Studies
- Autophagy in Disease and Therapy
Sichuan Agricultural University
2017-2024
Sichuan University
2023-2024
Ministry of Agriculture and Rural Affairs
2022-2024
West China Hospital of Sichuan University
2023
Abstract A comprehensive transcriptomic survey of pigs can provide a mechanistic understanding tissue specialization processes underlying economically valuable traits and accelerate their use as biomedical model. Here we characterize four transcript types (lncRNAs, TUCPs, miRNAs, circRNAs) protein-coding genes in 31 adult pig tissues two cell lines. We uncover the variability among 47 skeletal muscles, six adipose depots linked to different origins, metabolism, composition, physical...
Abstract Background The three-dimensional (3D) architecture of the genome has a highly ordered and hierarchical nature, which influences regulation essential nuclear processes at basis gene expression, such as transcription. While organization heterochromatin euchromatin can underlie differences in expression that determine evolutionary among species, way 3D is affected by forces within major lineages remains unclear. Here, we report comprehensive comparison genomes, using high resolution...
Abstract Background Species living at high altitude are subject to strong selective pressures due inhospitable environments (e.g., hypoxia, low temperature, solar radiation, and lack of biological production), making these species valuable models for comparative analyses local adaptation. Studies that have examined high-altitude adaptation identified a vast array rapidly evolving genes characterize the dramatic phenotypic changes in animals. However, how environment shapes gene expression...
Geese are one of the most economically important waterfowl. However, low reproductive performance and egg quality geese hinder development goose industry. The identification application genetic markers may improve accuracy beneficial trait selection. To identify associated with traits, we performed a genome-wide association study (GWAS) for body weight at birth (BBW), number eggs 48 weeks age (EN48), 60 (EN60) yolk color (EYC). GWAS acquired 2.896 Tb raw sequencing data an average depth...
Emerging studies indicated that both long noncoding RNAs and micro-RNAs play crucial roles in the mediation of adipogenesis, which is closely linked to obesity-related diseases. However, mechanisms lncRNA-miRNAs coregulating adipogenesis are still largely unknown. In this study, we determined lncRNA growth arrest-specific 5 (GAS5) presented an opposite expression pattern with miR-21a-5p 3T3-L1 adipocytes development. To explore role GAS5 pcDNA3.1-GAS5 vectors GAS5-siRNAs were used perform...
ABSTRACT Background The domestic goose is an economically important and scientifically valuable waterfowl; however, a lack of high-quality genomic data has hindered research concerning its genome, genetics, breeding. As geese breeds derive from both the swan (Anser cygnoides) graylag anser), we selected female Tianfu for genome sequencing. We generated chromosome-level assembly by adopting hybrid de novo approach that combined Pacific Biosciences single-molecule real-time sequencing,...
Dysregulation of adipogenesis causes metabolic diseases, like obesity and fatty liver. Migratory birds such as geese have a high tolerance massive energy intake exhibit little pathological development. Domesticated goose breeds, derivatives the wild greyleg (Anser anser) or swan cygnoides), resembling their ancestor species. Thus, is potentially model species to study mechanisms associated with adipogenesis.Phenotypically, liver exhibited higher fat accumulation than adipose tissues during...
Ythdf2 is known to mediate mRNA degradation in an m6A-dependent manner, and it has been shown play a role skeletal muscle differentiation. Recently, was also found bind m6A-modified precursor miRNAs regulate their maturation. However, remains unknown whether this mechanism related the regulation of myogenesis by Ythdf2. Here, we observed that knockdown significantly suppressed myotube formation impacted expression during myogenic Through integrated analysis miRNA sequencing data, miR-378...
Pigeon crop has the unique ability to produce a nutrient rich substance termed pigeon 'milk' (PM), which functional resemblance with mammalian milk. Previous researches have demonstrated that large number of exosomes and exosomal miRNAs exist in milk, many them are associated immunity, growth development. However, date, little is known about PM.In this study, we isolated from PM used small RNA sequencing investigate distribution expression profiles miRNAs. A total 301 mature including 248...
Abstract Myofibres (primary and secondary myofibre) are the basic structure of muscle determinant mass. To explore skeletal developmental processes from primary myofibres to in pigs, we conducted an integrative three-dimensional genome transcriptomic characterization longissimus dorsi pig myofibre formation stage [embryonic Day 35 (E35)] (E80). In hierarchical genomic structure, found that 11.43% switched compartment A/B status, 14.53% topologically associating domains changed intradomain...
Lung tissue plays an important role in the respiratory system of mammals after birth. Early lung development includes six key stages, which saccular stage spans pre- and neonatal periods prepares distal for alveolarization gas-exchange. However, little is known about changes gene expression between fetal lungs. In this study, we performed transcriptomic analysis messenger RNA (mRNA) long noncoding (lncRNA) expressed piglets. A total 19,310 lncRNAs 14,579 mRNAs were identified substantially...
The liver is the major organ of lipid biosynthesis in chicken. In laying hens, synthesizes most yolk precursors and transports them to developing follicles produce eggs. However, a systematic investigation long non-coding RNA (lncRNA) mRNA transcriptome across developmental stages needed. Here, we constructed 12 libraries from tissue during four stages: juvenile (day 60), sexual maturity 133), peak 220), broodiness 400). A total 16,930 putative lncRNAs 18,260 mRNAs were identified. More than...
Background Fat accumulation in visceral adipose tissue (VAT) confers increased risk for metabolic disorders of obesity, whereas subcutaneous (SAT) is associated with lower and may be protective. Previous studies have shed light on the gene expression profile differences between SAT VAT; however, chromatin accessibility landscape how cis-regulatory elements govern changes VAT are unknown. Methods Pig were used to characterize two depots-derived stromal vascular fractions (SVFs) using...
Beige adipocytes are a distinct type of fat cells with thermogenic activity that have gained substantial attention as an alternative cellular anti-obesity target in humans. These may provide strategy for the genetic selection pigs reduced deposition. Despite presence beige piglets, molecular signatures porcine remain unclear. Here, white and from Tibetan piglets were primarily cultured differentiated. Compared to adipocytes, exhibited stronger capacity. RNA-sequencing-based genome-wide...
The iconic giant panda (Ailuropoda melanoleuca), as both a flagship and umbrella species endemic to China, is world famous symbol for wildlife conservation. has several specific biological traits holds relatively small place in evolution. A high-quality genome of the key understanding biology this vulnerable species.We generated 2.48-Gb chromosome-level (GPv1) named "Jing Jing" with contig N50 28.56 Mb scaffold 134.17 Mb, respectively. total length chromosomes (n = 21) was 2.39-Gb,...
The intestine is a tubular organ with multiple functions such as digestion absorption and immunity, but the of each intestinal segments are different. Intestinal regionalization necessary for normal physiological function, it also means research results obtained at specific sites may not be applicable to other segments. In order comprehensively describe functional changes in intestine, different their contents (duodenum, jejunum, ileum, cecum, colon, rectum) guinea pigs were collected RNA...
Granulosa cells (GCs) are decisive players in follicular development. In this study, the follicle tissues and GCs were isolated from goose during peak-laying period to perform hematoxylin-eosin staining RNA-seq, respectively. Moreover, dynamic mRNA lncRNA expression profiles mRNA-lncRNA network analysis integrated identify important genes lncRNAs. The morphological showed that size of did not significantly change, but thickness granulosa layer differed across developmental stages....
Skin is the body’s largest organ, and main function of skin to protect underlying organs from possible external damage. Melanocytes play an important role in pigmentation. The Bama pig has a “two-end-black” phenotype with different coat colors across regions, e.g., white (without melanocytes) black (with melanocytes), which could be model investigate skin-related disorders, specifically loss melanocytes. Here, we generated expression profiles mRNAs long noncoding RNAs skins colors. In total,...
Background: Studies demonstrated that age-related cellular and functional changes of airway significantly contribute to the pathogenesis many diseases. However, our understanding on molecular alterations human remains inadequate. Methods: Airway (trachea bronchus) brushing specimens were collected from 14 healthy, female non-smokers with ages ranging 20 60 years. Bulk RNA sequencing was performed all ( n = 28). cell types their relative proportions estimated using CIBERSORTx. The type...
The bursa of Fabricius (BF) is the critical humoral immune organ to birds, playing an essential role in B lymphocyte differentiation. However, unlike other poultries, surgical removal pigeon BF did not limit responsiveness. To investigate expression profiles and potential mRNA long non-coding RNA (LncRNA) squab BFs, transcriptome analysis was performed by RNA-Sequencing (RNA-Seq) over three developmental stages (1-day, 13 26 days old). We identified 13,072 mRNAs 19,129 lncRNAs, which 2,752...
The breast muscle is essential for flight and determines the meat yield quality of type in pigeons. At present, studies about long non-coding RNA (lncRNA) expression profiles skeletal muscles across postnatal development pigeons have not been reported. Here, we used transcriptome sequencing to examine White-King pigeon at four different ages (1 day, 14 days, 28 2 years old). We identified 12,918 mRNAs 9158 lncRNAs (5492 known 3666 novel lncRNAs) muscle, 7352 4494 were differentially...
Local hypoxia has recently been reported to occur in the white adipose tissue (WAT) microenvironment during obesity. Adipocytes have a unique life cycle that reflects different stages of adipogenesis WAT niche. Long non-coding RNAs (lncRNAs) play an important role cellular response hypoxia. However, differentially hypoxic responses preadipocytes and potential lncRNAs this process remain be elucidated. Here, we evaluated primary hamster analyzed mRNA lncRNA expression same Ribo-Zero RNA-seq...
Abstract Background Goose, descendants of migratory ancestors, have undergone extensive selective breeding, resulting in their remarkable ability to accumulate fat the liver and exhibit a high tolerance for significant energy intake. As result, goose offers an excellent model studying obesity, metabolic disorders, diseases mammals. Although impact three-dimensional arrangement chromatin within cell nucleus on gene expression transcriptional regulation is widely acknowledged, precise...