Ontology highlight
ABSTRACT:
PROVIDER: PRJNA875155 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR21384376_1.fastq.gz | Fastqsanger.gz | |||
| SRR21384376_2.fastq.gz | Fastqsanger.gz | |||
| SRR21384377_1.fastq.gz | Fastqsanger.gz | |||
| SRR21384377_2.fastq.gz | Fastqsanger.gz | |||
| SRR21384378_1.fastq.gz | Fastqsanger.gz |
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Project description:Numerous circular RNAs (circRNAs) have been recently identified in porcine tissues and cell types. Nevertheless, their significance in porcine spleen development is yet unelucidated. Herein, we report an extensive overlook of circRNA expression profile during Meishan pig spleen development at 1, 7, 14, 21, 28, 35, 120, and 180 days of age. Overall, 39,641 circRNAs were identified from 6,914 host genes. Among them, many circRNAs are up- or down-regulated at different time points of pig spleen development. Using WGCNA analysis, we revealed two essential modules for protein-coding genes and circRNAs. Subsequent correlation analysis revealed 67 circRNAs/co-expressed genes that participated in immnue-associated networks. Furthermore, a competing endogenous RNA (ceRNA) network analysis of circRNAs revealed that 12 circRNAs modulated CD226, MBD2, SAMD3, SIT1, SRP14, SYTL3 gene expressions via acting as miRNA sponges. Moreover, the circRNA_21767/miR-202-3p axis regulated SIT1 expression in a ceRNA manner, which is critical for the immune-based regulation of spleen development in Meishan pigs.
2023-04-11 | GSE228936 | GEO
Project description:From gestation day 75 to gestation day 90, an important stage for the placental and fetal development, the fetuses grow rapidly and need adequate nutrition. The Meishan pigs and the Large White pigs employ different ways in supplying the enough nutrients and oxygen to the fetus. The Meishan pigs increased the vascular density and the Large White pigs have the second increase in the surface of placenta. To understand the molecular basis related to late gestation placenta development in Chinese indigenous and Western breeds with different placental efficiency, samples were collected and used to hybridized. The results offered new data on understanding the molecular basis of placenta efficiency, and indicated that Erhualian pigs had the more efficient than the Large White pigs.
2009-06-20 | GSE11853 | GEO
Project description:Affymetrix miRNA arrays were used to generate miRNA profiles in placenta of Meishan and Yorkshire pigs on stages of initiation (gestational day 26) and establishment (gestational day 50) of placental folds development. The study allowed for the determination of the miRNAs that were differentially expressed in porcine placenta on different gestational day. This study will provide the information to better understanding of the role miRNAs in porcine placental development.
2015-10-01 | GSE62996 | GEO
Project description:From gestation day 75 to gestation day 90, an important stage for the placental and fetal development, the fetuses grow rapidly and need adequate nutrition. The Meishan pigs and the Large White pigs employ different ways in supplying the enough nutrients and oxygen to the fetus. The Meishan pigs increased the vascular density and the Large White pigs have the second increase in the surface of placenta. To understand the molecular basis related to late gestation placenta development in Chinese indigenous and Western breeds with different placental efficiency, samples were collected and used to hybridized. The results offered new data on understanding the molecular basis of placenta efficiency, and indicated that Erhualian pigs had the more efficient than the Large White pigs. Experiment Overall Design: Placenta efficiency (the body weight of a piglet divided by the mass of its placenta) of Erhualian pigs is markedly higher than Large White pigs. so placenta samples (female) from 6 Erhuanlian pregnant gilts at gestation day 75 (E75) and day 90 (E90) and 6 Large White pregnant gilts at gestation day 75 (L75) and day 90 (L90) were collected. RNAs from two female piglet placentas from each gilt were combined to 12 pools and hybridized to the porcine Affymetrix GeneChip.
2009-07-01 | E-GEOD-11853 | biostudies-arrayexpress
Project description:Background: The anterior pituitary plays a crucial role in endocrine regulation and homeostasis by orchestrating hormonal signaling, cellular growth, and functional adaptations. Adipokines regulate hypothalamic-pituitary-ovarian axis influencing hormone secretion and cellular processes. Omentin-1, an adipokine primarily expressed in visceral adipose tissue, is involved in metabolic and reproductive functions. However, its role in pituitary remains unknown. We hypothesize that omentin-1 modulates protein abundance in pituitary cells. This study aimed to investigate role of omentin-1 in regulating key pathways in anterior pituitary cells of pigs with different metabolic statuses: normal-weight Large White pigs and genetically obese Meishan pigs. Results: High-throughput proteomic analysis of porcine anterior pituitary cells exposed to omentin-1 revealed 230 differentially abundant proteins (30 downregulated and 3 upregulated in Large White pigs, as well as 107 downregulated and 90 upregulated in Meishan pigs), associated with 116 gene ontology terms. The most significantly altered proteins were associated with cell cycle and DNA replication, gene expression regulation and posttranscriptional/posttranslational modifications. Apoptotic and proliferative mechanisms varied between breeds, suggesting different metabolic adaptation strategies. In Large White pigs, CDK5RAP2 and SIX1 played a key role in transcriptional and proliferative regulation, whereas in Meishan pigs, stronger proliferative control was linked to AKT1S1 and RHOA. Moreover, Meishan pigs demonstrated a more dynamic regulation of apoptotic pathways (HTRA2, PARP2, DFFA), which may promote greater metabolic plasticity and better adaptation to physiological fluctuations. Additional in vitro experiments in Large White pigs showed that omentin-1 influenced key proliferative and apoptotic markers, downregulating cyclins D1, E1, A2, and B1, as well as caspase-3, while upregulating the anti-apoptotic protein BCL2, leading to an increased BCL2/BAX ratio. Further, omentin-1 modulated phosphorylation of selected kinases, including ERK1/2, AKT, AMPKα, and STAT3, in a time-dependent manner. It is also increased insulin receptor expression and promoted packaging and transport of secretory proteins. Conclusions: Proteomic and functional analyses revealed that omentin-1 regardless of breed exerts anti-proliferative and anti-apoptotic effects on porcine anterior pituitary cells, modulating key signaling pathways. These findings highlight that omentin-1 is a potential metabolic regulator influencing anterior pituitary function.
2025-06-17 | PXD061269 | Pride
Project description:Backfat thickness is one of the most important traits of commercially raised pigs. Meishan pigs are renowned for having thicker backfat than Landrace pigs. To examine the genetic factors responsible for the differences, we first produced female crossbred pig lines by mating Landrace (L) × Large White (W) × Duroc (D) females (LWD) with Landrace (L) or Meishan (M) boars (i.e., LWD × L = LWDL for Landrace offspring and LWD × M = LWDM of the Meishan offspring). We confirmed that LWDM pigs indeed had a thicker backfat than LWDL pigs. Next, we performed gene expression microarray analysis (in both genetic lines) to examine differentially expressed genes (DEGs) in energy metabolism-related tissues, subcutaneous adipose (fat), liver, and longissimus dorsi muscle tissues. We analyzed the annotation of DEGs (2-fold cutoff) to functionally categorize them by Gene Ontology and Kyoto Encyclopedia of Genes and Genomes pathways. The number of DEGs in muscle tissues of both lines was much less than that in fat and liver tissues, indicating that DEGs was much lesser in muscle tissues (in both genetic lines) than in fat and liver tissues, thus indicating that DEGs in muscle tissues may not contribute much to differences in backfat thickness. In contrast, several genes related to muscle (in fat tissue) and fatty acid and glucose metabolism (in the liver) were more upregulated in LWDM pigs than LWDL pigs, indicating that those DEGs might be responsible for differences in backfat thickness. The different genome-wide, gene expression profiles in the fat, liver, and muscle tissues between breeds can provide useful information for pig breeders.
2018-09-06 | GSE97711 | GEO
Project description:Blood is the pipeline of the immune system. Assessing changes in transcript abundance in blood on a genome-wide scale affords a comprehensive view of the status of the immune system during development. However, little is known about the changes of gene expression in blood across multiple developmental stages in pigs. In this study, we performed transcriptomic analysis of messenger RNA (mRNA) and long noncoding RNA (lncRNA) expressed in whole-blood tissue from pigs of natal, suckling, weaning, sexual maturity and adult stages. A total of 5,946 lncRNA and 12,354 mRNA transcripts were identified to be substantially expressed. Short time-series expression miner (STEM) and functional enrichment analysis showed that genes with the greatest variation of expression levels between suckling period (0, 7 and 28 days) and the late stage of development (180 days and 2 years) might function in transcription, immune function, and apoptotic process. Functional prediction indicated the expression correlation and functional relatedness between mRNAs and lncRNAs. Additionally, a number of T cell-related genes were continuously up-regulated during lactation, suggesting this phase is significant for the establishment of piglet adaptive immunity. Notably, the TCONS_00192752 and TCONS-00086451 lncRNA might promote blood immune development by up-regulating the tumor necrosis factor receptor-associated factor 3 (TRAF3) and nuclear factor of activated T-cells cytoplasmic 2 (NFATC2) expression, respectively. Our research provides the first catalog of the developing pig whole-blood, and will accelerate clinical researches of immune system development with pig models.
2019-12-17 | GSE123923 | GEO
Project description:The study allowed for the determination of the mRNAs that were differentially expressed in porcine endometrium on different gestational day and breed. The majority of the mRNAs were differentially expressed during the implantation stage. This study will provide the information to better understanding of the role of these differently expressed mRNAs in the porcine endometrium during pregnancy. Affymetrix mRNA arrays were used to generate mRNA profiles of on the endometrium of Meishan and Yorkshire pigs on days 15 (implantation stage), 26 (post-implantation stage) and 50 (mid-gestation stage) of gestation.
2015-12-31 | GSE51787 | GEO
Project description:Gene expression profile of circRNA in spleen tissue of Meishan pigs at different time points
| PRJNA952216 | ENA