Transcriptomic profiling of adipose tissue in periparturient dairy cows
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ABSTRACT:
PROVIDER: PRJNA668102 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR12794653_1.fastq.gz | Fastqsanger.gz | |||
| SRR12794653_2.fastq.gz | Fastqsanger.gz | |||
| SRR12794654_1.fastq.gz | Fastqsanger.gz | |||
| SRR12794654_2.fastq.gz | Fastqsanger.gz | |||
| SRR12794655_1.fastq.gz | Fastqsanger.gz |
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Project description:Periparturient cows rely on adipose tissue fatty acid reserves released by lipolysis to offset the negative energy balance induced by physiological changes related to parturition and the onset of lactation. However, lipolysis causes inflammation and structural remodeling in excess predisposes cows to disease. The objective of this study was to determine effects of the periparturient period on the transcriptomic profile of AT using NGS RNAseq
2020-10-09 | GSE159224 | GEO
Project description:The severity of negative energy balance (NEB) in high-producing dairy cows has a high incidence among health diseases. The periparturient period is crucial for the health status and reproductive performance of dairy cows. During this period, dairy cows experience a transition from a pregnant, non-lactating state to a non-pregnant, lactating state. At the beginning of lactation, the energy needs for milk production are higher than the available energy consumed from feed intake, resulting in a negative energy balance (NEB)]. While in a NEB, cows mobilise their reserves from adipose tissue, resulting in elevated plasma concentrations of non-esterified fatty acids (NEFAs), which are used as a fuel source by peripheral tissues and the mammary gland for milk fat synthesis. Thus, white adipose tissue is one of the main tissue involved in the energy production during this transition period. So the objectives of our study were to dentify mRNA differentially expressed in white adipose before and after calving in dairy cow fed with low (LE) and high (HE) energy diet.
2022-07-31 | GSE135162 | GEO
Project description:Hepatic molecular adaptations underlying periparturient metabolic diseases such as ketosis in dairy cows are largely unknown. We used a simple model for induction of ketosis to examine liver gene expression profiles using a microarray consisting of 13,257 annotated cattle oligonucleotides. At 4 days post-partum, 7 cows classified as healthy after a physical examination were fed at 50% of intake at day 4 from day 5 to signs of ketosis or until 14 days post-partum. Another group of 7 healthy cows served as controls. Liver was biopsied at 9-14 (ketosis) or 14 days post-partum (controls). More than 9,000 sequences represented on the microarray were expressed in liver. Keywords: disease state analysis
2007-10-09 | GSE4304 | GEO
Project description:The liver of dairy cows naturally displays a series of metabolic adaptation during the periparturient period in response to the increasing nutrient requirement of lactation. The hepatic adaptation is partly regulated by insulin resistance and it is affected by the prepartal energy intake level of cows. We aimed to investigate the metabolic changes in the liver of dairy cows during the periparturient at gene expression level and to study the effect of prepartal energy level on the metabolic adaptation at gene expression level.B13:N13
2017-10-05 | GSE97437 | GEO
Project description:We performed a global gene-expression analysis of mammary gland and liver tissue collected from dairy cows that had been exposed to a controlled E. coli infection. At time = 0, each of the periparturient dairy cows received 20-40 colony-forming units of live E. coli in one front quarter of the udder. Biopsy samples of healthy and infected udder tissue were collected at T = 24 h post-infection (p.i.) and at T = 192 h p.i. to represent the acute phase response (APR). A time series of liver biopsies was collected at -144, 12, 24, and 192 h relative to time of inoculation. Hf=right forward teat Vf=left forward teat
2016-07-01 | E-GEOD-75379 | biostudies-arrayexpress
Project description:While dietary phosphorus (P) deprivation extending from the dry period into early lactation impairs health and productivity of cows, restricting dietary P supply during the dry period not only appears to be innocuous but rather effectively mitigates hypocalcemia during the first wk of lactation. To investigate possible negative metabolic effects of P deprivation during the dry period, the present study tested the hypothesis that restarted dietary P supply during the dry period alters the liver transcriptome of dairy cows during the periparturient period. Thirty late-pregnant multiparous Holstein-Friesian dairy cows entering their 2nd, 3rd or 4th lactation were assigned to either a dry cow ration with low (LP, 0.16% P in DM) or adequate P content (AP, 0.35% in DM) during the last 4 wk of the dry period (n = 15/group). Liver transcriptomics, which was carried out in a subset of five 2nd parity cows of each group (n = 5), and determination of selected hormones and metabolites in blood of all cows, was performed approximately one wk before calving and on d 3 postpartum. Liver tissue specimens and blood samples were obtained by a micro-invasive biopsy technique from the right 10th intercostal space and puncture of a jugular vein, respectively. 175 hepatic transcripts were expressed differentially between LP vs. AP cows in late pregnancy, and 165 transcripts differed between LP vs. AP cows in early lactation (Fold change > 1.3 and < -1.3, P < 0.05). In late pregnancy, the enriched biological processes of the up-regulated and the down-regulated transcripts were mainly related to immune processes and signal transduction (P < 0.05), respectively. In early lactation, the enriched biological processes of the up-regulated and the down-regulated transcripts were involved in mineral transport and biotransformation (P < 0.05), respectively. The plasma concentrations of the hormones and acute phase proteins (progesterone, insulin-like growth factor 1, serum amyloid alpha, haptoglobin, and 17β-estradiol) determined were not affected by P supply. These results suggest that P deprivation during the dry period moderately affects the liver transcriptome of cows in late pregnancy and early lactation, and causes no effects on important plasma hormones and acute phase proteins indicating no obvious impairment of health or metabolism of the cows.
2024-02-20 | GSE255358 | GEO
Project description:The current situation of rising demand for animal products and sustainable resource usage, improving nutrient utilization efficiency in dairy cows is an important task. Understanding the biology of feed efficiency in dairy cows enables for the development of markers that may be used to identify and choose the best animals for animal production. Thus in this study, ten Holstein cows were evaluated for feed efficiency and adipose tissue samples from five high efficient and five low efficient dairy cows were collected for protein extraction, digestion and data were analyzed for differential abundant proteins enriched in feed efficiency pathways. Among the identified peptides, we found 110 DAPs and two protein networks significantly related to feed efficiency. Among the relative mRNA expression of genes involved in energy metabolism including transcription/translation (STAT2, DDX39A and RBM39) or protein transport (ITGAV), only RBM39 showed significant decrease in high efficient dairy cows. The findings presented here confirmed the Transferrin upregulated in pathways including acute phase response signaling, LXR/RXR activation, FXR/RXR activation of high efficient dairy cows supporting that these pathways are related to feed efficiency in dairy cows.
2022-08-12 | PXD029328 | Pride
Project description:This article contains raw and processed data related to research published by Swartz et al. [1]. Proteomics data from liver of postpartum dairy cows were obtained by liquid chromatography-mass spectrometry following protein extraction. Differential abundance between liver of cows experiencing either negative energy balance (NEB, n=6) or positive energy balance (PEB, n=4) at 17±3 DIM was quantified using MS1 intensity based label-free. There is a paucity of studies examining the associations of NEB with the liver proteome in early lactation dairy cows. Therefore, our objective was to characterize the differences in the liver proteome in periparturient dairy cows experiencing naturally occurring NEB compared to cows in PEB. In this study, multiparous Holstein dairy cows were milked either 2 or 3 times daily for the first 30 days in milk (DIM) to alter energy balance, and were classified retrospectively as NEB (n=18) or PEB (n=22). Liver biopsies were collected from 10 cows (n=5 from each milking frequency), that were retrospectively classified according to their energy balance (NEB, n=6; PEB, n=4). The liver proteome was characterized using label-free quantitative shotgun proteomics. This novel dataset contains 2,741 proteins were identified, and 68 of those were differentially abundant between NEB and PEB (P≤0.05 and FC±1.5); these findings are discussed in our recent research article [1]. The present dataset of liver proteome can be used as either biological markers for disease or therapeutic targets to improve metabolic adaptations to lactation in postpartum dairy cattle.
2021-10-13 | PXD028124 | Pride
Project description:This study aimed at evaluating the global gene expression of blood-derived neutrophils from periparturient cows. Blood was collected from Holstein Friesian periparturient cows (N=3) at −14 d relative to expected calving date and 7 d relative to actual calving date. Neutrophils were isolated and subsequently used for transcriptional profiling using the Agilent bovine (v2) 4 × 44 K array. Calculation of fold change in gene expression and pathway analysis was conducted using the GeneSpring GX software 13.0. Periparturient period impacted global gene expression and resulted in 249 genes that were differentially expressed (FC≥2, p<0.05.); 162 were upregulated post-calving 87 of these were downregulated. Genes that code for proinflammatory receptors (CD58, GLRX3), chemokines (CMKLR1), and transcriptional regulation (MTA) were upregulated. Concurrently, genes that code for cellular adhesion and migration (ADRM1 and THY1), and immune induction (CATHL2) and homeostasis were downregulated gene. Pathway analysis revealed that 118 pathways are affected in bovine neutrophils during the periparturient period (p<0.05). These pathways included the Wnt signaling, one carbon Metabolism, TLR, inflammation response, Oxidative Stress, T-Cell Receptor signaling, adipogenesis, and MAPK Signaling Pathways.
2019-04-12 | GSE129639 | GEO
Project description:BackgroundPeriparturient cows release fatty acid reserves from adipose tissue (AT) through lipolysis in response to the negative energy balance induced by physiological changes related to parturition and the onset of lactation. However, lipolysis causes inflammation and structural remodeling in AT that in excess predisposes cows to disease. The objective of this study was to determine the effects of the periparturient period on the transcriptomic profile of AT using NGS RNAseq.ResultsSubcutaneous AT samples were collected from Holstein cows (n = 12) at 11 ± 3.6 d before calving date (PreP) and at 6 ± 1d (PP1) and 13 ± 1.4d (PP2) after parturition. Differential expression analyses showed 1946 and 1524 DEG at PP1 and PP2, respectively, compared to PreP. Functional Enrichment Analysis revealed functions grouped in categories such as lipid metabolism, molecular transport, energy production, inflammation, and free radical scavenging to be affected by parturition and the onset of lactation (FDR < 0.05). Inflammation related genes such as TLR4 and IL6 were categorized as upstream lipolysis triggers. In contrast, FASN, ELOVL6, ACLS1, and THRSP were identified as upstream inhibitors of lipid synthesis. Complement (C3), CXCL2, and HMOX1 were defined as links between inflammatory pathways and those involved in the generation of reactive oxygen species.ConclusionsResults offer a comprehensive characterization of gene expression dynamics in periparturient AT, identify upstream regulators of AT function, and demonstrate complex interactions between lipid mobilization, inflammation, extracellular matrix remodeling, and redox signaling in the adipose organ.
| S-EPMC7686742 | biostudies-literature