Pig gut metagenome
Ontology highlight
ABSTRACT:
PROVIDER: PRJNA577253 | ENA |
REPOSITORIES: ENA
Similar Datasets
Project description:The majority of babies in the US are formula-fed instead of breast fed. There are major differences in the composition of formulas and breast milk and yet little is known about metabolic differences in babies as the result of feeding these very different diets and how that might affect development or disease risk in later life. One concern is that soy-based formulas might have adverse health effects in babies as a result of the presence of low levels of estrogenic phytochemicals genistein and daidzein which are normally present in soy beans. In the current study, we used a piglet model to look at this question. Piglets were either fed breast milk from the sow or were fed two different infant formulas (cow's milk-based or soy-based) from age 2 days to 21 days when pigs are normally weaned onto solid food. Blood glucose and lipids were measured. Formula-fed pigs were found to have lower cholesterol than breast fed piglets and in addition had larger stores of iron in their liver.Microarray analysis was carried out to see if changes in liver gene expression could explain these effects of formula feeding. It was found that overall gene expression profiles were influenced by formula feeding compared to breast fed neonates. Gender-independent and unique effects of formula influenced cholesterol and iron metabolism. Further, soy formula feeding in comparison to milk-based formula failed to reveal any estrogenic actions on hepatic gene expression in either male or female pigs. Piglets (female, male) were either fed breast milk from the sow or were fed two different infant formulas (cow's milk-based or soy-based) from age 2 days to 21 days when pigs are normally weaned onto solid food.
2012-01-05 | E-GEOD-28349 | biostudies-arrayexpress
Project description:The transcriptome changes of the ileal mucosa in suckling piglets during early postnatal life were analysed to contribute to the knowledge of a pig’s gut development. In addition, the ileal transcriptome of suckling piglets was compared with that of age-matched weaned piglets (weaned at the age of 21 days) to elucidate the effect of weaning on the developing gut. DNA microarray was used to analyse the change of transcriptome profiles and biological pathways in porcine ileum that occurred during the developmental or the weaning process.
2015-09-30 | GSE65008 | GEO
Project description:Weaning is a very critical period for piglets, typically accompanied by lower feed intake, weight loss after weaning and increased mortality. At weaning, piglets are exposed to many stressors, such as loss of mothering, mixing with other litters, end of lactational immunity, and a change in their environment and gut microbiota. After weaning, morphological and histological changes occur in the small intestine of piglets producing a rapid change of feeding regime which is critical for the immature digestive system. Sixteen female piglets were weaned to assess the effect of sorbic acid supplementation on the small intestine tissue transcriptome. At weaning day (T0), 4 piglets were sacrified and tissue samples collected. The remaining 12 piglets were weighted and randomly assigned to different post weaning (T5) diets. Diet A (n=6) contained 5 g/kg of sorbic acid. Diet B (n=6) is the same as Standard diet. Total RNA was isolated from ileum samples to be analyzed using the a CombiMatrix CustomArrayTM 90K platform . Even though diet had no detectable effect during the first 5 days after weaning, outcomes from this study highlighted some of the response mechanisms to the stress of weaning occurring in the piglet gut. A total of 205 differentially expressed genes were used for functional analysis using bioinformatics through BLAST2GO, Ingenuity Pathway Analysis 8.0, and the Dynamic Impact Aproach (DIA). Bioinformatics analysis revealed that Apoptosis, RIG-I-like and NOD-like receptor signaling were altered as a result of weaning. Results suggest that immune and inflammatory responses were activated and likely are a cause of small intestine atrophy as revealed by a decrease in villus height and villus/crypt ratio. Keywords: weaning, gut, gene expression, sorbic acid, microarray analysis
2014-11-14 | GSE50150 | GEO
Project description:Seaweeds, including the green Ulva lactuca, can potentially reduce competition between feed, food, and fuel. They can also contribute to the improved development of weaned piglets. However, their indigestible polysaccharides of the cell wall pose a challenge. This can be addressed through carbohydrase supplementation, such as the recombinant ulvan lyase. The objective of our study was to assess the muscle metabolism of weaned piglets fed with 7% U. lactuca and 0.01% ulvan lyase supplementation, using an integrated transcriptomics and proteomics approach. Feeding piglets with seaweed and enzyme supplementation resulted in reduced macronutrient availability, leading to protein degradation through the proteasome (PSMD2), with resulting amino acids being utilized as an energy source (GOT2, IDH3B). Moreover, mineral element accumulation (iodine and bromine) contributed to increased oxidative stress, evident from elevated levels of antioxidant proteins like catalase, as a response to maintain tissue homeostasis. The upregulation of the gene AQP7, associated with the osmotic stress response, further supports these findings. Consequently, an increase in chaperone activity, including HSP90, was required to repair damaged proteins. Our results suggest that enzymatic supplementation may exacerbate the effects observed from feeding U. lactuca alone, potentially due to side effects arising from cell wall degradation during digestion.
2024-02-27 | PXD043394 | Pride
Project description:The majority of babies in the US are formula-fed instead of breast fed. There are major differences in the composition of formulas and breast milk and yet little is known about metabolic differences in babies as the result of feeding these very different diets and how that might affect development or disease risk in later life. One concern is that soy-based formulas might have adverse health effects in babies as a result of the presence of low levels of estrogenic phytochemicals – genistein and daidzein which are normally present in soy beans. In the current study, we used a piglet model to look at this question. Piglets were either fed breast milk from the sow or were fed two different infant formulas (cow’s milk-based or soy-based) from age 2 days to 21 days when pigs are normally weaned onto solid food. Blood glucose and lipids were measured. Formula-fed pigs were found to have lower cholesterol than breast fed piglets and in addition had larger stores of iron in their liver.Microarray analysis was carried out to see if changes in liver gene expression could explain these effects of formula feeding. It was found that overall gene expression profiles were influenced by formula feeding compared to breast fed neonates. Gender-independent and unique effects of formula influenced cholesterol and iron metabolism. Further, soy formula feeding in comparison to milk-based formula failed to reveal any estrogenic actions on hepatic gene expression in either male or female pigs.
2012-01-05 | GSE28349 | GEO
Project description:Laminaria digitata is a brown seaweed with prebiotic properties that has the potential to improve the response of weaned piglets to nutritional stress. However, its cell wall polysaccharides are not digested by the endogenous enzymes of monogastric animals. Alginate lyase has shown promise in degrading them under in vitro conditions. The objective of this study is to evaluate the effect of a 10% incorporation of L. digitata, and alginate lyase supplementation on the ileum proteome and metabolome, in a hypothesis generating approach. Control piglets increased the use of glucose as an enteric source of energy, demonstrated by the higher abundance of PKLR and PCK2 proteins and the lower concentration of glucose found in the tissue. Furthermore, seaweed inclusion promoted an increased abundance of proteins related with improved enterocyte structural integrity (ACTBL2, CRMP1, FLII, EML2 and MYLK), peptidase activity (NAALADL1, CAPNS1) and anti-inflammatory activity (C3), demonstrating improved intestinal function. Coherently, they lowered the abundance of apoptosis (ERN2) and proteolytic (DPP4) proteins. Alginate lyase supplementation seems to magnify the baseline effects of feeding the seaweed alone, by increasing the number of differential proteins in the same pathways, possibly as a consequence of increased intracellular nutrient release.
2023-09-29 | PXD043393 | Pride
Project description:The study investigated the impact of environment on the composition of the gut microbiota and mucosal immune development and function at gut surfaces in early and adult life. Piglets of similar genotype were reared in indoor and outdoor environments and in an experimental isolator facility. Mucosa-adherent microbial diversity in the pig ileum was characterized by sequence analysis of 16S rRNA gene libraries. Host-specific gene responses in gut ileal tissues to differences in microbial composition were investigated using Affymetrix microarray technology and Real-time PCR. Experiment Overall Design: Animals were reared on the sow at an outdoor or indoor facility. Additional piglets from the indoor facility were transferred to individual isolator units at 24 hours of age, and given a daily dose of antibiotic cocktail for the duration of the study. Piglets were weaned at day 28. From day 29 onwards, piglets were fed creep feed ad libitum. Ileal tissue samples were excised from N=6 piglets per group at day 5, 28 and 56.
2009-12-05 | E-GEOD-15256 | biostudies-arrayexpress
Project description:To investigate the effect of short distance transport on jejunal tissueof weaned piglets, We then performed gene expression profiling analysis using data obtained from RNA-seq in jejunal tissues of weaned piglets after transport and without transport
2023-02-17 | GSE225156 | GEO
Project description:The brown seaweed Laminaria digitata is a novel feedstuff for weaned piglets. It can help prevent dysbiosis in addition to improve overall health and performance. However, it has a recalcitrant cell wall that is not easily digested by the piglet digestive system. Alginate lyase has promising effects for the supplementation of in vivo diets in order to address this issue. The objective of this study is to evaluate the effect of 10% dietary Laminaria digitata inclusion and alginate lyase supplementation on the hepatic proteome and metabolome of weaned piglets in a physiological study. The diets caused incipient differences on the metabolome of piglets, with the proteome having the most significant changes. Feeding seaweed provided a source of n-3 PUFA that accumulated in the liver, signalling for increased fatty acid oxidation (FABP, ACADSB, ALDH1B1). This contributed at least in part to reduce oxidative stability of the tissue, demanding the higher abundance of GST to maintain it. Reactive oxygen species possibly damaged proteins, which caused hepatocytes to increase proteasome activity (LAPTM4B, PSMD4), recycling their amino acids. Providing alginate lyase to the diet increased the number of differentially abundant proteins, including GBE1 and LDHC that contributed to the maintenance of circulating glucose through mobilization of glycogen stores and branched chain amino acids. Enzymatic supplementation enhanced the baseline effects of feeding seaweed alone.
2024-01-05 | PXD043520 | Pride
Project description:Transcriptional profiling of 25d old piglets comparing control untreated suckling jejunum with weaned piglets' jejunum. The goal was to gain new insight into the interaction between weaning and intestinal function.A keen interest is paid in deciphering expression changes of apoptosis or cell cycle control genes. The statistical analysis of gene ontology revealed that most of these altered genes are metabolic-related enzymes and regulators which may involved in the biological regulation, developmental process, and cellular process. Weaning also causes alterations in various immune response pathways. Results likely indicate that weaning induced cell cycle arrest, enhanced apoptosis, and inhibited cell proliferation. Two-condition experiment, suckling control piglets' jejunum vs. weaned piglets' jejunum. Biological replicates: 4 control replicates, 4 weaned replicates.
2014-05-01 | E-GEOD-48050 | biostudies-arrayexpress