201 USING THE TRANSCRIPTOME SIGNATURE TO PREDICT PREGNANCY SUCCESS IN BEEF COWS AT 6 DAYS AFTER ARTIFICIAL INSEMINATION

2015 ◽  
Vol 27 (1) ◽  
pp. 191
Author(s):  
S. Scolari ◽  
G. Pugliesi ◽  
S. C. S. Andrade ◽  
F. D'Alexandri ◽  
G. Gasparin ◽  
...  
Keyword(s):  
Pregnancy Outcome ◽  
Bos Indicus ◽  
Principal Component ◽  
Beef Cows ◽  
Endometrial Biopsy ◽  
Functional Enrichment ◽  
Marker Genes ◽  
High Fertility ◽  
Orthogonal Projections ◽  
Latent Structures

Pregnancy success is critical to the profitability of cattle operations. Attempts to reduce high rates of early embryonic loss mainly focus on the critical phase of embryo recognition by maternal tissue. However, the molecular events driving the uterine tissue toward a favourable stage, facilitating the maternal receptivity, are poorly understood. This study aimed to characterise the endometrial transcriptome profiles of pregnant versus nonpregnant beef cows during early pregnancy and attempted to define a potential set of marker genes that can be valuable for predicting pregnancy outcome. Therefore, pluriparous, cyclic Nellore (Bos indicus) cows were synchronized (n = 51) and artificially inseminated (n = 36) at detected oestrus using semen from a single high-fertility bull. Six days after AI (Day 6), jugular blood samples and an endometrial biopsy from the uterine horn contralateral to the ovary containing the CL were collected. Pregnancy diagnosis was performed by ultrasonography on Days 22 and 30. Based on pregnancy outcome, samples were retrospectively allocated to the following groups: pregnant (P; n = 6) and nonpregnant (NP; n = 5). Both groups had similar plasma progesterone concentrations on Day 6 (less than 1 ng mL–1 between lowest and greatest concentrations). Endometrial biopsies were submitted to RNA-Seq analysis in an Illumina single flow cell line (Illumina Inc., San Diego, CA). The 272 685 768 million filtered reads were mapped to the Bos taurus UMD3.1 reference genome and 14 654 genes were effectively analysed for differential expression between groups. Transcriptome data showed that 216 genes are differently expressed when comparing P v. NP endometrial tissue (adjusted P < 0.1). More specifically, 36 genes showed a significantly up-regulated expression for pregnant cows and 180 are up-regulated for non-pregant cows. Functional enrichment and pathway analyses revealed enriched expression of genes associated with extracellular matrix remodelling in NP cows and nucleotide binding, microsome, and vesicular fraction in P cows. From the 40 top-ranked genes, six that were down- and three that were up-regulated in pregnant cows were further analysed by qRT–PCR in an additional 26 cows. Subsequent quantitative expression data were evaluated using multivariate statistics. Both principal component analysis (PCA; R2 = 0.82 and Q2 = 0.40) and orthogonal projections to latent structures analysis (OPLS), using pregnancy as the dependent variable (R2Y = 0.95 and Q2 = 0.86), efficiently separated P from NP animals. In conclusion, this study characterizes a unique set of genes, expressed in the endometrium as early as 6 days after AI, that indicate a receptive state leading to pregnancy success. Furthermore, expression of such genes can be used as potential markers to efficiently predict pregnancy success.

scholarly journals Tissue-based metabolomics profiling reveals metabolic signatures and major metabolic pathways of gastric cancer

2021 ◽  
Author(s):  
Yaqin Wang ◽  
Wenchao Chen ◽  
Kun Li ◽  
Gang Wu ◽  
Wei Zhang ◽  
...  
Keyword(s):  
Gastric Cancer ◽  
Predictive Ability ◽  
Principal Component ◽  
Enrichment Analysis ◽  
Pentose Phosphate ◽  
P Value ◽  
Pathway Enrichment Analysis ◽  
Dodecanoic Acid ◽  
Orthogonal Projections ◽  
Latent Structures

Abstract Purpose This study was aimed to screen differential metabolites between gastric cancer (GC) and paracancerous (PC) tissues and find new biomarkers of GC. Methods GC (n = 28) and matched PC (n = 28) tissues were collected and LC-MS/MS analyses were performed to detect metabolites of GC and PC tissues in positive and negative models. Principal component analysis (PCA) and orthogonal projections to latent structures-discriminate analysis (OPLS-DA) were conducted to describe distribution of origin data and general separation and estimate the robustness and the predictive ability of our mode. Differential metabolites were screened based on criterion of variables with p value < 0.05 and VIP (variable importance in the projection) > 1.0. Receiver operating characteristic (ROC) analysis was performed to evaluate the diagnostic power of differential metabolites. Kyoto Encyclopedia of Genes and Genomes (KEGG) was performed to search for metabolite pathways and MetaboAnalyst was used for pathway enrichment analysis. Results Several metabolites were significantly changed in GC group compared with PC group. Thirteen metabolites with high VIP were chose and among which 1-methylnicotinamide, dodecanoic acid and sphinganine possessed high AUC values (AUC > 0.8) indicating an excellent discriminatory ability on GC. Pathways such as pentose phosphate pathway and histidine metabolism were focused based on differential metabolites demonstrating their effects on progress of GC. Conclusions In conclusion, we investigated the tissue-based metabolomics profile of GC and several differential metabolites and signaling pathways were focused. Further study is needed to verify those results.

scholarly journals Significant Changes in Metabolic Profiles after Intervention with Selenium and Coenzyme Q10 in an Elderly Population

Biomolecules ◽  
2019 ◽  
Vol 9 (10) ◽  
pp. 553
Author(s):  
Alehagen ◽  
Johansson ◽  
Aaseth ◽  
Alexander ◽  
Surowiec ◽  
...  
Keyword(s):  
Cardiovascular Mortality ◽  
Coenzyme Q10 ◽  
Metabolic Profiling ◽  
Demographic Data ◽  
Principal Component ◽  
Elderly Persons ◽  
Double Blind ◽  
Orthogonal Projections ◽  
Healthy Elderly ◽  
Latent Structures

Selenium and coenzyme Q10 (SeQ10) are important for normal cellular function. Low selenium intake leads to increased cardiovascular mortality. Intervention with these substances with healthy elderly persons over a period of four years in a double-blind, randomised placebo-controlled prospective study showed reduced cardiovascular mortality, increased cardiac function, and a lower level of NT-proBNP. Therefore, we wanted to evaluate changes in biochemical pathways as a result of the intervention with SeQ10 using metabolic profiling. From a population of 443 healthy elderly individuals that were given 200 µg selenium and 200 mg coenzyme Q10, or placebo daily for four years, we selected nine males on active intervention and nine males on placebo for metabolic profiling in the main study. To confirm the results, two validation studies (study 1 n = 60 males, study 2 n = 37 males) were conducted. Principal component analyses were used on clinical and demographic data to select representative sets of samples for analysis and to divide the samples into batches for analysis. Gas chromatography time-of-flight mass spectrometry-based metabolomics was applied. The metabolite data were evaluated using univariate and multivariate approaches, mainly T-tests and orthogonal projections to latent structures (OPLS) analyses. Out of 95 identified metabolites, 19 were significantly decreased due to the intervention after 18 months of intervention. Significant changes could be seen in the pentose phosphate, the mevalonate, the beta-oxidation and the xanthine oxidase pathways. The intervention also resulted in changes in the urea cycle, and increases in the levels of the precursors to neurotransmitters of the brain. This adds information to previous published results reporting decreased oxidative stress and inflammation. This is the first-time metabolic profiling has been applied to elucidate the mechanisms behind an intervention with SeQ10. The study is small and should be regarded as hypothesis-generating; however, the results are interesting and, therefore, further research in the area is needed. This study was registered at Clinicaltrials.gov, with the identifier NCT01443780

Mucosal and Systemic Immune Profiles Differ During Early and Late Phases of the Disease in Patients With Active Ulcerative Colitis

2019 ◽  
Vol 13 (11) ◽  
pp. 1450-1458 ◽  
Author(s):  
Georgios Mavroudis ◽  
Maria K Magnusson ◽  
Stefan Isaksson ◽  
Johanna Sundin ◽  
Magnus Simrén ◽  
...  
Keyword(s):  
Ulcerative Colitis ◽  
Serum Proteins ◽  
Principal Component ◽  
Treatment Decision ◽  
Disease Course ◽  
T Helper ◽  
Early Disease ◽  
Serum Samples ◽  
Orthogonal Projections ◽  
Latent Structures

Abstract Background and Aims Alterations in the immunopathogenesis in ulcerative colitis [UC] during the disease course have been proposed. We therefore aimed to determine mucosal and systemic immune profiles in individual patients at the time of diagnosis [early disease] and after 10 years [late disease]. Methods Patients with UC provided serum and mucosal biopsies during a flare in early and in late disease. Serum samples were analysed using the Olink Proseek Inflammation panel. mRNA gene expression of biopsies was analysed using the Qiagen RT2 Profiler PCR Arrays Antibacterial response and T Helper Cell Differentiation. Results Orthogonal projections to latent structures discriminant analyses [OPLS-DA] demonstrated that the profile of 15 serum proteins discriminated in early and late disease [R2 = 0.84, Q2 = 0.65] in 15 UC patients. Eight of these proteins were differently expressed between the groups [Q <0.05]. Further, OPLS-DA of the mRNA profiles in biopsies strongly discriminated early and late disease with high predictability [R2 = 0.96, Q2 = 0.89]; 42 genes were differently expressed at the two time points [Q <0.05]. Finally, principal component analysis showed that T helper [Th] 1- and Th2-related genes were associated with early disease and late disease, respectively, and hierarchical cluster analysis was able to cluster patients with early from late disease with only minor overlap. Conclusions Mucosal and systemic immune profiles differ between early and late disease in patients with active UC, with a transition from a Th1- to a Th2-driven disease in the intestine. Improved understanding of the variation in immunopathogenesis during the disease course in UC is important to guide individualised treatment decision making.

scholarly journals Mechanism of Xinfeng Capsule on Adjuvant-Induced Arthritis via Analysis of Urinary Metabolomic Profiles

2016 ◽  
Vol 2016 ◽  
pp. 1-10 ◽  
Author(s):  
Hui Jiang ◽  
Jian Liu ◽  
Ting Wang ◽  
Jia-rong Gao ◽  
Yue Sun ◽  
...  
Keyword(s):  
Discriminant Analysis ◽  
Principal Component ◽  
Treated Group ◽  
Multivariate Statistical ◽  
Orthogonal Projections ◽  
Adjuvant Induced Arthritis ◽  
Xinfeng Capsule ◽  
Latent Structures ◽  
Potential Biomarkers ◽  
Tof Ms

We aimed to explore the potential effects of Xinfeng capsule (XFC) on urine metabolic profiling in adjuvant-induced arthritis (AA) rats by using gas chromatography time-of-flight mass spectrometry (GC-TOF/MS). GC-TOF/MS technology was combined with multivariate statistical approaches, such as principal component analysis (PCA), partial least squares discriminant analysis (PLS-DA), and orthogonal projections to latent structures discriminant analysis (OPLS-DA). These methods were used to distinguish the healthy group, untreated group, and XFC treated group and elucidate potential biomarkers. Nine potential biomarkers such as hippuric acid, adenine, and L-dopa were identified as potential biomarkers, indicating that purine metabolism, fat metabolism, amino acid metabolism, and energy metabolism were disturbed in AA rats. This study demonstrated that XFC is efficacious for RA and explained its potential metabolomics mechanism.

scholarly journals 71 Effects of timing of supplementation during late gestation in Bos indicus-influenced beef cows on post-weaning growth, immunity, and carcass characteristics of steer progeny

2020 ◽  
Vol 98 (Supplement_2) ◽  
pp. 59-59
Author(s):  
Elizabeth Palmer ◽  
Marcelo Vedovatto ◽  
Juliana Ranches ◽  
Vinicius Gouvea ◽  
Rhaiza Oliveira ◽  
...  
Keyword(s):  
Bos Indicus ◽  
Carcass Characteristics ◽  
Beef Cows ◽  
Late Gestation ◽  
Experimental Unit ◽  
Carcass Quality ◽  
Diarrhea Virus ◽  
Randomized Design ◽  
Distillers Grain ◽  
Dried Distillers Grain

Abstract This study evaluated the growth, immunity, and carcass characteristics of beef steers born to cows offered dried distillers grains (DDG) at different timing during late gestation. Approximately 84 d before calving (d 0), 84 mature Brangus cows were stratified by BW and BCS (422 ± 42 kg; 5.0 ± 0.14) and allocated into 1 of 6 bahiagrass pastures (14 cows/pasture). Treatments were randomly assigned to pastures: 1) no prepartum supplementation (CON); 2) 1 kg/d DDG from d 0 to 84 (LATE84); or 3) 2 kg/d from d 0 to 42 (LATE42). Calves were weaned at 261 ± 23 d of age. At weaning, 38 steers were vaccinated against bovine viral diarrhea virus (BVDV-1) and parainfluenza-3 (PI-3) and transported to a feedlot facility. Steers were penned according to cow prepartum pasture distribution and fed a similar diet until slaughter (d 587). Data were analyzed as complete randomized design using MIXED procedure of SAS, pasture as the experimental unit, treatment as fixed effect, and pasture(treatment) and steer(pasture) as random effects. Steer feedlot BW, ADG, DMI, and G:F did not differ (P ≥ 0.12) among treatments. Plasma haptoglobin concentrations were greater (P ≤ 0.03) for LATE42 and LATE84 vs. CON steers 2 d after feedlot entry. Plasma cortisol and seroconversion for BVDV-1 and PI-3 did not differ (P ≥ 0.15) among treatments. The percentage of carcasses grading Choice did not differ (P = 0.13), but carcasses grading low Choice were greater (P = 0.03) for CON vs. LATE42, with LATE84 being intermediate (91, 40, and 58%, respectively). Thus, prepartum dried distillers grain supplementation to B. indicus-influenced cows did not enhance feedlot growth but had subtle positive impacts on carcass quality and innate immunity in steer progeny. In addition, timing of dried distillers grain supplementation (last 84 d vs. first 42 d of late gestation) did not impact steer post-weaning feedlot performance and carcass quality.

scholarly journals Differences in copper and selenium metabolism between Angus (Bos taurus) and Brahman (Bos indicus) cattle

2021 ◽  
Author(s):  
J Ranches ◽  
R Alves ◽  
M Vedovatto ◽  
E Anne Palmer ◽  
P Moriel ◽  
...  
Keyword(s):  
Bos Taurus ◽  
Bos Indicus ◽  
First Trimester ◽  
Beef Cows ◽  
Experimental Unit ◽  
University Of Florida ◽  
Brahman Cattle ◽  
Research And Education ◽  
The University ◽  
Se Status

Abstract A two-year study was conducted at the University of Florida – IFAS, Range Cattle Research and Education Center (Ona, FL) to evaluate differences in the metabolism of Cu and Se of Angus (Bos taurus) and Brahman (Bos indicus) cattle. Thirty-two pregnant beef cows (n = 8 Brahman and 8 Angus/year) were enrolled in the study in the first trimester of gestation. The study consisted of 3 phases: (1) restriction (d 0 to d 90); (2) supplementation (d 91 to 150), and (3) calving. During all 3 phases, cows were individually fed and housed in partially covered drylot pens. During the restriction and supplementation phases cows were provided a 1.5 kg/d of a grain-based concentrate supplement, which was fortified with flowers of S (50 g of supplemental S/cow daily; restriction phase) or Cu and Se (100 and 3 mg/d of Cu and Se, respectively; supplementation phase). Blood and liver samples were collected from all cows on 30 d intervals and from both cows and calves within 24 h of calving. Colostrum and milk samples were collected at calving and 7 d after birth. All data were analyzed using the MIXED procedure of SAS, where cow and calf were the experimental unit. During the restriction phase, a breed × day effect (P = 0.03) was observed where Brahman had greater liver Cu concentration than Angus cows in all sampling days. For liver Se concentration, a tendency (P = 0.07) for a breed effect was observed where Angus cows tended to have greater liver Se concentration than Brahman. During the supplementation phase, breed (P &lt; 0.001) and day (P &lt; 0.01) effects were observed, where Brahman cows had greater liver Cu concentration than Angus. For liver Se concentration, a day effect (P &lt; 0.001) was observed, where liver Se concentration increased (P &lt; 0.001) from d 90 to 120 and remained unchanged (P = 0.86) until d 150. At calving no effects of breed (P = 0.34) were observed for liver Cu concentration of cows, however, Brahman calves tended (P = 0.09) to have greater liver Cu concentration than Angus calves. For Se liver concentration at calving, Angus cows tended (P = 0.07) to have greater liver Se concentration than Brahman cows, however no breed differences (P = 0.70) were observed for liver Se concentration of calves at birth. In summary substantial differences in multiple indicators of Cu and Se status were observed between Angus and Brahman cattle, implying that Angus and Brahman cattle possibly have different mechanisms to maintain adequate Cu and Se status.

1158 Effects of post-AI supplementation with Ca salts of soybean oil on ovarian and pregnancy development in Bos indicus beef cows

2016 ◽  
Vol 94 (suppl_5) ◽  
pp. 555-556
Author(s):  
R. S. Cipriano ◽  
R. F. Cooke ◽  
A. D. P. Rodrigues ◽  
L. G. T. da Silva ◽  
T. F. Schumaher ◽  
...  
Keyword(s):  
Soybean Oil ◽  
Bos Indicus ◽  
Beef Cows

scholarly journals Effect of three different agronomic conditions on biochemical profile and diversity in the rhizosphere of banana plantations infected with Fusarium oxysporum Race 1

2021 ◽  
Vol 27 (2) ◽  
Author(s):  
Katherine Sánchez-Zúñiga ◽  
◽  
Ana Tapia-Fernández ◽  
William Eduardo Rivera-Méndez ◽  
◽  
...  
Keyword(s):  
Microbial Communities ◽  
Management Practices ◽  
Soil Health ◽  
Chemical Properties ◽  
Principal Component ◽  
Exchange Capacity ◽  
High Fertility ◽  
Fertility Level ◽  
Biochemical Profile ◽  
Agronomic Conditions

Soil microorganisms play an important role as a link in the transfer of nutrients from the rhizosphere. The physical and chemical properties of soil, the metabolic profiles of microbial communities and different crop management practices can enhance our understanding of hizospheric interactions. This study aimed to establish differences in microbial communities associated with banana crops and the biochemical profile in farms under different agronomic conditions. Seven farms with different levels of intervention, management, and fusariosis severity were analyzed. The biochemical profile of the microbial community was determined using EcoPlates and the main substrates consumed by the microbial communities were identified through multivariate principal component analysis (PCA). Seven microorganisms were selected as indicators of nutrient cycles, pathogenicity and soil health. Also, soil chemical indicators were determined through a complete mineral analysis. For the physiological profile of soil microbial populations, it was observed that farms with the same management tend to be metabolically very similar. In the PCA, two principal components explained 90 % of the variance in the data. It was also determined that the genus Bacillus is predominant in all farms and that farm 4 (medium intervention) presented the most favorable values in all factors analyzed. The effective cation exchange capacity values are highlighted in the chemical analyses, which determined that all farms have a high fertility level. The metabolic profile, diversity and richness of each of the different farms were affected by the type of agronomic management used.

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