Comparison of effects of hypoxia on glutathione and activities of related enzymes in livers of Tibet chicken and Silky chicken

Metabolomics and transcriptomics of embryonic livers reveal hypoxia adaptation of Tibetan chickens

BACKGROUND

Exploring the hypoxia adaptation mechanism of Tibetan chicken is of great significance for revealing the survival law of Tibetan chicken and plateau animal husbandry production. To investigate the hypoxia adaptation of Tibetan chickens (TBCs), an integrative metabolomic-transcriptomic analysis of the liver on day 18 of embryonic development was performed. Dwarf laying chickens (DLCs), a lowland breed, were used as a control.

RESULTS

A total of 1,908 metabolites were identified in both TBCs and DLCs. Energy metabolism and amino acid metabolism related differentially regulated metabolites (DRMs) were significantly enriched under hypoxia. Important metabolic pathways including the TCA cycle and arginine and proline metabolism were screened; PCK1, SUCLA2, and CPS1 were found to be altered under hypoxic conditions. In addition, integrated analysis suggested potential differences in mitochondrial function, which may play a crucial role in the study of chicken oxygen adaptation.

CONCLUSIONS

These results suggest that hypoxia changed the gene expression and metabolic patterns of embryonic liver of TBCs compared to DLCs. Our study provides a basis for uncovering the molecular regulation mechanisms of hypoxia adaptation in TBCs with the potential application of hypoxia adaptation research for other animals living on the Qinghai-Tibet plateau, and may even contribute to the study of diseases caused by hypoxia.

Genome-wide association study for body weight and feed consumption traits in Japanese quail using Bayesian approaches

The aim of this study was to perform a genome-wide association study (GWAS) based on Bayes A and Bayes B statistical methods to identify genomic loci and candidate genes associated with body weight gain, feed intake, and feed conversion ratio in Japanese quail. For this purpose, genomic data obtained from Illumina iSelect 4K quail SNP chip were utilized. After implementing various quality control steps, genotype data from a total of 875 birds for 2,015 SNP markers were used for subsequent analyses. The Bayesian analyses were performed using hibayes package in R (version 4.3.1) and Gibbs sampling algorithm. The results of the analyses showed that Bayes A accounted for 11.43, 11.65, and 11.39% of the phenotypic variance for body weight gain, feed intake, and feed conversion ratio, respectively, while the variance explained by Bayes B was 7.02, 8.61, and 6.48%, respectively. Therefore, in the current study, results obtained from Bayes A were used for further analyses. In order to perform the gene enrichment analysis and to identify the functional pathways and classes of genes that are over-represented in a large set of genes associated with each trait, all markers that accounted for more than 0.1% of the phenotypic variance for each trait were used. The results of this analysis revealed a total of 23, 38, and 14 SNP markers associated with body weight gain, feed intake, and feed conversion ratio in Japanese quail, respectively. The results of the gene enrichment analysis led to the identification of biological pathways (and candidate genes) related to lipid phosphorylation (TTC7A gene) and cell junction (FGFR4 and FLRT2 genes) associated with body weight gain, calcium signaling pathway (ADCY2 and CAMK1D genes) associated with feed intake, and glycerolipid metabolic process (LIPC gene), lipid metabolic process (ADGRF5 and ESR1 genes), and glutathione transferase (GSTK1 gene) associated with feed conversion ratio. Overall, the findings of this study can provide valuable insights into the genetic architecture of growth and feed consumption traits in Japanese quail.

A New and Effective Method to Trace Tibetan Chicken by Amino Acid Profiling

As a "rare bird on the plateau", the Tibetan chicken is rich in nutrition and has high medicinal value. In order to quickly and effectively identify the source of food safety problems and to label fraud regarding this animal, it is necessary to identify the geographical traceability of the Tibetan chicken. In this study, Tibetan chicken samples from four different cities in Tibet, China were analyzed. The amino acid profiles of Tibetan chicken samples were characterized and further subjected to chemometric analyses, including orthogonal least squares discriminant analysis, hierarchical cluster analysis, and linear discriminant analysis. The original discrimination rate was 94.4%, and the cross-validation rate was 93.3%. Moreover, the correlation between amino acid concentrations and altitudes in Tibetan chicken was studied. With the increase in altitude, all amino acid contents showed a normal distribution. For the first time, amino acid profiling has been comprehensively applied to trace the origin of plateau animal food with satisfactory accuracy.

Identifying Candidate Genes for Hypoxia Adaptation of Tibet Chicken Embryos by Selection Signature Analyses and RNA Sequencing

The Tibet chicken (Gallus gallus) lives on the Qinghai-Tibet Plateau and adapts to the hypoxic environment very well. The objectives of this study was to obtain candidate genes associated with hypoxia adaptation in the Tibet chicken embryos. In the present study, we used the fixation index (Fst) and cross population extended haplotype homozygosity (XPEHH) statistical methods to detect signatures of positive selection of the Tibet chicken, and analyzed the RNA sequencing data from the embryonic liver and heart with HISAT, StringTie and Ballgown for differentially expressed genes between the Tibet chicken and White leghorn (Gallus gallus, a kind of lowland chicken) embryos hatched under hypoxia condition. Genes which were screened out by both selection signature analysis and RNA sequencing analysis could be regarded as candidate genes for hypoxia adaptation of chicken embryos. We screened out 1772 genes by XPEHH and 601 genes by Fst, and obtained 384 and 353 differentially expressed genes in embryonic liver and heart, respectively. Among these genes, 89 genes were considered as candidate genes for hypoxia adaptation in chicken embryos. ARNT, AHR, GSTK1 and FGFR1 could be considered the most important candidate genes. Our findings provide references to elucidate the molecular mechanism of hypoxia adaptation in Tibet chicken embryos.

Proteome-based identification of chicken egg yolk proteins associated with antioxidant activity on the Qinghai-Tibetan Plateau

In this study, a proteome analysis of Tibetan chicken egg yolk as well as the comparison to that of lowland chicken were performed by label-free quantitative proteomics. A total of 135 proteins were identified and abundances of 19 of these proteins were significantly different between these two groups. These differential proteins were mainly associated with oxidative stress, defense, energy metabolism and tissue development through bioinformatics analysis. To further verify the species-specific diversity of the antioxidant capacity, the antioxidative activities of egg yolk proteins were further invested in vitro and in Caco-2 cells. It was observed that both Tibetan and lowland chicken egg yolk proteins showed antioxidant activities, but the former exerted a much stronger effect. PIT54 and glutathione peroxidase 3 were considered to be antioxidant-related candidate proteins. These results provide substantial evidence for the molecular mechanisms of enhancing physical activity levels of egg yolk proteins, especially with regard to the cross-species protective mechanisms against oxidative stress.

Effects of dietary supplementation of DL-2-hydroxy-4(methylthio) butanoic acid on antioxidant capacity and its related gene expression in lung and liver of broilers exposed to low temperature

DL-2-hydroxy-4(methylthio) butanoic acid (DL-HMTBA) exhibits a higher antioxidant capability in vitro as compared to DL-Met, but the mechanism is still not known. A total of 400 8-day-old broiler chicks were allotted to a 2 [low (12 to 14°C) vs. control temperature (thermoneutral, 24 to 26°C)] × 2 (0.17% or 0.51% of DL-HMTBA) factorial arrangement to investigate effects of DL-HMTBA on antioxidant capacity and its related gene expression in lung and liver of broilers exposed to low temperature. The hepatic glutathione (GSH), superoxide dismutase (SOD), and glutathione peroxidase (GSH-Px) activities were decreased, whereas protein carbonyl and malodndialdehyde contents in lung were increased in low temperature (P < 0.05). Dietary supplementation of 0.51% DL-HMTBA increased (P < 0.05) GSH and GSH-Px activity in liver and SOD activity in lung in spite of the temperature. The greater gene expression of GSH reductase and lower expression of GSH synthetase (P < 0.01) were observed in lung of broilers that were maintained at low temperature. Higher DL-HMTBA supplementation induced greater (P < 0.05) mRNA expression of glutathione-S transferase in lung, GSH synthetase in liver and lung, as well as lower expression of GSH reductase in lung, and this effect were more obvious for the chicks exposed to low temperature (interaction, P < 0.05). Chicks that were maintained under low temperature had the lower expression of cystathionine β-synthase (CβS), whereas those fed 0.51% DL-HMTBA increased the CβS expression in liver under low temperature (interaction, P ≤ 0.05). The γ-glutamylcysteine synthetase and Met adenosyltransferase 1 (MAT1) gene expression were downregulated (P < 0.05) by low temperature and the higher (P = 0.02) expression of MAT1 was observed in lung of chicks fed 0.51% DL-HMTBA. It indicated that under low temperature, DL-HMTBA supplementation at 0.51% upregulated gene expression of GSH synthesis and Met transsulfuration pathway in liver and lung to increase the antioxidant capacity, and then mitigate the negative effects of cold stress for broilers.

Expression pattern of heme oxygenase 1 gene and hypoxic adaptation in chicken embryos

Heme oxygenase 1 (HO-1), a rate-limiting enzyme of heme catabolism, has a crucial role of cytoprotective functions under hypoxia. The objective of the present study was to investigate potential differences in protective effect of HO-1 gene on chicken (Gallus gallus) embryo lung during late incubation. At embryonic day (D) D16, D18, D19, and D20 of incubation, the expression of HO-1 in the lungs of chicken embryos (Tibet and Shouguang chickens) incubated in normoxic (21% O2) and hypoxic (13% O2) conditions was measured. SNPs were screened within 5'-flanking region and coding regions with PCR-sequencing and the genotype of the SNPs was determined with PCR-RFLP in Tibet, Chahua and Shouguang chicken populations. In conclusion, the Tibet chicken had higher HO-1 expression on D19 under hypoxic incubation and had two SNPs with different frequency distributions from other chicken breeds, which might be a way that the Tibet chicken had hereditary adaptation to hypoxia during embryonic development.

Hypoxia-induced miR-15a promotes mesenchymal ablation and adaptation to hypoxia during lung development in chicken

The lungs undergo changes that are adaptive for high elevation in certain animal species. In chickens, animals bred at high elevations (e.g., Tibet chickens) are better able to hatch and survive under high-altitude conditions. In addition, lowland chicken breeds undergo physiological effects and suffer greater mortality when they are exposed to hypoxic conditions during embryonic development. Although these physiological effects have been noted, the mechanisms that are responsible for hypoxia-induced changes in lung development and function are not known. Here we have examined the role of a particular microRNA (miRNA) in the regulation of lung development under hypoxic conditions. When chicks were incubated in low oxygen (hypoxia), miR-15a was significantly increased in embryonic lung tissue. The expression level of miR-15a in hypoxic Tibet chicken embryos increased and remained relatively high at embryonic day (E)16–20, whereas in normal chickens, expression increased and peaked at E19–20, at which time the cross-current gas exchange system (CCGS) is developing. Bcl-2 was a translationally repressed target of miR-15a in these chickens. miR-16, a cluster and family member of miR-15a, was detected but did not participate in the posttranscriptional regulation of bcl-2. Around E19, the hypoxia-induced decrease in Bcl-2 protein resulted in apoptosis in the mesenchyme around the migrating tubes, which led to an expansion and migration of the tubes that would become the air capillary network and the CCGS. Thus, interfering with miR-15a expression in lung tissue may be a novel therapeutic strategy for hypoxia insults and altitude adaptation.