Search Results (115)

Goats are considered to be the ideal climate-resilient animal species in the tropics. Fewer studies are documented assessing the heat stress response of caprine ruminal microbiota, which can also be a crucial indicator of the resilience and/or adaptability of animals. This study was conducted to comparatively assess the heat stress responses of two indigenous goat breeds, Nandidurga and Bidri, based on changes associated with the rumen fermentation pattern and distribution pattern of rumen microbiota. A total of 24 adult animals were randomly allocated into four groups of six animals each, NC (n = 6; Nandidurga control), NHS (n = 6; Nandidurga heat stress), BC (n = 6; Bidri control) and BHS (n = 6; Bidri heat stress). The animals were reared in climate chambers for a duration of 45 days wherein the NC and BC animals were maintained under thermoneutral temperature while the NHS and BHS animals were subjected to simulated heat stress. Heat stress was observed to significantly reduce the rumen ammonia, extracellular CMCase, intracellular carboxy methyl cellulase (CMCase) and total CMCase both in Nandidurga and Bidri goats. In addition to this, a significant reduction in acetate, propionate and total volatile fatty acids (VFAs) was observed in Nandidurga goats. The V3–V4 16s rRNA sequencing further revealed a significant alteration in the rumen microbiota in heat-stressed Nandidurga and Bidri goats. While both the breeds exhibited nearly similar responses in the rumen microbial abundance levels due to heat stress, breed-specific differences were also observed. Furthermore, the LEFSe analysis revealed a significant alteration in the abundances of microbes at the genus level, which were observed to be relatively greater in Bidri goats than Nandidurga goats. Furthermore, these alterations were predicted to impair the functional pathways, especially pathways associated with metabolism. This study therefore provided an insight into the rumen microbial dynamics in heat-stressed goats. Though both the breeds exhibited excellent resilience to the subjected heat stress, there were relatively less ruminal alterations in Nandidurga goats than in Bidri goats. Full article

The production of fermented sausages from poultry meat using traditional technologies and natural maturation conditions is a major challenge. The aim of this study was to identify indigenous microbiota with antilisterial activity from an innovative, additive-free, traditionally fermented chicken sausage. Isolates (n = 88) of lactic acid bacteria (LAB) were collected during maturation and subjected to MALDI-TOF mass spectrometry identification. The capacity to combat Listeria was screened against five strains using the agar well diffusion method in 63 selected LAB isolates. MALDI-TOF mass spectrometry identified four different LAB genera, namely Enterococcus, Lactococcus, Leuconostoc and Lactobacillus, the proportions of which differed significantly during the production phases (p < 0.001). Enterococcus faecalis was the most prevalent LAB species in the initial sausage dough. The presence of lactococci (Lactococcus lactis) and enterococci was detected during the 14- and 30-day ripening period and was gradually displaced by leuconostocs and lactobacilli. Lactobacilli appeared to be abundant during the central and late maturation phases, and consisted of only two species—Latilactobacillus sakei and Latilactobacillus curvatus. In total, 38 LAB isolates (60%) showed antilisterial activity toward at least one Listeria indicator strain. The proportions of antilisterial LAB differed significantly during sausage maturation. Inhibitory activity against all indicator Listeria was detected in the neutralized cell-free supernatants of five strains of Enterococcus faecalis, two L. sakei strains and one Leuconostoc mesenteroides strain. The antilisterial activity observed in the indigenous LAB revealed the possible role of L. sakei as a bioprotective culture, as well as the role of Ln. mesenteroides and E. faecalis as bacteriocin producers, for practical applications. Full article

The gut microbiota critically influences lipid metabolism and fat deposition in pigs, processes that underpin pork quality preferences and differentiate the meat traits of Chinese indigenous breeds (fat-type) from those of Western commercial breeds (lean-type). To explore the mechanisms underlying breed-specific fatty acid absorption, we compared the rectal and colonic microbiota and metabolite profiles of Huainan and Large White pigs using 16S rRNA sequencing and untargeted metabolomics. HN pigs exhibited enriched Lactobacillus johnsonii and Lactobacillus amylovorus, along with a significantly higher Firmicutes/Bacteroidetes ratio. Functional predictions further revealed elevated microbial pathways related to glycolysis, pyruvate metabolism, and ABC transporters in HN pigs. Conversely, LW pigs showed increased abundance of potentially pro-inflammatory bacteria and enriched pathways for lipopolysaccharide (LPS) biosynthesis. Metabolites such as 4-ethyl-2-heptylthiazole and picolinic acid were significantly upregulated in HN pigs and served as robust biomarkers (Area Under the Curve, AUC = 1.0),with perfect discrimination observed in both rectal and colonic samples. Integrative analysis identified 52 co-enriched microbial and metabolic pathways in HN pigs, including short-chain fatty acid (SCFA) production, lipid biosynthesis and transport, amino acid metabolism, ABC transporter activity, and the PPAR signaling pathway, supporting a microbiota–metabolite axis that enhances fatty acid absorption and gut immune balance. These findings provide mechanistic insight into breed-specific fat deposition and offer candidate biomarkers for improving pork quality via precision nutrition and breeding. Full article

The Lueyang black-bone chicken represents a distinct indigenous avian breed native to China and it is a slow-growing broiler breed. The gut, whose primary function is to digest food and absorb nutrients, is also home to a large and diverse microbial community. The intestinal morphology, intestinal metabolites, and gut microbiota are critical determinants of nutrient utilization efficiency and immune health in poultry. This study investigates the impact of two distinct rearing modalities—cage-raised (CR) and cage-free (CF)—on the intestinal morphology, intestinal metabolites, and gut microbiota of the duodenum and cecum in Lueyang black-bone chickens. Additionally, we have integrated metabolomics and microbiome analyses. Morphological assessments revealed that, in comparison to the CR group, the CF group exhibited a significant increase in duodenal villi height (VH) and crypt depth (CD) (p < 0.01). Furthermore, there was a notable increase in the number of intestinal inflammatory cells within the CF group. Non-targeted metabolomics indicated an upregulation of omega-3 series polyunsaturated fatty acids and bile acid metabolites in the CR group. Conversely, the CF group demonstrated significantly elevated levels of lysophosphatidylcholine (LPC) and phosphatidylcholine (PE) in the intestine. Microbiome analysis revealed that in the duodenum, beneficial bacteria (e.g., Lactobacillus) were the dominant genera in the CF group, while the Bacteroides predominate in the CR group. Correlation analyses indicated a positive association between LPC levels and the presence of eight bacterial genera, including Ureaplasma. The omega-3 series polyunsaturated fatty acids were positively correlated with three bacterial genera, such as Flavobacterium. Notably, bile acid metabolites exhibited a significant positive correlation with Rikenellaceae_RC9_gut_group. In conclusion, this study provides novel insights into how rearing methods influence intestinal morphology, intestinal metabolites, and gut microbiota, offering a new perspective for the scientific management of poultry with the premise of ensuring animal health and welfare. Full article

The xeno-fungusphere, a novel microbial ecosystem formed by integrating exogenous fungi, indigenous soil microbiota, and electroactive microorganisms within microbial fuel cells (MFCs), offers a transformative approach for agricultural remediation and medicinal plant conservation. By leveraging fungal enzymatic versatility (e.g., laccases, cytochrome P450s) and conductive hyphae, this system achieves dual benefits. First, it enables efficient degradation of recalcitrant agrochemicals, such as haloxyfop-P, with a removal efficiency of 97.9% (vs. 72.4% by fungi alone) and a 27.6% reduction in activation energy. This is driven by a bioelectric field (0.2–0.5 V/cm), which enhances enzymatic activity and accelerates electron transfer. Second, it generates bioelectricity, up to 9.3 μW/cm², demonstrating real-world applicability. In medicinal plant soils, xeno-fungusphere MFCs restore soil health by stabilizing the pH, enriching dehydrogenase activity, and promoting nutrient cycling, thereby mitigating agrochemical-induced inhibition of secondary metabolite synthesis (e.g., ginsenosides, taxol). Field trials show 97.9% herbicide removal in 60 days, outperforming conventional methods. Innovations, such as adaptive electrodes, engineered strains, and phytoremediation-integrated systems, have been used to address soil and fungal limitations. This technology bridges sustainable agriculture and bioenergy recovery, offering the dual benefits of soil detoxification and enhanced crop quality. Future IoT-enabled monitoring and circular economy integration promise scalable, precision-based applications for global agroecological resilience. Full article

Eggs are good sources of animal proteins. Methods for creating designer eggs are attractive to scientists and producers of the eggs, in order to fulfill customers’ demands. We review and summarize the current understanding of how genetic and environmental factors influence chicken egg components, specifically, amino acid contents of yolk and albumen. Genetically diverse breeds of chicken enable us to obtain a wide variety of egg amino acids. Moreover, the use of fermented feed and different rearing systems (barn and deep litter) has impacts on egg amino acids, which may be mediated through changes in the intestinal environment, including the microbiota. To overcome the future food crisis, the combinations of breeds, feeds, and rearing systems will be important for producing designer eggs. In the future, not only long-term selected layer strains will be required, but also many kinds of indigenous chicken breeds, which have already adapted to each local environment in the world, should be investigated under the continental levels of climate environment using different fermented feed materials. To better understand the interplay between genetic and environmental factors, we will offer valuable insights for both egg producers and consumers, potentially guiding future efforts to optimize egg amino acid contents in chickens. Full article

This study examined the effects of dietary supplementation with grape seed proanthocyanidins (GSPs) on the growth performance, serum biochemistry, jejunal antioxidant capacity, and jejunal microbiota and metabolites in Chinese indigenous Kangle chicken. In this experiment, 120 female Kangle chickens aged 30 days old were randomly allocated into three treatment groups: a control group (CON) fed a standard diet and two experimental groups fed diets supplemented with 200 mg/kg (LGSP) or 400 mg/kg (HGSP) of GSPs. The experiment consisted of a 7-day adaptation period followed by a 30-day feeding trial. The results demonstrated that GSP supplementation did not significantly improve their average daily gain or feed efficiency. However, the HGSP group showed significant improvements in their liver and jejunal indices, a reduced jejunal crypt depth, and increased villus-height-to-crypt-depth ratios compared to these values in the CON group. Furthermore, the HGSP group also exhibited elevated concentrations of cholesterol in their serum. Additionally, the oxidative stress levels were probably reduced in the jejuna of the HGSP group, as evidenced by reduced malondialdehyde (MDA) contents. Although jejunal microbial diversity remained unchanged, the metabolomic analysis identified significant upregulation of jejunal metabolites, particularly those associated with free radical scavenging, protein nutrition, and bile acid metabolism, which would be beneficial for maintaining intestinal health. These findings indicate that supplementing their diet with 400 mg/kg of GSPs could improve the health of Kangle chickens, underscoring their potential as a functional feed additive in the production of indigenous Chinese chickens. Full article

Gastrointestinal health is critical to the productivity and welfare of pigs. The transition from milk to plant-based feeds represents an intestinal challenge at wean that can result in dysbiosis and pathogen susceptibility. Prebiotic galacto-oligosaccharides (GOS) and xylo-oligosaccharides (XOS) are non-digestible carbohydrates that can reach the hind gut to promote gut health, either by enhancing the abundance of beneficial members of the intestinal microbiota or via direct interaction with the gut epithelium. Amongst the changes in the intestinal microbiota, GOS and XOS promote populations of short-chain fatty acid (SCFA)-producing bacteria of the genera Lactobacillus, Bifidobacterium and Streptococcus. SCFAs benefit the host by providing nutritional support for the gut, enhance intestinal barrier function and regulate inflammatory responses. By modifying the indigenous microbiota, prebiotics offer a sustainable alternative to the use of antimicrobial growth promoters that have led to the dissemination of antimicrobial resistance and represent a growing threat to public health. This review examines microbial and cellular mechanisms whereby prebiotic feed supplements can support the development of a diverse and robust microbiota associated with a healthy and productive digestive system over the lifetime of the animal, and which is in sharp contrast to the development of dysbiosis often associated with existing antimicrobial treatments. The application of prebiotic feed supplements should be tailored to their modes of action and the developmental challenges in production, such as the provision of GOS to late gestational sows, GOS and XOS to pre-weaning piglets and GOS and XOS to growing/fattening pigs. Full article

The cashew apple constitutes approximately 90% of the total fruit mass produced by the cashew tree, with the remaining 10% being the cashew nut. Despite its high nutritional value, it is regarded as an agricultural byproduct. Numerous scientific studies have explored the technological and nutritional potential of the cashew apple by leveraging microorganisms in its fermentation process for beverage applications. This paper provides an overview of existing fermented cashew apple beverages and discusses perspectives for new fermented cashew apple products. Five fermented cashew apple beverages were recorded. These include wine, edible alcohol, probiotic and prebiotic beverages, and cashew apple-based vinegar. New fermented cashew apple beverages with organoleptic, nutritional, and functional properties can be considered. Among these are fermented cashew apple beverages such as kefir or kombucha-type drinks. A promising avenue for future research is the exploration of the indigenous microbiota of the cashew apple and their interactions within a consortium. This could lead to innovative developments in food technology and improvements in the organoleptic and nutritional characteristics of fermented cashew apple beverages. Full article

The gut microbiota is pivotal to chickens’ overall health, influencing digestion, nutrient absorption, and immune function. Dietary compounds significantly impact gut microbiota composition. House crickets (Acheta domesticus) have emerged as an alternative protein source for animal feed, rich in proteins and beneficial fatty acids. This study compared the gut microbiota in the cecum and ileum of Thai indigenous chicken breeds (Betong Chicken, white feather with black bone chicken, and black feather with black bone chicken) fed with or without house crickets. Using Oxford Nanopore Technology of 16S rDNA, this study found a similar relative abundance of gut bacteria across groups, with dominant bacteria including Firmicute, Bacteroidetes, Proteobacteria, and Actinobacteria. LEfSe analysis identified differential abundance of beneficial bacteria, such as Ruminococcaceae, Rikenella, and Deferribacteres, in the cecum of the black feather with black bone chicken after cricket feeding. Additionally, Lactobacillaceae exhibited differential abundance in the ileum of this breed post-cricket diet. Consequently, this study provides new data into the gut microbiota of Thai indigenous chickens. It suggests that house cricket diets did not significantly alter microbiota diversity but may enhance beneficial bacteria in certain breeds. Full article

The intestinal tract extends several times the length of bodies, with varying environmental conditions across different segments (small intestinal and large intestinal), thereby harboring distinct gut microbiota. Most studies focused on the quantitative responses of gut microbiota upon probiotics entering the gut, without an in-depth analysis of how the genetic change in local gut microbiota. Therefore, in this experiment, C57BL/6J male mice were once administered Lactiplantibacillus plantarum HNU082 (Lp082). Then, the mice were euthanized on the 1st, 3rd, and 7th days after gavage, and the contents of the small and large intestines of the mice were scraped for metagenomic analysis. Based on the characterization of large intestine and small intestine bacteria, changes in the diversity and abundance of single-nucleotide variants (SNVs) of microbiota were analyzed. There were observable distinct responses at the genetic level. A significant number of SNVs were identified in Ligilactobacillus murinus in the large intestine. These SNVs may impact the utilization of carbohydrates in L. murinus. Ingested probiotics traversed the entire gut and interacted with the indigenous microbiota, driving the evolution of the indigenous gut microbiota in the different intestinal segments, thereby influencing microbial growth and metabolism. This study investigates the role of probiotics in the evolution of gut microbiota. It offers new probiotic insights and a basis for targeted interventions. Full article

The early growth phase is a critical period for the development of the chicken gut microbiome. In this study, the spatiotemporal diversity of the gastrointestinal microbiota, shifts in taxonomic composition, and relative abundances of the main bacterial taxa were characterized in Kadaknath, a high-value indigenous Indian chicken breed, using sequencing of the V3–V4 region 16S rRNA gene. To assess microbiome composition and bacterial abundance shifts, three chickens per growth phase (3, 28, and 35 days) were sampled, with microbiota analyzed from three gut regions (crop, small intestine, and ceca) per bird. The results revealed Firmicutes as the most abundant phylum and Lactobacillus as the dominant genus across all stages. Lactobacillus was particularly abundant in the crop at early stages (3 and 28 days), while the ceca exhibited a transition towards the dominance of genus Phocaeicola by day 35. Microbial richness and evenness increased with age, reflecting microbiome maturation, and the analyses of the microbial community composition revealed distinct spatiotemporal differences, with the ceca on day 35 showing the highest differentiation. Pathogen analysis highlighted a peak in poultry-associated taxa Campylobacter, Staphylococcus, and Clostridium paraputrificum in 3-day-old Kadaknath, particularly in the small intestine, underscoring the vulnerability of early growth stages. These findings provide critical insights into age-specific microbiome development and early life-stage susceptibility to pathogens, emphasizing the need for targeted interventions to optimize poultry health management and growth performance. Full article

In pea (Pisum sativum L.), alleles of the Sym2 gene determine the specificity of the interaction with nodule bacteria (rhizobia). The Sym2^A allele present in landraces from Afghanistan provides higher selectiveness toward rhizobia than the Sym2^E allele present in European cultivars. Rhizobial strains possessing the nodX gene can interact with both Sym2^A and Sym2^E peas, while strains lacking nodX can interact only with Sym2^E peas. Here, we studied the previously obtained introgression line A33.18 bearing Sym2^A in a homozygous state in the genome of the European pea cultivar ‘Rondo’. A33.18 has proved its high selectiveness in pot experiments. Genome sequencing has shown that A33.18 possesses an 18.2 Mb region inherited from Afghanistan pea with 63 genes, including 5 receptor kinase genes, among which was the Sym2 candidate gene LykX. In a field experiment, under inoculation with the nodX⁺ strain TOM, over 95% of nodules of A33.18 contained TOM, as opposed to less than 8% of nodules containing TOM in the parental European cultivar ‘Rondo’. Thus, introgression of Sym2^A enabled peas to interact specifically with the nodX⁺ strain, favoring the formation of nodules by the strain from the inoculum and protecting peas from the indigenous soil microbiota. Full article

Birds, fish, and marine mammals consumed by indigenous people are included in Arctic biomonitoring. However, there are still many gaps in the data on the microbiota associated with these animals. In the current study, we used high-throughput 16S rRNA gene sequencing to explore the bacterial diversity and composition in the intestines of willow ptarmigans, greater white-fronted geese, and taiga bean geese, which are widely consumed by indigenous people in the Arctic. For the first time, meta-taxonomic data have been obtained on the lungs of wild resident and migratory birds of the Russian North. The potentially pathogenic bacterial genera Helicobacter and Olsenella were found in the intestinal microbiomes of three bird species and in the lungs of willow ptarmigan. Bacteria of the genus Staphylococcus were individually identified in the intestines of willow ptarmigan, Campylobacter sp. in the intestines of taiga bean goose, and Sutterella sp. in the intestines of greater white-fronted goose as potential pathogens. The primary findings will be used to propose a next-generation sequencing scheme for monitoring both chemical and biological contaminants in the Arctic in line with One Health approach. Full article

Insects often rely on symbiotic bacteria and fungi for various physiological processes, developmental stages, and defenses against parasites and diseases. Despite their significance, the associations between bacterial and fungal symbionts in Apis mellifera are not well studied, particularly in the Philippines. In this study, we collected A. mellifera from two different sites in the Municipality of Bacnotan, La Union, Philippines. A gut microbiome analysis was conducted using next-generation sequencing with the Illumina MiSeq platform. Bacterial and fungal community compositions were assessed using 16S rRNA and ITS gene sequences, respectively. Our findings confirm that adult worker bees of A. mellifera from the two locations possess distinct but comparably proportioned bacterial and fungal microbiomes. Key bacterial symbionts, including Lactobacillus, Bombilactobacillus, Bifidobacterium, Gilliamella, Snodgrassella, and Frischella, were identified. The fungal community was dominated by the yeasts Zygosaccharomyces and Priceomyces. Using the ENZYME nomenclature database and PICRUSt2 software version 2.5.2, a predicted functional enzyme analysis revealed the presence of β-glucosidase, catalase, glucose-6-phosphate dehydrogenase, glutathione transferase, and superoxide dismutase, which are involved in host defense, carbohydrate metabolism, and energy support. Additionally, we identified notable bacterial enzymes, including acetyl-CoA carboxylase and AMPs nucleosidase. Interestingly, the key bee symbionts were observed to have a negative correlation with other microbiota. These results provide a detailed characterization of the gut microbiota associated with A. mellifera in the Philippines and lay a foundation for further metagenomic studies of microbiomes in native or indigenous bee species in the region. Full article