Gut microbiota composition and metabolomic profiles of wild and captive Chinese monals (Lophophorus lhuysii)

Abstract Background The Chinese monal (Lophophorus lhuysii) is an endangered bird species, with a wild population restricted to the mountains in southwest China, and only one known captive population in the world. We investigated the fecal microbiota and metabolome of wild and captive Chinese monals to explore differences and similarities in nutritional status and digestive characteristics. An integrated approach combining 16S ribosomal RNA (16S rRNA) gene sequencing and ultra-high performance liquid chromatography (UHPLC) based metabolomics were used to examine the fecal microbiota composition and the metabolomic profile of Chinese monals. Results The results showed that the alpha diversity of gut microbes in the wild group were significantly higher than that in the captive group and the core bacterial taxa in the two groups showed remarkable differences at phylum, class, order, and family levels. Metabolomic profiling also revealed differences, mainly related to galactose, starch and sucrose metabolism, fatty acid, bile acid biosynthesis and bile secretion. Furthermore, strong correlations between metabolite types and bacterial genus were detected. Conclusions There were remarkable differences in the gut microbiota composition and metabolomic profile between wild and captive Chinese monals. This study has established a baseline for a normal gut microbiota and metabolomic profile for wild Chinese monals, thus allowing us to evaluate if differences seen in captive organisms have an impact on their overall health and reproduction.

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Gut Microbiota Composition and Metabolomic Profiles of Wild and Captive Chinese Monals (Lophophorus lhuysii)

10.21203/rs.3.rs-32587/v2 ◽

2020 ◽

Author(s):

Dandan Jiang ◽

Xin He ◽

Marc Valitutto ◽

Li Chen ◽

Qin Xu ◽

...

Keyword(s):

Gut Microbiota ◽

High Performance ◽

Bird Species ◽

Alpha Diversity ◽

Integrated Approach ◽

Fecal Microbiota ◽

Rrna Gene ◽

Microbiota Composition ◽

Metabolomic Profile ◽

Gut Microbiota Composition

Abstract Background：The Chinese monal (Lophophorus lhuysii) is an endangered bird species, with a wild population restricted to the mountains of southwest China, and only one known captive population in the world. We investigated the fecal microbiota and metabolome of wild and captive Chinese monals to explore differences and similarities in nutritional status and digestive characteristics. An integrated approach combining 16S ribosomal RNA (16S rRNA) gene sequencing and ultra-high performance liquid chromatography (UHPLC) based metabolomics were used to examine the fecal microbiota composition and the metabolomic profile of Chinese monals. Results: The results showed that the alpha diversity of gut microbes in the wild group were significantly higher than that in the captive group and the core bacterial taxa in the two groups showed remarkable differences at phylum, class, order, and family levels. Metabolomic profiling also revealed differences, mainly related to galactose, starch and sucrose metabolism, fatty acid, bile acid biosynthesis and bile secretion. Furthermore, strong correlations of metabolite types and bacterial genus were detected. Conclusions: There were remarkable differences in the gut microbiota composition and metabolomic profile between wild and captive Chinese monals. This study has established a baseline for a normal gut microbiota and metabolomic profile for wild Chinese monals, thus allowing us to evaluate if differences seen in captive organisms have an impact on their overall health and reproduction.

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Osteopontin-Enriched Algae Modulates the Gut Microbiota Composition in Weaning Piglets Infected with Enterotoxigenic Escherichia Coli (P06-069-19)

Current Developments in Nutrition ◽

10.1093/cdn/nzz031.p06-069-19 ◽

2019 ◽

Vol 3 (Supplement_1) ◽

Cited By ~ 1

Author(s):

Mei Wang ◽

Brooke Smith ◽

Brock Adams ◽

Miller Tran ◽

Ryan Dilger ◽

...

Keyword(s):

Escherichia Coli ◽

Gut Microbiota ◽

Alpha Diversity ◽

Enterotoxigenic Escherichia Coli ◽

Farm Animals ◽

Future Research ◽

Rrna Gene ◽

Microbiota Composition ◽

Wild Type ◽

Gut Microbiota Composition

Abstract Objectives Enterotoxigenic Escherichia coli (ETEC) are an important cause of diarrhea in human infants and young farm animals. Osteopontin (OPN), a glycoprotein present in high concentration in human milk, has immunomodulatory functions, which could indirectly impact the microbiota. Furthermore, a previous study has shown fecal microbiota composition differs between wild-type and OPN knockout mice. Herein, the effects of OPN-enriched algae on the gut microbiota composition and volatile fatty acid (VFA) concentrations of ETEC-infected piglets were assessed. Methods Naturally-farrowed piglets were sow-reared for 21 days and then randomized to two weaning diets: WT (formula + 1% wild-type algae) or OPN (formula + 1% OPN-enriched algae). On postnatal day (PND) 31, all piglets were infected orally with a live culture of ETEC (1010 colony-forming unit/3 mL dose) daily for three consecutive days. On PND 41, ascending colon (AC) contents were collected. Gut microbiota was assessed by sequencing V3-V4 regions of 16S rRNA gene and VFAs were determined by gas chromatography. Alpha-diversity and VFAs were analyzed using PROC MIXED procedure of SAS. Beta-diversity was evaluated by permutational multivariate analysis of variance (PERMANOVA) and differential abundance analysis on the bacterial genera was performed using DESeq2 package of R. Results Shannon indices were lower in the AC contents of OPN piglets compared to WT piglets. The overall colonic microbiota of OPN piglets differed from that of WT piglets (PERMANOVA P = 0.015). At genus level, OPN-enriched algae increased the abundance of Streptococcus, decreased the abundances of Sutterella, Candidatus Soleaferrea, dga-11 gut group, Rikenellaceae RC9 gut group, Ruminococcaceae UCG-010, unculturedRuminococcaceae, Prevotella 2 and 7 compared to piglets consuming wild-type algae (P < 0. 05). OPN piglets also had higher (P < 0.05) concentrations of acetate, propionate, butyrate and valerate compared to WT. Conclusions In ETEC infected piglets, 1% OPN-enriched algae decreased alpha-diversity and modulated the microbiota composition and VFA profiles compared to 1% WT algae. Other studies have shown that OPN inhibits biofilm formation in vitro, but future research is needed to assess in vivo microbiome-modulation mechanisms. Funding Sources Triton Algae Innovations.

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Comparative Analysis of Fecal Microbiota Composition Between Rheumatoid Arthritis and Osteoarthritis Patients

Genes ◽

10.3390/genes10100748 ◽

2019 ◽

Vol 10 (10) ◽

pp. 748 ◽

Cited By ~ 5

Author(s):

Jin-Young Lee ◽

Mohamed Mannaa ◽

Yunkyung Kim ◽

Jehun Kim ◽

Geun-Tae Kim ◽

...

Keyword(s):

Rheumatoid Arthritis ◽

Gut Microbiota ◽

Gut Microbiome ◽

Bacterial Species ◽

Amplicon Sequencing ◽

Fecal Microbiota ◽

Rrna Gene ◽

Microbiota Composition ◽

Stool Samples ◽

Gut Microbiota Composition

The aim of this study was to investigate differences between the gut microbiota composition in patients with rheumatoid arthritis (RA) and those with osteoarthritis (OA). Stool samples from nine RA patients and nine OA patients were collected, and DNA was extracted. The gut microbiome was assessed using 16S rRNA gene amplicon sequencing. The structures and differences in the gut microbiome between RA and OA were analyzed. The analysis of diversity revealed no differences in the complexity of samples. The RA group had a lower Bacteroidetes: Firmicutes ratio than did the OA group. Lactobacilli and Prevotella, particularly Prevotella copri, were more abundant in the RA than in the OA group, although these differences were not statistically significant. The relative abundance of Bacteroides and Bifidobacterium was lower in the RA group. At the species level, the abundance of certain bacterial species was significantly lower in the RA group, such as Fusicatenibacter saccharivorans, Dialister invisus, Clostridium leptum, Ruthenibacterium lactatiformans, Anaerotruncus colihominis, Bacteroides faecichinchillae, Harryflintia acetispora, Bacteroides acidifaciens, and Christensenella minuta. The microbial properties of the gut differed between RA and OA patients, and the RA dysbiosis revealed results similar to those of other autoimmune diseases, suggesting that a specific gut microbiota pattern is related to autoimmunity.

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Dysbiosis of Fecal Microbiota in Allergic Rhinitis Patients

American Journal of Rhinology and Allergy ◽

10.1177/1945892420920477 ◽

2020 ◽

Vol 34 (5) ◽

pp. 650-660 ◽

Cited By ~ 1

Author(s):

Xiang Liu ◽

Jing Tao ◽

Jing Li ◽

Xiaolin Cao ◽

Yong Li ◽

...

Keyword(s):

Allergic Rhinitis ◽

Statistical Analysis ◽

Gut Microbiota ◽

Study Groups ◽

Fecal Microbiota ◽

Rrna Gene ◽

Microbiota Composition ◽

Linear Discriminant ◽

Α Diversity ◽

Gut Microbiota Composition

Background The gut microbiota plays an important role in shaping the immune system and may be closely connected to the development of allergic diseases. Objective This study aimed to determine the gut microbiota composition in Chinese allergic rhinitis (AR) patients as compared with healthy controls (HCs). Methods We collected stool samples from 93 AR patients and 72 age- and sex-matched HCs. Gut microbiota composition was analyzed using QIIME targeting the 16S rRNA gene. Functional pathways were predicted using Phylogenetic Investigation of Communities by Reconstruction of Unobserved States. Statistical analysis was performed using the R program, linear discriminant analysis effect size (LefSe), analysis of QIIME, and statistical analysis of metagenomic profiles, among other tests. Results Compared with HCs, AR patients had significantly lower gut-microbiota α-diversity ( P < .001). The gut microbiota composition significantly differed between the 2 study groups. At the phylum level, the relative abundance of Bacteroidetes was higher while those of Actinobacteria and Proteobacteria were lower in the AR group than in the HC group ( P < .001, q < 0.001). At the genus level, Escherichia-Shigella, Prevotella, and Parabacteroides ( P < .001, q < 0.001) had significantly higher relative abundances in the AR group than in the HC group. LefSe analysis indicated that Escherichia-Shigella, Lachnoclostridium, Parabacteroides, and Dialister were potential biomarkers for AR. In addition, predictive metagenome functional analysis showed that pyruvate, porphyrin, chlorophyll, purine metabolism, and peptidoglycan biosynthesis significantly differed between the AR and HC groups. Conclusion A comparison of the gut microbiota of AR patients and HCs suggested that dysbiosis of the fecal microbiota is involved in the development of AR. The present results may reveal key differences and identify targets for preventive or therapeutic intervention.

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Alterations of gut microbiota composition in post-finasteride patients: a pilot study

Journal of Endocrinological Investigation ◽

10.1007/s40618-020-01424-0 ◽

2020 ◽

Author(s):

F. Borgo ◽

A. D. Macandog ◽

S. Diviccaro ◽

E. Falvo ◽

S. Giatti ◽

...

Keyword(s):

Sexual Dysfunction ◽

Gut Microbiota ◽

16S Rrna Gene Sequencing ◽

Fecal Microbiota ◽

Rrna Gene ◽

Microbiota Composition ◽

Sample Collection ◽

Persistent Symptoms ◽

Α Diversity ◽

Gut Microbiota Composition

Abstract Purpose Post-finasteride syndrome (PFS) has been reported in a subset of patients treated with finasteride (an inhibitor of the enzyme 5alpha-reductase) for androgenetic alopecia. These patients showed, despite the suspension of the treatment, a variety of persistent symptoms, like sexual dysfunction and cognitive and psychological disorders, including depression. A growing body of literature highlights the relevance of the gut microbiota-brain axis in human health and disease. For instance, alterations in gut microbiota composition have been reported in patients with major depressive disorder. Therefore, we have here analyzed the gut microbiota composition in PFS patients in comparison with a healthy cohort. Methods Fecal microbiota of 23 PFS patients was analyzed by 16S rRNA gene sequencing and compared with that reported in ten healthy male subjects. Results Sexual dysfunction, psychological and cognitive complaints, muscular problems, and physical alterations symptoms were reported in more than half of the PFS patients at the moment of sample collection. The quality sequence check revealed a low library depth for two fecal samples. Therefore, the gut microbiota analyses were conducted on 21 patients. The α-diversity was significantly lower in PFS group, showing a reduction of richness and diversity of gut microbiota structure. Moreover, when visualizing β-diversity, a clustering effect was found in the gut microbiota of a subset of PFS subjects, which was also characterized by a reduction in Faecalibacterium spp. and Ruminococcaceae UCG-005, while Alloprevotella and Odoribacter spp were increased compared to healthy control. Conclusion Gut microbiota population is altered in PFS patients, suggesting that it might represent a diagnostic marker and a possible therapeutic target for this syndrome.

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Gut Microbiome Composition and Metabolomic Profiles of Wild and Captive Chinese Monals (Lophophorus Lhuysii)

10.21203/rs.3.rs-32587/v1 ◽

2020 ◽

Author(s):

Dandan Jiang ◽

Xin He ◽

Marc Valitutto ◽

Li Chen ◽

Qin Xu ◽

...

Keyword(s):

Gut Microbiome ◽

Bacterial Species ◽

Bird Species ◽

Alpha Diversity ◽

Integrated Approach ◽

Rrna Gene ◽

Metabolomic Profile ◽

Liquid Chromatograph ◽

Fecal Microbiome ◽

Microbiome Composition

Abstract Background：The Chinese monal (Lophophorus lhuysii) is an endangered bird species, with a wild population restricted to the mountains of southwest China, and only one known captive population in the world. We investigated the fecal microbiota and metabolomics of wild and captive Chinese monals to explore differences and similarities in nutritional status and digestive characteristics. An integrated approach combining 16S ribosomal rRNA (16S rRNA) gene sequencing and ultra-high performance liquid chromatograph (UHPLC) based metabolomics were used to examine the fecal microbiome composition and the metabolomic profile of Chinese monals. Results: The results showed that the alpha diversity of gut microbes in the wild group were significantly higher than that in the captive group and the core bacterial species in the two groups showed remarkable differences at all levels. Metabolomic profiling revealed a concurrent difference, mainly related to galactose, starch and sucrose metabolism, fatty acid, bile acid biosynthesis and bile secretion. Furthermore, these metabolites in difference are have a strong correlation with the main microbe in genus level.Conclusions: Various factors related to diet and environmental conditions played a crucial role in shaping the gut microbiome composition and metabolomic profile. Through this study, we have established a baseline for a normal gut microbiome and metabolomic profile for wild Chinese monals, thus allowing us to evaluate if differences seen in captive specimens has an impact on their overall health and reproduction.

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Gut Microbiota Associations with Metabolic Health and Obesity Status in Older Adults

Nutrients ◽

10.3390/nu12082364 ◽

2020 ◽

Vol 12 (8) ◽

pp. 2364 ◽

Cited By ~ 1

Author(s):

Xiaozhong Zhong ◽

Janas M. Harrington ◽

Seán R. Millar ◽

Ivan J. Perry ◽

Paul W. O’Toole ◽

...

Keyword(s):

Older Adults ◽

Health Status ◽

Gut Microbiota ◽

Gut Microbiome ◽

Alpha Diversity ◽

Metabolic Health ◽

Rrna Gene ◽

Phylogenetic Distance ◽

Microbiota Composition ◽

Gut Microbiota Composition

Emerging evidence links the gut microbiota with several chronic diseases. However, the relationships between metabolic syndrome (MetS), obesity and the gut microbiome are inconsistent. This study aimed to investigate associations between gut microbiota composition and diversity and metabolic health status in older adults (n = 382; median age = 69.91 [± 5 years], male = 50.79%) with and without obesity. Gut microbiome composition was determined by sequencing 16S rRNA gene amplicons. Results showed that alpha diversity and richness, as indicated by the Chao1 index (p = 0.038), phylogenetic diversity (p = 0.003) and observed species (p = 0.038) were higher among the metabolically healthy non-obese (MHNO) individuals compared to their metabolically unhealthy non-obese (MUNO) counterparts. Beta diversity analysis revealed distinct differences between the MHNO and MUNO individuals on the phylogenetic distance scale (R2 = 0.007, p = 0.004). The main genera contributing to the gut composition among the non-obese individuals were Prevotella, unclassified Lachnospiraceae, and unclassified Ruminococcaceae. Prevotella, Blautia, Bacteroides, and unclassified Ruminococcaceae mainly contributed to the variation among the obese individuals. Co-occurrence network analysis displayed different modules pattern among different metabolic groups and revealed groups of microbes significantly correlated with individual metabolic health markers. These findings confirm relationships between metabolic health status and gut microbiota composition particularly, among non-obese older adults.

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Plasma Metabolites Related to Peripheral and Hepatic Insulin Sensitivity Are Not Directly Linked to Gut Microbiota Composition

Nutrients ◽

10.3390/nu12082308 ◽

2020 ◽

Vol 12 (8) ◽

pp. 2308

Author(s):

Annefleur M. Koopen ◽

Nicolien C. de Clercq ◽

Moritz V. Warmbrunn ◽

Hilde Herrema ◽

Mark Davids ◽

...

Keyword(s):

Insulin Sensitivity ◽

Gut Microbiota ◽

Prediction Models ◽

Alpha Diversity ◽

Amplicon Sequencing ◽

Plasma Metabolites ◽

Rrna Gene ◽

Microbiota Composition ◽

Cross Sectional ◽

Gut Microbiota Composition

Plasma metabolites affect a range of metabolic functions in humans, including insulin sensitivity (IS). A subset of these plasma metabolites is modified by the gut microbiota. To identify potential microbial–metabolite pathways involved in IS, we investigated the link between plasma metabolites, gut microbiota composition, and IS, using the gold-standard for peripheral and hepatic IS measurement in a group of participants with metabolic syndrome (MetSyn). In a cross-sectional study with 115 MetSyn participants, fasting plasma samples were collected for untargeted metabolomics analysis and fecal samples for 16S rRNA gene amplicon sequencing. A two-step hyperinsulinemic euglycemic clamp was performed to assess peripheral and hepatic IS. Collected data were integrated and potential interdependence between metabolites, gut microbiota, and IS was analyzed using machine learning prediction models. Plasma metabolites explained 13.2% and 16.7% of variance in peripheral and hepatic IS, respectively. Fecal microbiota composition explained 4.2% of variance in peripheral IS and was not related to hepatic IS. Although metabolites could partially explain the variances in IS, the top metabolites related to peripheral and hepatic IS did not significantly correlate with gut microbiota composition (both on taxonomical level and alpha-diversity). However, all plasma metabolites could explain 18.5% of the variance in microbial alpha-diversity (Shannon); the top 20 metabolites could even explain 44.5% of gut microbial alpha-diversity. In conclusion, plasma metabolites could partially explain the variance in peripheral and hepatic IS; however, these metabolites were not directly linked to the gut microbiota composition, underscoring the intricate relation between plasma metabolites, the gut microbiota, and IS in MetSyn

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Diet Rather than Genetic Status Shapes the Gut Microbiota in Two Congeneric Snakes

10.21203/rs.3.rs-1199811/v1 ◽

2022 ◽

Author(s):

Yan-Fu Qu ◽

Yan-Qing Wu ◽

Yi-Jin Jiang ◽

Xiang Ji

Keyword(s):

Gut Microbiota ◽

Relative Abundance ◽

Alpha Diversity ◽

Microbial Colonization ◽

Rrna Gene ◽

Microbiota Composition ◽

Genetic Contribution ◽

Wide Range ◽

Gravid Females ◽

Gut Microbiota Composition

Abstract Background: Various external and internal factors affect the gut microbiota of animals. The colonization and proliferation of gut microbes have been studied in a diverse array of animal taxa but remain poorly known in snakes. Here, we used the 16S rRNA gene sequencing technology on the Roach 454 platform to analyze the gut microbiota composition using fecal samples collected from three snake groups [gravid females, newly hatched (preprandial) hatchlings and postprandial hatchlings] of two congeneric colubrid snake species (Elaphe carinata and E. taeniura) that are sympatric across a wide range in mainland China. We tested two hypotheses. First, the gut microbiota should not differ between the two species at hatching if the maternal or genetic contribution has no role in affecting post-hatching gut microbial colonization. Second, differences in the gut microbiota between newly hatched (preprandial) and postprandial hatchlings should not exist in both species if the dietary contribution has no role in affecting post-hatching gut microbial colonization.Results: The top three dominant phyla were Firmicutes, Bacteroidetes, and Proteobacteria in both species. None of the measured alpha diversity indexes differed among the three snake groups or between the two species. The relative abundance of the gut microbiota differed among the three snake groups and between the two species, and so did the relative abundances of the functions associated with the metabolism, cellular processes and environmental information processing. Evidence from gravid females and hatchlings showed that the gut microbiota composition was similar between the two species. The metabolism held the overwhelming predominance of functional categories at the top level in both species.Conclusion: Only the relative abundance of the gut microbiota differed between the two species, and the gut microbiota composition changed rapidly in postprandial hatchlings and differed among the three snakes groups in both species. From these findings, we may conclude that the dietary rather than the maternal or genetic contribution affects gut microbial colonization in snakes.

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Gut Microbiota of Young Children Living in Four Brazilian Cities

Frontiers in Pediatrics ◽

10.3389/fped.2020.573815 ◽

2020 ◽

Vol 8 ◽

Author(s):

Charmaine Chew ◽

Karina Vieira Barros ◽

Virginia Resende Silva Weffort ◽

Hélcio de Sousa Maranhão ◽

Marisa Laranjeira ◽

...

Keyword(s):

Gut Microbiota ◽

Gene Sequencing ◽

Alpha Diversity ◽

Fecal Microbiota ◽

Microbiota Composition ◽

16S Rna ◽

Different Populations ◽

Race Ethnicity ◽

16S Rna Gene Sequencing ◽

Gut Microbiota Composition

Recent studies have demonstrated that gut microbiota development is influenced by human biogeographic factors such as race, ethnicity, diet, lifestyle or culture-specific variations, and other environmental influences. However, biogeographic variation in gut microbiota assembly remains largely unexplored in Latin America. In this paper, we compared food recall information and microbiota composition of toddlers living in geographically separated urban populations within four states of Brazil. 16S RNA gene sequencing revealed that alpha diversity was similar between the four different populations. Gut microbiota compositions were dominated by members of the phyla Firmicutes and Bacteroidetes, resembling a more adult-like microbiota as compared with those of Western European toddlers of similar age. These findings suggest that inter-individual and nutrition-induced differences were apparent in the fecal microbiota. We conclude that urban dietary pattern plays a larger role in influencing the gut microbiota composition than do biogeographic factors.

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