scholarly journals Longitudinal Investigation of the Gut Microbiota in Goat Kids from Birth to Postweaning

2020 ◽  
Vol 8 (8) ◽  
pp. 1111 ◽  
Author(s):  
Yimin Zhuang ◽  
Jianmin Chai ◽  
Kai Cui ◽  
Yanliang Bi ◽  
Qiyu Diao ◽  
...  
Keyword(s):  
Gut Microbiota ◽  
Temporal Dynamics ◽  
Later Life ◽  
Shannon Index ◽  
Microbial Colonization ◽  
Feeding Strategies ◽  
Microbial Composition ◽  
Linear Discriminant ◽  
Next Generation Sequencing Technology ◽  
Distinct Structure

Early microbial colonization in the gut impacts animal performance and lifelong health. However, research on gut microbial colonization and development in young ruminants, especially after weaning, is currently limited. In this study, next-generation sequencing technology was performed to investigate the temporal dynamic changes of the microbial community in the jejunum and colon of goats at 1, 7, 14, 28, 42, 56, 70, and 84 days (d) of age. As age increased, significant increases in microbial diversity, including the number of Observed OTUs and the Shannon Index, were observed in both the jejunum and colon. Regarding beta diversity, significant shifts in community membership and structure from d1 to d84 were observed based on both Bray–Curtis and Jaccard distances. With increasing age, dominant genera in the jejunum shifted from Lactobacillus to unclassified Ruminococcaceae, unclassified Lachnospiraceae and unclassified Clostridiales through starter supplementation, whereas colonic dominant genera changed from Lactobacillus and Butyricicoccus, within d1–d28, to unclassified Ruminococcaceae, unclassified Clostridiales and Campylobacter after solid diet supplementation. The linear discriminant analysis (LDA) effect size (LEfSe) analysis revealed bacterial features that are stage-specific in the jejunum and colon, respectively. In the jejunum and colon, a significantly distinct structure and membership of the microbiota was observed across all ages. The growth stage-associated microbiota in each gut compartment was also identified as a marker for biogeography. Our data indicate the temporal and spatial differences of the gut microbiota in goats are important for their performance and health. Early microbial colonization can influence microbial composition in later life (e.g., post-weaning phase). This study provides insights that the temporal dynamics of gut microbiota development from newborn to post-weaning can aid in developing feeding strategies to improve goat health and production.

scholarly journals Fecal microbiota dynamics during disease activity and remission in newly diagnosed and established ulcerative colitis

2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Lena Öhman ◽  
Anders Lasson ◽  
Anna Strömbeck ◽  
Stefan Isaksson ◽  
Marcus Hesselmar ◽  
...  
Keyword(s):  
Ulcerative Colitis ◽  
Gut Microbiota ◽  
Disease Activity ◽  
Temporal Dynamics ◽  
Fecal Microbiota ◽  
Disease Stage ◽  
Dietary Interventions ◽  
Microbial Composition ◽  
Fecal Samples ◽  
Specific Species

AbstractPatients with ulcerative colitis (UC) have an altered gut microbiota composition, but the microbial relationship to disease activity needs to be further elucidated. Therefore, temporal dynamics of the fecal microbial community during remission and flare was determined. Fecal samples were collected at 2–6 time-points from UC patients during established disease (cohort EST) and at diagnosis (cohort NEW). Sampling range for cohort EST was 3–10 months and for cohort NEW 36 months. Relapses were monitored for an additional three years for cohort EST. Microbial composition was assessed by Genetic Analysis GA-map Dysbiosis Test, targeting ≥ 300 bacteria. Eighteen patients in cohort EST (8 with maintained remission and 10 experiencing a flare), provided 71 fecal samples. In cohort NEW, 13 patients provided 49 fecal samples. The microbial composition showed no clustering related to disease activity in any cohort. Microbial dissimilarity was higher between than within patients for both cohorts, irrespective of presence of a flare. Microbial stability within patients was constant over time with no major shift in overall composition nor modification in the abundance of any specific species. Microbial composition was not affected by intensified medical treatment or linked to future disease course. Thus in UC, the gut microbiota is highly stable irrespective of disease stage, disease activity or treatment escalation. This suggests that prolonged dietary interventions or repeated fecal transplantations are needed to be able to induce permanent alterations of the gut microbiota.

scholarly journals The microbiota-gut-brain axis: An emerging role for the epigenome

2019 ◽  
Vol 245 (2) ◽  
pp. 138-145 ◽  
Author(s):  
Tijs Louwies ◽  
Anthony C Johnson ◽  
Albert Orock ◽  
Tian Yuan ◽  
Beverley Greenwood-Van Meerveld
Keyword(s):  
Gut Microbiota ◽  
Neurological Disorders ◽  
Expression Patterns ◽  
Later Life ◽  
Epigenetic Modifications ◽  
Life Changes ◽  
Microbial Composition ◽  
Initial Stimulus ◽  
Bidirectional Communication ◽  
The Central Nervous System

Through the gut-brain axis, the microorganisms that reside in the gut are able to exert an important influence on the central nervous system. Preclinical and clinical evidence suggests that alterations in the composition of the gut microbiota are involved in gastrointestinal and neurological disorders. During critical neurodevelopmental time periods, such as the early life, changes in gut microbial composition may detrimentally impact neurodevelopment, and subsequently lead to neurological disorders in later life. The finding that neurological disorders persist suggests that epigenetic modifications may be involved in response to disruption of the microbiota-gut-brain axis. Through establishing epigenetic modifications, environmental (microbial) signals can interfere with the cellular gene expression patterns. These long-lasting modifications exert their effects even when the initial stimulus is removed. In this review, we discuss the pathways that provide bidirectional communication between the microbiota and the central and peripheral nervous systems. Furthermore, we summarize how these microorganisms in the gut exert their influence through changing the epigenome in the brain-gut axis. Impact statement Alterations in the composition of gut microbiota may influence the etiology of gastrointestinal and neurological disorders by disturbing the communication in the gut-brain axis. Epigenetic changes in the gut-brain axis may perpetuate these phenotypes even when the gut microbiota has been restored. The studies reviewed in this article provide an overview of the influence the microbiota exerts onto its host’s epigenome. First, we summarize the bidirectional pathways through which the microbiota and the gut-brain axis communicate. Second, we provide evidence for the epigenome-altering capacity of the gut microbiota. Finally, we address the existing knowledge gaps and highlight the potential role of the epigenome in the microbiota-gut-brain axis.

scholarly journals Dietary Variety Relates to Gut Microbiota Diversity and Abundance

2021 ◽  
Vol 5 (Supplement_2) ◽  
pp. 1166-1166
Author(s):  
Rui Lin ◽  
Xueran Huang ◽  
Yongfen Gao ◽  
Qiantu Hu ◽  
Wanrong Chen
Keyword(s):  
Gut Microbiota ◽  
Relative Abundance ◽  
Natural Science ◽  
Shannon Index ◽  
Lower Score ◽  
Rrna Gene ◽  
Healthy Individuals ◽  
Linear Discriminant ◽  
Dietary Variety ◽  
Cumulative Score

Abstract Objectives Cumulative evidence indicated dietary intake is associated with gut microbiota. This study aim to investigate the association between Dietary Variety Score (DVS) and the Index of Nutritional Quality (INQ) and gut microbiota in healthy individuals. Methods In this cross-sectional study, we analyzed gut microbiota composition and structure using 16S rRNA gene (V4-V5 region) sequencing of 128 participants. Dietary frequency and 24-h dietary consumption was ascertained using an FFQ. Differences in α- and β-diversity and taxonomic relative abundances between the higher and lower DVS and INQs were compared, followed by multivariable analyses. Results The structure of the microbiota significantly differed by dietary variety. A lower score for DVS was associated with significantly lower richness (Shannon index P = 0.0096). The INQ of vitamin E (INQVE), Zinc (INQZn) and vitamin B6 (INQB6) correlated positively with the Shannon index (rho = 0.235, P = 0.008 for INQVE; rho = 0.209, P = 0.019 for INQZn; rho = 0.182, P = 0.040 for INQB6). A cumulative higher score of INQZn, INQB6 and INQVE was associated with significantly higher richness (Shannon index p-trend = 0.001). A lower score for DVS was associated with significantly reduced relative abundance of genus on Alistipes, Megasphaera and Barnesiella but higher Roseburia and Haemophilus. A lower score for INQVE was associated with significantly reduced relative abundance of genus on Coprococcus and Romboutsia. A lower score for INQB6 was associated with significantly reduced relative abundance of genus on Lachnospira, Dorea, Butyricicoccus, and Anaerostipes but higher Lachnoclostridium (the linear discriminant analysis effect size (LEfSe) >3). Meanwhile, the abundance of Coprococcus significantly increased with the higher cumulative score of INQVE, INQZn and INQB6 (P < 0.01), and it associated negatively with LDL level (coef = −0.264, P = 0.041). The findings were confirmed by multivariate analysis. Conclusions Lower dietary variety was significantly associated with reduced relative abundance of potentially beneficial bacteria but increased potentially harmful bacteria in the healthy individuals. Funding Sources This work was supported by the National Natural Science Foundation of China (No.82,060,593), Natural Science Foundation of Guangxi Province (No. 2018GXNSFDA050019).

scholarly journals Fecal Microbiota Dynamics During Disease Activity and Remission in Newly Diagnosed and Established Ulcerative Colitis

2021 ◽  
Author(s):  
Lena Öhman ◽  
Anders Lasson ◽  
Anna Strömbeck ◽  
Stefan Isaksson ◽  
Marcus Hesselmar ◽  
...  
Keyword(s):  
Ulcerative Colitis ◽  
Gut Microbiota ◽  
Disease Activity ◽  
Temporal Dynamics ◽  
Fecal Microbiota ◽  
Disease Stage ◽  
Dietary Interventions ◽  
Microbial Composition ◽  
Fecal Samples ◽  
Specific Species

Abstract Patients with ulcerative colitis (UC) have an altered gut microbiota composition, but the microbial relationship to disease activity needs to be further elucidated. Therefore, temporal dynamics of the fecal microbial community during remission and flare was determined. Fecal samples were collected at 2–6 time-points from UC patients during established disease (cohort EST) and at diagnosis (cohort NEW). Sampling range for cohort EST was 3–10 months and for cohort NEW 36 months. Relapses were monitored for an additional three years for cohort EST. Microbial composition was assessed by Genetic Analysis GA-map™ Dysbiosis test, targeting ≥ 300 bacteria. Eighteen patients in cohort EST (8 with maintained remission and 10 experiencing a flare), provided 71 fecal samples. In cohort NEW, 13 patients provided 49 fecal samples. The microbial composition showed no clustering related to disease activity in any cohort. Microbial dissimilarity was higher between than within patients for both cohorts, irrespective of presence of a flare. Microbial stability within patients was constant over time with no major shift in overall composition nor modification in the abundance of any specific species. Microbial composition was not affected by intensified medical treatment or linked to future disease course. Thus in UC, the gut microbiota is highly stable irrespective of disease stage, disease activity or treatment escalation. This suggests that prolonged dietary interventions or repeated fecal transplantations are needed to be able to induce permanent alterations of the gut microbiota.

scholarly journals Altered gut microbiota associated with symptom severity in schizophrenia

PeerJ ◽  
2020 ◽  
Vol 8 ◽  
pp. e9574 ◽  
Author(s):  
Shijia Li ◽  
Min Zhuo ◽  
Xia Huang ◽  
Yuanyuan Huang ◽  
Jing Zhou ◽  
...  
Keyword(s):  
Gut Microbiota ◽  
Symptom Severity ◽  
Alpha Diversity ◽  
Fecal Microbiota ◽  
Nucleotide Metabolism ◽  
Microbial Composition ◽  
Next Generation Sequencing Technology ◽  
Microbiome Composition ◽  
Sugar Unit ◽  
New Biomarkers

Background The gut microbiome and microbiome-gut-brain (MGB) axis have been receiving increasing attention for their role in the regulation of mental behavior and possible biological basis of psychiatric disorders. With the advance of next-generation sequencing technology, characterization of the gut microbiota in schizophrenia (SZ) patients can provide rich clues for the diagnosis and prevention of SZ. Methods In this study, we compared the differences in the fecal microbiota between 82 SZ patients and 80 demographically matched normal controls (NCs) by 16S rRNA sequencing and analyzed the correlations between altered gut microbiota and symptom severity. Results The alpha diversity showed no significant differences between the NC and SZ groups, but the beta diversity revealed significant community-level separation in microbiome composition between the two groups (pseudo-F =3.337, p < 0.001, uncorrected). At the phylum level, relatively more Actinobacteria and less Firmicutes (p < 0.05, FDR corrected) were found in the SZ group. At the genus level, the relative abundances of Collinsella, Lactobacillus, Succinivibrio, Mogibacterium, Corynebacterium, undefined Ruminococcus and undefined Eubacterium were significantly increased, whereas the abundances of Adlercreutzia, Anaerostipes, Ruminococcus and Faecalibacterium were decreased in the SZ group compared to the NC group (p < 0.05, FDR corrected). We performed PICRUSt analysis and found that several metabolic pathways differed significantly between the two groups, including the Polyketide sugar unit biosynthesis, Valine, Leucine and Isoleucine biosynthesis, Pantothenate and CoA biosynthesis, C5-Branched dibasic acid metabolism, Phenylpropanoid biosynthesis, Ascorbate and aldarate metabolism, Nucleotide metabolism and Propanoate metabolism pathways (p < 0.05, FDR corrected). Among the SZ group, the abundance of Succinivibrio was positively correlated with the total Positive and Negative Syndrome Scale (PANSS) scores (r = 0.24, p < 0.05, uncorrected) as well as the general PANSS scores (r = 0.22, p < 0.05, uncorrected); Corynebacterium was negatively related to the negative scores of PANSS (r = 0.22, p < 0.05, uncorrected). Conclusions Our findings provided evidence of altered gut microbial composition in SZ group. In addition, we found that Succinvibrio and Corynebacterium were associated with the severity of symptoms for the first time, which may provide some new biomarkers for the diagnosis of SZ.

scholarly journals A good start in life is important—perinatal factors dictate early microbiota development and longer term maturation

2020 ◽  
Vol 44 (6) ◽  
pp. 763-781
Author(s):  
Shaopu Wang ◽  
Muireann Egan ◽  
C Anthony Ryan ◽  
Patrick Boyaval ◽  
Eugene M Dempsey ◽  
...  
Keyword(s):  
Gut Microbiota ◽  
Early Life ◽  
Maternal Nutrition ◽  
Mode Of Delivery ◽  
Later Life ◽  
Antibiotic Use ◽  
Therapeutic Interventions ◽  
Perinatal Factors ◽  
Microbial Composition ◽  
Clinical Consequences

ABSTRACT Maternal health status is vital for the development of the offspring of humans, including physiological health and psychological functions. The complex and diverse microbial ecosystem residing within humans contributes critically to these intergenerational impacts. Perinatal factors, including maternal nutrition, antibiotic use and maternal stress, alter the maternal gut microbiota during pregnancy, which can be transmitted to the offspring. In addition, gestational age at birth and mode of delivery are indicated frequently to modulate the acquisition and development of gut microbiota in early life. The early-life gut microbiota engages in a range of host biological processes, particularly immunity, cognitive neurodevelopment and metabolism. The perturbed early-life gut microbiota increases the risk for disease in early and later life, highlighting the importance of understanding relationships of perinatal factors with early-life microbial composition and functions. In this review, we present an overview of the crucial perinatal factors and summarise updated knowledge of early-life microbiota, as well as how the perinatal factors shape gut microbiota in short and long terms. We further discuss the clinical consequences of perturbations of early-life gut microbiota and potential therapeutic interventions with probiotics/live biotherapeutics.

scholarly journals Smoking and gut microbiota: a cross sectional study involving students

2020 ◽  
Vol 30 (Supplement_5) ◽  
Author(s):  
M S Cattaruzza ◽  
F Valeriani ◽  
A Sindoni ◽  
M Castrechini ◽  
M Antinozzi ◽  
...  
Keyword(s):  
Cigarette Smoking ◽  
Gut Microbiota ◽  
Smoking Habit ◽  
Cross Sectional Study ◽  
Shannon Index ◽  
Sectional Study ◽  
Microbial Composition ◽  
Cross Sectional ◽  
Oncological Diseases ◽  
University Of Rome

Abstract Background Cigarette smoking is associated with oncological and non-oncological diseases. Tobacco smoking causes more than 7 million deaths per year worldwide. Cigarette smoking could impact not only on human tissues and organs, but also on the gut microbiota, i.e. the community of microorganisms in the gastrointestinal tract. The aim of this study is to evaluate the composition of gut microbiota among smoker and non-smoker university students. Methods Students from Sapienza University of Rome were asked to fill a questionnaire about smoking attitude and to provide a fecal sample. Students undergoing therapy which could affect gut microbiota were excluded. Differences in microbial composition and variability between smokers and non-smokers were assessed. Results A total of 107 students (43.9% males, mean age 21.96±2.52 years, 30,0% smokers) were enrolled so far. As for microbial composition, Firmicutes/Bacteroidetes ratios (F/B ratio) differed between smokers and non-smokers (5.34±16.66 vs 2.47±2.28). As for variability measures, smokers had lower Shannon index (3.43±0.26 vs 3.46±0.29). At Genus level, Prevotella was significantly more abundant in smokers (10.97±15.87 vs 4.86±10.86; p = 0.027) in comparison to non-smokers. Conclusions Our preliminary results seem to suggest that smoking habit affects gut microbiota. Smokers had higher Firmicutes/Bacteroidetes ratio and Prevotella Genus, while lower Shannon index. These preliminary data suggest that smoking habit may cause changes in gut microbiota pattern, but further research is needed. Key messages Smoking may cause changes in gut microbiota pattern. Smoking seems increases F/B ratio and Prevotella, while reduces gut microbiota variability.

scholarly journals Anti-Acid Drug Treatment Induces Changes in the Gut Microbiome Composition of Hemodialysis Patients

2021 ◽  
Vol 9 (2) ◽  
pp. 286
Author(s):  
Yi-Ting Lin ◽  
Ting-Yun Lin ◽  
Szu-Chun Hung ◽  
Po-Yu Liu ◽  
Ping-Hsun Wu ◽  
...  
Keyword(s):  
Random Forest ◽  
Gut Microbiota ◽  
Gut Microbiome ◽  
Hemodialysis Patients ◽  
Microbiota Composition ◽  
Microbial Composition ◽  
Linear Discriminant ◽  
H2 Blocker ◽  
Α Diversity ◽  
16S Rna

Anti-acid drugs, proton pump inhibitor (PPI) and histamine-2 blocker (H2-blocker), are commonly prescribed to treat gastrointestinal disorders. These anti-acid drugs alter gut microbiota in the general population, but their effects are not known in hemodialysis patients. Hence, we investigated the microbiota composition in hemodialysis patients treated with PPIs or H2-blocker. Among 193 hemodialysis patients, we identified 32 H2-blocker users, 23 PPI users, and 138 no anti-acid drug subjects. Fecal samples were obtained to analyze the gut microbiome using 16S RNA amplicon sequencing. Differences in the microbial composition of the H2-blocker users, PPI users, and controls were assessed using linear discriminant analysis effect size and the random forest algorithm. The species richness or evenness (α-diversity) was similar among the three groups, whereas the inter-individual diversity (β-diversity) was different between H2-blocker users, PPI users, and controls. Hemodialysis patients treated with H2-blocker and PPIs had a higher microbial dysbiosis index than the controls, with a significant increase in the genera Provetella 2, Phascolarctobacterium, Christensenellaceae R-7 group, and Eubacterium oxidoreducens group in H2-blocker users, and Streptococcus and Veillonella in PPI users. In addition, compared to the H2-blocker users, there was a significant enrichment of the genera Streptococcus in PPI users, as confirmed by the random forest analysis and the confounder-adjusted regression model. In conclusion, PPIs significantly changed the gut microbiota composition in hemodialysis patients compared to H2-blocker users or controls. Importantly, the Streptococcus genus was significantly increased in PPI treatment. These findings caution against the overuse of PPIs.

scholarly journals Gut Microbiota Signatures in Gestational Anemia

2021 ◽  
Vol 11 ◽  
Author(s):  
Yan Long ◽  
Fang Liang ◽  
Ruochun Guo ◽  
Chunyan Zhu ◽  
Xueqin Zhao ◽  
...  
Keyword(s):  
Gut Microbiota ◽  
Pregnant Women ◽  
First Trimester ◽  
Shannon Index ◽  
Rrna Gene ◽  
Healthy Controls ◽  
Third Trimester ◽  
Microbial Composition ◽  
The Third ◽  
Α Diversity

Gestational diseases are associated with altered intestinal microbiota in pregnant women. Characterizing the gut microbiota of gestational anemia (GA) may describe a novel role of gut microbial abnormality in GA. In this study, we investigated differences in gut microbiota between GA patients and healthy pregnant women from the first trimester (n = 24 vs. 54) and the third trimester (n = 30 vs. 56) based on the 16S rRNA gene sequencing method. No statistically significant differences in α-diversity were identified between GA patients and controls in the first trimester of pregnancy, whereas the Shannon index and observed OTUs were significantly lower in GA patients than in healthy controls in the third trimester. Distance-based redundancy analysis revealed striking differences in microbial communities in the third trimester between GA patients and controls. Four genera were significantly different in relative abundance between GA patients and healthy controls, while 12 genera differentiated significantly between GA patients and healthy controls in the third trimester. At the operational taxonomic unit (OTU) level, 17 OTUs and 30 OTUs were identified to be different between GA patients and healthy controls in the first and third trimesters, respectively. Changes in gut microbial composition of GA patients suggest a potential relation with GA, and provide insights into the prediction and intervention of gestational anemia.

scholarly journals The Composition and Predictive Function of the Fecal Microbiota Differ Between Young and Adult Donkeys

2020 ◽  
Vol 11 ◽  
Author(s):  
Jingya Xing ◽  
Guiqin Liu ◽  
Xinzhuang Zhang ◽  
Dongyi Bai ◽  
Jie Yu ◽  
...  
Keyword(s):  
Gut Microbiota ◽  
Microbial Community Composition ◽  
Age Groups ◽  
Fecal Microbiota ◽  
Microbial Colonization ◽  
Rrna Gene ◽  
Functional Prediction ◽  
Microbial Composition ◽  
Significant Difference ◽  
And Function

The community of microorganisms inhabiting the gastrointestinal tract of monogastric herbivores played critical roles in the absorption of nutrients and keeping the host healthy. However, its establishment at different age groups has not been quantitatively and functionally examined. The knowledge of microbial colonization and its function in the intestinal tract of different-age donkeys is still limited. By applying the V3–V4 region of the bacterial 16S rRNA gene and functional prediction on fecal samples from different-age donkeys, we characterized the gut microbiota during the different age groups. In contrast to the adult donkeys, the gut microbiota diversity and richness of the young donkeys showed significantly less resemblance. The microbial data showed that diversity and richness increased with age, but a highly individual variation of microbial composition was observed at month 1. Principal coordinate analysis (PCoA) revealed a significant difference across five time points in the feces. The abundance of Bacteroides, Lactobacillus, and Odoribacter tended to decrease, while the proportion of Streptococcus was significantly increased with age. For functional prediction, the relative abundance of pathways had a significant difference in the feces across different age groups, for example, Terpenoids and Polyketides and Folding, Sorting, and Degradation (P &lt; 0.05 or P &lt; 0.01). The analysis of beta diversity (PCoA and LEfSe) and microbial functions predicted with PICRUSt (NSTIs) clearly divided the donkeys into foals (≤3 months old) and adults (≥7 months old). Microbial community composition and structure had distinctive features at each age group, in accordance with functional stability of the microbiota. Our findings established a framework for understanding the composition and function of the fecal microbiota to differ between young and adult donkeys.

Sign in / Sign up

Export Citation Format

Share Document