scholarly journals High‐throughput sequencing reveals the core gut microbiome of Bar‐headed goose ( Anser indicus ) in different wintering areas in Tibet

2016 ◽  
Vol 5 (2) ◽  
pp. 287-295 ◽  
Author(s):  
Wen Wang ◽  
Jian Cao ◽  
Fang Yang ◽  
Xuelian Wang ◽  
Sisi Zheng ◽  
...  
Keyword(s):  
High Throughput ◽  
Gut Microbiome ◽  
High Throughput Sequencing ◽  
The Core ◽  
Wintering Areas ◽  
Anser Indicus

scholarly journals Relationship between hyperlipidemia and the gut microbiome of rats, characterized using high-throughput sequencing

2020 ◽  
Vol 7 (2) ◽  
pp. 154-161 ◽  
Author(s):  
Yaqi Li ◽  
Quantao Ma ◽  
Jingkang Wang ◽  
Pengfei Li ◽  
Long Cheng ◽  
...  
Keyword(s):  
High Throughput ◽  
Gut Microbiome ◽  
High Throughput Sequencing

High-throughput sequencing-based analysis of the composition and diversity of endophytic bacterial community in seeds of upland rice

2020 ◽  
Author(s):  
Zhishan Wang ◽  
Yongqiang Zhu ◽  
Ruixue Jing ◽  
Xianyu Wu ◽  
Ni Li ◽  
...  
Keyword(s):  
Community Structure ◽  
High Throughput ◽  
High Throughput Sequencing ◽  
Upland Rice ◽  
Functional Evaluation ◽  
Soil Environment ◽  
Soil Microbial Community Structure ◽  
The Core ◽  
Rice Seeds ◽  
The Impact

Abstract Upland rice is an ecotype crop formed by long-term domestication and evolution of rice in the dry land without water layer. Generally, its stem and leaf are thick and luxuriant, its leaf is wide and light, its root system is developed, its root hair is abundant, its osmotic pressure of root and cell juice concentration of leaf are high, and it is drought resistant, heat-resistant and water absorbing. The purpose of this study is to reveal the “core flora” of endophytes in upland rice seeds by studying the diversity and community structure of endophytes in upland rice seeds, and to reveal the impact of soil environment on the formation of endophyte community structure in upland rice seeds by comparing with soil environment microorganisms in upland rice habitats. In this study, the high-throughput sequencing technology based on the Illumina Hiseq 2500 platform was used to study the structure and diversity of endophytic bacterial communities using upland rice varieties collected in different places and soil samples from their unified planting sites as materials. There are 42 endophytic OTUs coexisted in the 14 samples. At the phylum level, the first dominant phyla was Proteobacteria (93.81–99.99%) in all 14 samples. At the genus level, Pantoea (8.77% -87.77%), Pseudomonas (1.15–61.58%), Methylobacterium (0.40–4.64%), Sphingomonas (0.26–3.85%), Microbacterium (0.01–4.67%) and Aurantimonas (0.04–4.34%), which are probably the core microflora in upland rice seeds, served as the dominant genera that coexisted in all upland rice seeds tested. Compared with the soil microbial community structure in the upland rice uniform planting site, it was found that it had little effect on the endophytic community structure in upland rice seeds. This study is of great significance for the isolation, screening, functional evaluation and re-action of some functional microorganisms in upland rice in order to improve its agronomic traits. It also provides a certain reference for the interaction between microorganisms and plants.

scholarly journals Evaluation on the Characteristics of Gut Microbiome in Polycystic Ovary Syndrome Rats Induced by Dihydrotestosterone or Letrozole

2020 ◽  
Author(s):  
Yanhua Zheng ◽  
Hongxia Ma ◽  
Ying Xu ◽  
Chengjie Liang ◽  
Tong Yang
Keyword(s):  
Polycystic Ovary Syndrome ◽  
Gut Microbiota ◽  
Aromatase Inhibitor ◽  
16S Rdna ◽  
High Throughput ◽  
Gut Microbiome ◽  
High Throughput Sequencing ◽  
Polycystic Ovary ◽  
Molecular Ecology ◽  
Ovary Syndrome

Abstract The etiology of polycystic ovary syndrome (PCOS) is unclear. Recent reports indicated that the gut microbiome of PCOS patients and rodents has changed. In this study, we induced the nonaromatizable androgen dihydrotestosterone (DHT) or the aromatase inhibitor letrozole (LET) to induce PCOS model rat to compare the bacterial diversity distribution within and between the two groups. The molecular ecology of the fecal gut microbiota was analyzed by 16S rDNA high-throughput sequencing. Our study found that DHT can reduce the microbial richness in rats. PCoA plots confirmed that DHT group was statistically significantly separated from C group and LET group. At phylum level, DHT led to a decrease in Bacteroidetes as well as an increase in Cyanobacteria, Tenericutes, Actinobacteria, Spirochaetae and Saccharibacteria. At genus level, LEfSe analysis showed that genus of Bifidobacteriales, Vibro, Peptococcus and Turicibacter played roles in the letrozole induced PCOS rats. And Lachnospiraceae_NK4A136_group, Ruminococcus_1, Ruminiclostridium, Anaerotruncus and Anaeroplasma played vital roles in the intestine of DHT induced PCOS rats.

scholarly journals Gut Microbiome Composition in Obese and Non-Obese Persons: A Systematic Review and Meta-Analysis

Nutrients ◽  
2021 ◽  
Vol 14 (1) ◽  
pp. 12
Author(s):  
Mariona Pinart ◽  
Andreas Dötsch ◽  
Kristina Schlicht ◽  
Matthias Laudes ◽  
Jildau Bouwman ◽  
...  
Keyword(s):  
Systematic Review ◽  
High Throughput ◽  
Gut Microbiome ◽  
High Throughput Sequencing ◽  
Meta Analysis ◽  
Shannon Index ◽  
Obese Adults ◽  
Cross Sectional ◽  
Microbiome Composition ◽  
Genus Level

Whether the gut microbiome in obesity is characterized by lower diversity and altered composition at the phylum or genus level may be more accurately investigated using high-throughput sequencing technologies. We conducted a systematic review in PubMed and Embase including 32 cross-sectional studies assessing the gut microbiome composition by high-throughput sequencing in obese and non-obese adults. A significantly lower alpha diversity (Shannon index) in obese versus non-obese adults was observed in nine out of 22 studies, and meta-analysis of seven studies revealed a non-significant mean difference (−0.06, 95% CI −0.24, 0.12, I2 = 81%). At the phylum level, significantly more Firmicutes and fewer Bacteroidetes in obese versus non-obese adults were observed in six out of seventeen, and in four out of eighteen studies, respectively. Meta-analyses of six studies revealed significantly higher Firmicutes (5.50, 95% 0.27, 10.73, I2 = 81%) and non-significantly lower Bacteroidetes (−4.79, 95% CI −10.77, 1.20, I2 = 86%). At the genus level, lower relative proportions of Bifidobacterium and Eggerthella and higher Acidaminococcus, Anaerococcus, Catenibacterium, Dialister, Dorea, Escherichia-Shigella, Eubacterium, Fusobacterium, Megasphera, Prevotella, Roseburia, Streptococcus, and Sutterella were found in obese versus non-obese adults. Although a proportion of studies found lower diversity and differences in gut microbiome composition in obese versus non-obese adults, the observed heterogeneity across studies precludes clear answers.

Clostridium difficile Exposures, Colonization, and the Microbiome: Implications for Prevention

2018 ◽  
Vol 39 (5) ◽  
pp. 596-602 ◽  
Author(s):  
Sara L. Revolinski ◽  
L. Silvia Munoz-Price
Keyword(s):  
Clostridium Difficile ◽  
High Throughput ◽  
Environmental Contamination ◽  
Gut Microbiome ◽  
High Throughput Sequencing ◽  
Infect Control Hosp ◽  
Healthcare Settings ◽  
Potential Impact

New studies have been published regarding the epidemiology of Clostridium difficile in topics such as asymptomatic C. difficile colonization, community-associated C. difficile infection, environmental contamination outside healthcare settings, animal colonization, and the interactions between C. difficile and the gut microbiome. In addition to summarizing these findings, this review offers a perspective on the potential impact of high-throughput sequencing and other potential techniques on the prevention of C. difficile.Infect Control Hosp Epidemiol 2018;39:596–602

scholarly journals Investigation of gut microbiome changes in type 1 diabetic mellitus rats based on high-throughput sequencing

2020 ◽  
Vol 124 ◽  
pp. 109873 ◽  
Author(s):  
Quantao Ma ◽  
Yaqi Li ◽  
Jingkang Wang ◽  
Pengfei Li ◽  
Yuhui Duan ◽  
...  
Keyword(s):  
High Throughput ◽  
Gut Microbiome ◽  
High Throughput Sequencing ◽  
Diabetic Mellitus

scholarly journals High-Throughput Sequencing Reveals the Gut Microbiome of the Bactrian Camel in Different Ages

2019 ◽  
Vol 76 (7) ◽  
pp. 810-817 ◽  
Author(s):  
Jing He ◽  
Le Hai ◽  
Khongorzul Orgoldol ◽  
Li Yi ◽  
Liang Ming ◽  
...  
Keyword(s):  
High Throughput ◽  
Gut Microbiome ◽  
High Throughput Sequencing ◽  
Bactrian Camel ◽  
Different Ages

scholarly journals Comparison of four high throughput sequencing platforms in a medical laboratory for gut microbiome research

2020 ◽  
Vol 59 (2-Spl) ◽  
pp. 89-99
Author(s):  
P. DAS ◽  
R. DADWAL ◽  
V. RADHAKRISHNAN ◽  
M. PARIHAR ◽  
S. BHATTACHARYA ◽  
...  
Keyword(s):  
High Throughput ◽  
Gut Microbiome ◽  
High Throughput Sequencing ◽  
Medical Laboratory ◽  
Microbiome Research ◽  
Sequencing Platforms

scholarly journals Molecular analysis of oral microflora in patients with primary Sjögren’s syndrome by using high-throughput sequencing

PeerJ ◽  
2018 ◽  
Vol 6 ◽  
pp. e5649 ◽  
Author(s):  
Zhifang Zhou ◽  
Guanghui Ling ◽  
Ning Ding ◽  
Zhe Xun ◽  
Ce Zhu ◽  
...  
Keyword(s):  
Dental Caries ◽  
High Throughput ◽  
High Throughput Sequencing ◽  
Primary Sjögren’S Syndrome ◽  
Healthy Controls ◽  
Primary Sjogren’S Syndrome ◽  
Core Microbiome ◽  
Primary Sjögren's Syndrome ◽  
The Core ◽  
Oral Microflora

BackgroundThe objective of this study was to characterize the oral microflora profile of primary Sjögren’s syndrome (pSS) patients, thereby revealing the connection between oral bacterial composition and dental caries, and to identify the “core microbiome” in the oral cavities of pSS patients and systemic healthy individuals by using a high-throughput sequencing technique.MethodsTwenty-two pSS patients and 23 healthy controls were enrolled in this study. Their clinical data and oral rinse samples were collected. The V3–V4 hypervariable regions of the bacterial 16S rRNA gene of samples were amplified and analyzed by high-throughput sequencing on the Illumina Miseq PE300 platform.ResultsBoth two groups were age- and sex-matched. There were significantly higher decayed, missing and filled teeth (DMFT) and decayed, missing and filled surfaces (DMFS) in the pSS group than in the control group (p < 0.01). Alpha diversity was depleted in pSS patients, compared with healthy controls (p < 0.01), while beta diversity between the two groups was not significantly different. Seven discriminative genera (LDA > 4) were found between the two groups in LEfSe (LDA Effect Size) analysis. The relative abundance ofVeillonellain pSS patients was fourfold higher, whileActinomyces,Haemophilus,Neisseria,Rothia,PorphyromonasandPeptostreptococcuswere significantly lower in pSS patients than in healthy controls. However, the correlation betweenVeillonellaand DMFT/DMFS was not significant (p > 0.05). In Venn diagram analysis, nine genera shared by all samples of two groups, which comprised 71.88% and 67.64% in pSS patients and controls, respectively.DiscussionThese findings indicate a microbial dysbiosis in pSS patients; notably,Veillonellamight be recognized as a biomarker in pSS patients. The core microbiome in pSS patients was similar to the systemic healthy population. These provide insight regarding advanced microbial prevention and treatment of severe dental caries in pSS patients. This study also provides basic data regarding microbiology in pSS.

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