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"study-abstract": "The human oral & gut microbiota continues to change phenotype by many factors (e.g. environment, host's diet, stress etc.), throughout life with a major impact on human physiology, psychology, metabolism and immune system. Amongst one such is, extreme environmental condition like High Altitude (HA) - very unique, difficult and full of health risk. Visiting population such as mountaineers, bikers, visitors, pilgrims, soldiers and special task forces who reaches High Altitude are at higher risks than at low landers. However, the reason how the extreme environment, stress, oxygen saturation and diet alter the oral & gut microbiota and affect its composition remains unclear. In this study we investigated the influence of High Altitude and stay at different heights, on the health of Indian population by using metagenomic approach to determine the variation in the gut microbiota. Fecal samples were collected from individuals, at four different time points viz. before the start of the ascending, after reaching 13000ft, descending at 11000ft and at the 16000ft –19000ft. Samples were analysed for whole genome sequencing. The oral & gut microbial diversity of members was significantly altered with the abundance of several bacteria, during the days of staying at 13000ft, 11000ft and 16000ft –19000ft. The oral & gut microbiota comprised mainly of the phyla Firmicutes, Proteobacteria, Bacteroidetes Euryachaeota, Actinobacteria and Unclassified at three time points. Further, the differential analysis of microbes across all the phyla and genus at all the four time points. Most of the identified microbial sequences were unclassified microbiota. Evidently, some metabolic pathways like amino acid, lipid and carbohydrate metabolism pathways were also altered.",
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"secondary-accession": "ERP128598",
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"study-abstract": "Objective: To elucidate cross-sectional patterns and longitudinal changes of oral and stool microbiota in patients with multiple sclerosis (MS) and the effect of B-cell depletion.Methods: We conducted an observational, longitudinal clinical cohort study analyzing four timepoints (days 0 and 14, weeks 24 and 52) over 12 months in 37 MS patients, of whom 22 initiated B-cell depletion therapy with ocrelizumab and 15 age- and gender-matched untreated MS patients. For microbiota analysis of the oral cavity and the gut, all provided stool and oral swab samples underwent 16S rDNA sequencing and subsequent bioinformatic analyses. Clinical outcome and MRI results were registered. Results: Compared to healthy controls, MS patients showed decreased alpha-diversity, significantly increased detection of Bacteroidetes and lower abundance of butyrate-producing members of the Firmicutes in their stool. Oral microbiota-patterns also had a reduced alpha-diversity yet showed unique and differential microbiota changes compared to stool such as increased levels of Proteobacteria and decreased abundance of Actinobacteria. Remarkably, following initiation of B-cell depletion, we observed increased alpha-diversity in the gut and the oral cavity as well as a long-term sustained reduction of pro-inflammatory Gram-negative bacteria (e.g., Escherichia/Shigella).Conclusion: MS patients have altered stool and oral microbiota diversity patterns compared to healthy controls, which are most pronounced in patients with higher disease activity and disability. Therapeutic B-cell depletion is associated with persisting regression of these changes. Whether these microbial changes are unspecific side-effects of B-cell depletion or indirectly modulate multiple sclerosis disease activity and progression is currently unknown and necessitates further investigations.",
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"study-abstract": "The Third Party Annotation (TPA) assembly was derived from the primary whole genome shotgun (WGS) data set PRJNA893406, and was assembled with metaspades v3.15.3. This project includes samples from the following biomes: root:Host-associated:Human:Digestive system:Large intestine:Fecal.",
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"study-abstract": "The Third Party Annotation (TPA) assembly was derived from the primary whole genome shotgun (WGS) data set PRJEB50505, and was assembled with metaspades v3.15.3. This project includes samples from the following biomes: root:Host-associated:Human:Digestive system:Large intestine:Fecal.",
"study-name": "EMG produced TPA metagenomics assembly of PRJEB50505 data set (Effect of a dairy-based product on sleep quality, stress, and gut-microbiota analyzed using shotgun metagenomics).",
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"study-name": "EMG produced TPA metagenomics assembly of PRJNA834801 data set (Characterizing dysbiosis of the Parkinson's disease gut microbiome using shotgun metagenomics).",
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