Home › Studies › PRJNA176385
PRJNA176385 SRP017304

Human gut microbiome of Russian population

Human gut microbiome of Russian population

98 gut microbiome samples from a Russian population; no further details on condition, intervention, or design are given in the available sources. machine-written summary

98 samples · 104 runs · RU · Age unknown · 2013 · 2.49 Gbp / sample · cohort Human gut microbiota community structures in urban

One study deposited as 2 BioProjects (217 catalog samples together): PRJNA176385 · PRJNA243613 · show together

ENABioProjectSample sheetRegistryDownloadFlag an issue

Sources
✓Sequence archive 98○Abstract / description✓Full text 392✓Supplementary tables 506–External resources–User contribution–Human verified

Checked this project's papers and archive records yourself? Mark it human-verified.

what each source gave
✓ Sequence archive98 sample values (collection date)
○ Abstract / descriptionread; no usable statement
✓ Full text392 sample values (antibiotic exposure, country, health condition, health condition detail) · PMC3778515
✓ Supplementary tables506 sample values (age, bmi, lifestyle, lifestyle detail, sex, subject id)
– External resourcesnot covered by the external resources we ingest
– User contributionnothing uploaded yet
– Human verifiednot yet checked by a person · I checked this project — verify it
Samples at a glance
1 country
Age
adult73
adolescent16
elderly7
unknown2
Condition
healthy_control98
Sex
female48
male48
Country
RU98
Body site
primary98
Sequencing depth per sample · this project all projects
all projects, 0–0.03 Gbp: 25,080 samples (4 %)all projects, 0.03–0.1 Gbp: 17,066 samples (3 %)all projects, 0.1–0.3 Gbp: 29,179 samples (5 %)this project, 0.1–0.3 Gbp: 1 samplesall projects, 0.3–1 Gbp: 47,044 samples (8 %)this project, 0.3–1 Gbp: 2 samplesall projects, 1–3 Gbp: 124,983 samples (22 %)this project, 1–3 Gbp: 61 samplesall projects, 3–10 Gbp: 253,728 samples (44 %)this project, 3–10 Gbp: 34 samplesall projects, 10–30 Gbp: 72,533 samples (13 %)all projects, 30–100 Gbp: 3,024 samples (1 %)all projects, 100–300 Gbp: 106 samples (0 %)all projects, ≥ 300 Gbp: 9 samples (0 %)project median 2.49 Gbp per sample0130Gbp
Community composition
Prevotella 16.3%Faecalibacterium 8.4%Roseburia 6.9%Bifidobacterium 6.8%Phocaeicola 6.8%Bacteroides 2.9%Blautia_A 2.7%Gemmiger 2.4%Fimenecus 2.4%Ruminococcoides 2.2%Vescimonas 1.6%Coprococcus 1.5%not assigned to a genus 6.7%other genera 32.6%

Genera, mean relative abundance over 5 profiled gut samples of this project (Sandpiper SingleM profiles, GTDB R232; low-depth and non-metagenome profiles left out).

Field coverage
fieldsamplescoverageR1R2R3R4
age_category96 98%
country98 100%98
health_condition98 100%98
subject_id96 98%96
antibiotic_exposure98 100%98
collection_date98 100%98
health_condition_detail98 100%98
age_at_collection_days96 98%96
sex96 98%96
lifestyle77 79%77
lifestyle_detail77 79%77
bmi64 65%64
Papers (1)
  • Human gut microbiota community structures in urban and rural populations in Russia. 2013 PMID 24036685 PMC3778515 own_data
Details
How this project entered the registry

Classified as human gut / stool shotgun DNA metagenome of age unknown by sonnet_x2 with confidence 0.68. Assay shotgun_dna.

  • host study.title · “Human gut microbiome of Russian population”
  • body site run.scientific_name · “human gut metagenome”
Evidence examples (one per field × route)
samplefieldvaluerouteconf.sourcequote
SAMN01818510age_at_collection_days12418.0R20.75paper.supp.ncomms3469-s2.xls[Лист1!Age]TAT_130: 34
SAMN01818510antibiotic_exposurenoR30.70paper.body.fulltextdid not receive anti-inflammatory or antimicrobial therapy for at least 3 months before inclusion
SAMN01818518bmi20.06R20.80paper.supp.ncomms3469-s2.xls[Лист1!BMI]OM_176: 20.06
SAMN01818510collection_date2011/2012R10.90biosample.attribute:collection_date2011/2012
SAMN01818510countryRUR30.70paper.body.fulltextwe performed a descriptive analysis of gut microbiomes in the Russian population
SAMN01818510health_conditionhealthy_controlR30.70paper.body.fulltextwithout intestinal dyspepsia symptoms
SAMN01818510health_condition_detailwithout intestinal dyspepsia symptomsR30.70paper.body.fulltextwithout intestinal dyspepsia symptoms
SAMN01818510lifestylerural_non_industrializedR20.80paper.supp.ncomms3469-s2.xls[Лист1!Settlement size]TAT_130: rural
SAMN01818510lifestyle_detailruralR20.80paper.supp.ncomms3469-s2.xls[Лист1!Settlement size]TAT_130: rural
SAMN01818510sexfemaleR20.80paper.supp.ncomms3469-s2.xls[Лист1!Gender]TAT_130: F
SAMN01818510subject_idTAT_130R20.80paper.supp.ncomms3469-s2.xls[Лист1!Sample]TAT_130: TAT_130
Sequencing

104 runs over 98 samples · mean 2.61 Gbp per run (median 2.51 Gbp, total 271.02 Gbp; 104 runs with a base count) · layout SINGLE 104 · platform ABI_SOLID 96, ILLUMINA 5, ION_TORRENT 2, LS454 1 · models AB SOLiD 4 System (96), Illumina HiSeq 2000 (5), Ion Torrent PGM (2), 454 GS FLX+ (1) · 5% of runs with a Sandpiper profile · first public 2013-01-07 – 2013-06-13

Authors (0)

No author record.

Downloads

PRJNA176385.csv.gz (4.2 KB) · parquet (76.1 KB) — all 98 samples, every field with route and confidence · PRJNA176385_determinations.csv.gz (11.3 KB) — 996 evidence rows

Samples (98 · every field this project has values for · hover a cell for its source)
Loading the sample table…