Gut microbiome in healthy parturients, Hohhot, China
Cross-sectional study of 40 fecal samples from healthy parturients in Hohhot, China, using single-cell amplification and metagenomics to examine bacterial diversity, gene function, and short-chain fatty acid biosynthesis genes. machine-written summary
40 samples · 40 runs · CN · Adult · 2019 · 5.03 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 252 sample values (collection date, country, latitude, location locality, location region, longitude, subject id) |
| ✓ Abstract / description | 80 sample values (health condition, health condition detail) |
| – Full text | no open-access full text linked |
| – Supplementary tables | no supplementary tables available (or none open access) |
| – External resources | not covered by the external resources we ingest |
| – User contribution | nothing uploaded yet |
| – Human verified | not yet checked by a person · I checked this project — verify it |
longitudinal — not resolved
5 of 5 people sampled more than once (40 samples; median 8, up to 8 per person).
Genera, mean relative abundance over 36 profiled gut samples of this project (Sandpiper SingleM profiles, GTDB R232; low-depth and non-metagenome profiles left out).
| field | samples | coverage | R1 | R2 | R3 | R4 |
|---|---|---|---|---|---|---|
| age_category | 40 | 100% | ||||
| country | 40 | 100% | 40 | |||
| health_condition | 40 | 100% | 40 | |||
| subject_id | 40 | 100% | 40 | |||
| collection_date | 40 | 100% | 40 | |||
| detailed_location | 40 | 100% | ||||
| health_condition_detail | 40 | 100% | 40 | |||
| latitude | 40 | 100% | 40 | |||
| location_locality | 40 | 100% | 40 | |||
| longitude | 40 | 100% | 40 | |||
| location_region | 12 | 30% | 12 |
Archive description
In order to analyze the information of maternal intestinal bacterial diversity and gene function fully and understand the metabolic characteristics or potential of microorganism,the technique combination of single cell amplification and macrogenomics are used in this paper. Total 40 fecal diluent samples belonging to 5 healthy parturients are used for analysis of bacterial community structure and gene function.And given the key role of short-chain fatty acids in energy and immune regulation during pregnancy, the diversity of their biosynthesis-related functional genes and their correlation with core flora were further investigated.
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of adult by deterministic_prior with confidence 0.90. Assay shotgun_dna.
- host external_curation.infant_catalog · “infant triage reason_code age_maternal_only”
- body site study.title · “Analysis of Intestinal Microbial Diversity and”
- body site study.description · “information of maternal intestinal bacterial diversity and”
- life stage external_curation.infant_catalog · “infant triage reason_code age_maternal_only”
- life stage study.description · “the information of maternal intestinal bacterial diversity”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN10650302 | collection_date | 2018-03-10 | R1 | 0.90 | biosample.attribute:collection_date | 2018-03-10 |
| SAMN10650302 | country | CN | R1 | 0.90 | sample.attr.geo_loc_name | China: hohhot |
| SAMN10650302 | health_condition | healthy_control | R4 | 0.50 | study.description | healthy parturients |
| SAMN10650302 | health_condition_detail | Healthy pregnant women | R4 | 0.50 | study.description | healthy parturients |
| SAMN10650302 | latitude | 40.4700 | R1 | 0.90 | biosample.attribute:lat_lon | 40.47 N 111.49 E |
| SAMN10650302 | location_locality | Hohhot | R1 | 0.85 | biosample.attribute:geo_loc_name | China: hohhot |
| SAMN10650326 | location_region | Inner Mongolia | R1 | 0.60 | biosample.attribute:lat_lon | 40.14 N 111.39 E |
| SAMN10650302 | longitude | 111.4900 | R1 | 0.90 | biosample.attribute:lat_lon | 40.47 N 111.49 E |
| SAMN10650302 | subject_id | 10 | R1 | 0.70 | sample.name_rule:sample_alias | MG10-1 |
Sequencing
40 runs over 40 samples · mean 4.99 Gbp per run (median 5.03 Gbp, total 199.77 Gbp; 40 runs with a base count) · layout PAIRED 40 · platform ILLUMINA 40 · models Illumina HiSeq 2000 (40) · 90% of runs with a Sandpiper profile · first public 2019-07-01
Authors (0)
No author record.
Downloads
PRJNA511899.csv.gz (1.8 KB) · parquet (71.5 KB) — all 40 samples, every field with route and confidence · PRJNA511899_determinations.csv.gz (3.2 KB) — 332 evidence rows