Gut metagenome, carbohydrate diet switch, Mongolia/China
110 gut metagenome samples from healthy individuals in Mongolia (Ulan Bator, Khentii, Tuv) and Inner Mongolia, China, studying effects of staple carbohydrate (wheat, rice, oat) on gut microbiota in a cross-sectional design. machine-written summary
110 samples · 110 runs · MN · Age unknown · 2016 · 7.63 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 473 sample values (collection date, country, latitude, location locality, location region, longitude) |
| ○ Abstract / description | read; no usable statement |
| ○ Full text | read; no usable statement or table · PMC5359301, PMC8201803 |
| ○ Supplementary tables | files read; no table could be matched to the samples |
| ✓ External resources | 220 sample values (health condition, health condition detail) · from curatedMetagenomicData 3 (cMD 3) |
| – User contribution | nothing uploaded yet · share metadata |
| – Human verified | not yet checked by a person · I checked this project — verify it |
country: sequence archive and curatedMetagenomicData disagree for 47 samples (e.g. CN vs MN) — withheld.
The sources disagree on 47 samples. Where two incompatible values exist for one sample (or one person's samples disagree on sex), neither value is published: the field is left empty here, in the sample sheet and in the downloads. Both sides, with their sources, are in gut_metadata_contradictions.parquet of the data package (what counts as a contradiction).
Contradicted values (40 of 47)
| sample | field | value | other value | handling |
|---|---|---|---|---|
| SAMN05414954 | country | CN (sequence archive) | MN (curatedMetagenomicData) | withheld: neither value published |
| SAMN05414955 | country | CN (sequence archive) | MN (curatedMetagenomicData) | withheld: neither value published |
| SAMN05414956 | country | CN (sequence archive) | MN (curatedMetagenomicData) | withheld: neither value published |
| SAMN05414957 | country | CN (sequence archive) | MN (curatedMetagenomicData) | withheld: neither value published |
| SAMN05414958 | country | CN (sequence archive) | MN (curatedMetagenomicData) | withheld: neither value published |
| SAMN05414959 | country | CN (sequence archive) | MN (curatedMetagenomicData) | withheld: neither value published |
| SAMN05414960 | country | CN (sequence archive) | MN (curatedMetagenomicData) | withheld: neither value published |
| SAMN05414961 | country | CN (sequence archive) | MN (curatedMetagenomicData) | withheld: neither value published |
| SAMN05414962 | country | CN (sequence archive) | MN (curatedMetagenomicData) | withheld: neither value published |
| SAMN05414963 | country | CN (sequence archive) | MN (curatedMetagenomicData) | withheld: neither value published |
| SAMN05414964 | country | CN (sequence archive) | MN (curatedMetagenomicData) | withheld: neither value published |
| SAMN05414965 | country | CN (sequence archive) | MN (curatedMetagenomicData) | withheld: neither value published |
| SAMN05414966 | country | CN (sequence archive) | MN (curatedMetagenomicData) | withheld: neither value published |
| SAMN05414967 | country | CN (sequence archive) | MN (curatedMetagenomicData) | withheld: neither value published |
| SAMN05414968 | country | CN (sequence archive) | MN (curatedMetagenomicData) | withheld: neither value published |
| SAMN05414969 | country | CN (sequence archive) | MN (curatedMetagenomicData) | withheld: neither value published |
| SAMN05414970 | country | CN (sequence archive) | MN (curatedMetagenomicData) | withheld: neither value published |
| SAMN05414971 | country | CN (sequence archive) | MN (curatedMetagenomicData) | withheld: neither value published |
| SAMN05414972 | country | CN (sequence archive) | MN (curatedMetagenomicData) | withheld: neither value published |
| SAMN05414973 | country | CN (sequence archive) | MN (curatedMetagenomicData) | withheld: neither value published |
| SAMN05414974 | country | CN (sequence archive) | MN (curatedMetagenomicData) | withheld: neither value published |
| SAMN05414975 | country | CN (sequence archive) | MN (curatedMetagenomicData) | withheld: neither value published |
| SAMN05414976 | country | CN (sequence archive) | MN (curatedMetagenomicData) | withheld: neither value published |
| SAMN05414977 | country | CN (sequence archive) | MN (curatedMetagenomicData) | withheld: neither value published |
| SAMN05414978 | country | CN (sequence archive) | MN (curatedMetagenomicData) | withheld: neither value published |
| SAMN05414979 | country | CN (sequence archive) | MN (curatedMetagenomicData) | withheld: neither value published |
| SAMN05414980 | country | CN (sequence archive) | MN (curatedMetagenomicData) | withheld: neither value published |
| SAMN05414981 | country | CN (sequence archive) | MN (curatedMetagenomicData) | withheld: neither value published |
| SAMN05414982 | country | CN (sequence archive) | MN (curatedMetagenomicData) | withheld: neither value published |
| SAMN05414983 | country | CN (sequence archive) | MN (curatedMetagenomicData) | withheld: neither value published |
| SAMN05414984 | country | CN (sequence archive) | MN (curatedMetagenomicData) | withheld: neither value published |
| SAMN05414985 | country | CN (sequence archive) | MN (curatedMetagenomicData) | withheld: neither value published |
| SAMN05414986 | country | CN (sequence archive) | MN (curatedMetagenomicData) | withheld: neither value published |
| SAMN05414987 | country | CN (sequence archive) | MN (curatedMetagenomicData) | withheld: neither value published |
| SAMN05414988 | country | CN (sequence archive) | MN (curatedMetagenomicData) | withheld: neither value published |
| SAMN05414989 | country | CN (sequence archive) | MN (curatedMetagenomicData) | withheld: neither value published |
| SAMN05414990 | country | CN (sequence archive) | MN (curatedMetagenomicData) | withheld: neither value published |
| SAMN05414991 | country | CN (sequence archive) | MN (curatedMetagenomicData) | withheld: neither value published |
| SAMN05414992 | country | CN (sequence archive) | MN (curatedMetagenomicData) | withheld: neither value published |
| SAMN05414993 | country | CN (sequence archive) | MN (curatedMetagenomicData) | withheld: neither value published |
longitudinal — not resolved
Schedule stated by the source: “fecal samples at 4 time points, week 0 to week 3, staple food changed weekly” (time origin: intervention_start); stated follow-up 21 d.
Genera, mean relative abundance over 102 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 | 0 | 0% | ||||
| country | 63 | 57% | 63 | |||
| health_condition | 110 | 100% | 110 | |||
| subject_id | 0 | 0% | ||||
| collection_date | 110 | 100% | 110 | |||
| health_condition_detail | 110 | 100% | 110 | |||
| latitude | 110 | 100% | 110 | |||
| longitude | 110 | 100% | 110 | |||
| detailed_location | 79 | 72% | ||||
| location_region | 48 | 44% | 48 | |||
| location_locality | 32 | 29% | 32 |
- A catalog of tens of thousands of viruses from human metagenomes reveals hidden associations with chronic diseases. 2021 PMID 34083435 PMC8201803 own_data
- Carbohydrate Staple Food Modulates Gut Microbiota of Mongolians in China. 2017 PMID 28377764 PMC5359301 own_data
- Unique Features of Ethnic Mongolian Gut Microbiome revealed by metagenomic analysis. 2016 PMID 27708392 PMC5052615 unsure
- Biogeographic study of human gut-associated crAssphage suggests impacts from industrialization and recent expansion. 2020 PMID 31940321 PMC6961876 unsure
- Characterizing Enterotypes in Human Metagenomics: A Viral Perspective. 2021 PMID 34659174 PMC8511818 unsure
7 more
- Gut microbiota insights into human adaption to high-plateau diet. 2022 PMID 35989883 PMC9387673
- The microbiome's fiber degradation profile and its relationship with the host diet. 2022 PMID 36464700 PMC9721016
- Plasmids in the human gut reveal neutral dispersal and recombination that is overpowered by inflammatory diseases. 2024 PMID 38605009 PMC11009399
- Microbiota-driven antitumour immunity mediated by dendritic cell migration. 2025 PMID 40659786 PMC12390848
- Gut bacteria metabolize natural and synthetic steroid hormones via the reductive OsrABC pathway. 2025 PMID 41118772 PMC13059687
- A genomic atlas of gut clostridia: phylogeny, butyrate, and propionate production. 2026 PMID 42039832 PMC13106387
- Plasmid dispersal and recombination across human gut microbiomes is neutral, but overpowered by inflammatory diseases 2023
Archive description
Mongolian Metagenome
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of age unknown by sonnet_x2 with confidence 0.57. Assay shotgun_dna.
- host run.scientific_name · “human gut metagenome”
- body site run.scientific_name · “human gut metagenome”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN05414891 | collection_date | 2013-06 | R1 | 0.90 | biosample.attribute:collection_date | 2013-06 |
| SAMN05414891 | country | MN | R1 | 0.90 | sample.attr.geo_loc_name | Mongolia: Ulan Bator |
| SAMN05414891 | health_condition | healthy_control | R2 | 0.75 | external.cmd source | disease: Healthy |
| SAMN05414891 | health_condition_detail | Healthy | R2 | 0.75 | external.cmd source | disease: Healthy |
| SAMN05414891 | latitude | 47.5500 | R1 | 0.90 | biosample.attribute:lat_lon | 47.55 N 106.53 E |
| SAMN05414891 | location_locality | Ulaanbaatar | R1 | 0.75 | biosample.attribute:geo_loc_name | Mongolia: Ulan Bator |
| SAMN05414922 | location_region | Central Aimak | R1 | 0.60 | biosample.attribute:lat_lon | 47.55 N 106.84 E |
| SAMN05414954 | location_region | Inner Mongolia | R1 | 0.85 | biosample.attribute:geo_loc_name | China: Inner Mongolia |
| SAMN05414891 | longitude | 106.5300 | R1 | 0.90 | biosample.attribute:lat_lon | 47.55 N 106.53 E |
Sequencing
110 runs over 110 samples · mean 8.58 Gbp per run (median 7.63 Gbp, total 943.30 Gbp; 110 runs with a base count) · layout PAIRED 110 · platform ILLUMINA 110 · models Illumina HiSeq 4000 (110) · 93% of runs with a Sandpiper profile · first public 2016-08-08
Authors (85)
Pasolli E first · Asnicar F · Manara S · Zolfo M · Karcher N · Armanini F · Beghini F · Manghi P · Tett A · Ghensi P · Collado MC · Rice BL · DuLong C · Morgan XC · Golden CD · Quince C · Huttenhower C · Segata N last · Tisza MJ first · Buck CB last · Huang Y first · Liu J · Tun HM · Stanton C · Chen T · El-Nezami H · Wei H · Wang M · Wu Q last · Levy S · Arp G · Zhong A · Ndjite GM · Weiss A · Braccia D · Jenkins C · Grant MR · Abeysinghe S · Yang Y · Jermain MD · Wu CH · Ma B · Nooij S first · Plomp N · Sanders IMJG · Schout L · van der Meulen AE · Terveer EM · Norman JM · Larralde MF · Vossen RHAM · Kloet SL · Faber KN · Harmsen HJM · Zeller GF · Kuijper EJ · Smits WK · Ducarmon QR last · Jacoby C first · Scorza K · Ecker L · Nol Bernardino P · Little AS · McMillin M · Ramaswamy R · Sundararajan A · Sidebottom AM · Lin H · Dufault-Thompson K · Hall B · Jiang X · Light SH last · Sola L first · Candeliere F · Busi E · Raimondi S · Amaretti A · Rossi M last · Mizrahi I first · Zorea A · Pellow D · Levin L · Pilosof S · Friedman J · Shamir R last
Help complete this project
2 of the 4 core fields are below 50% coverage: age_category, subject_id. Share metadata
Downloads
PRJNA328899.csv.gz (3.7 KB) · parquet (74.8 KB) — all 110 samples, every field with route and confidence · PRJNA328899_determinations.csv.gz (6.5 KB) — 693 evidence rows