Probiotic LcZ intervention in healthy adults, Hohhot, China
18 samples from healthy adults (20–30 years old) in Hohhot, Inner Mongolia, China, studying gut microbiome and metatranscriptome response to the probiotic Lactobacillus casei Zhang in an intervention design. machine-written summary
18 samples · 30 runs · CN · Adult · 2017 · 3.55 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 144 sample values (collection date, country, latitude, location locality, location region, longitude, subject id, timepoint) |
| ○ Abstract / description | read; no usable statement |
| ✓ Full text | 36 sample values (health condition, health condition detail) · PMC8249650 |
| ✓ Supplementary tables | 18 sample values (sex) |
| – 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 |
intervention — arms not resolved
Probiotic (live microorganisms; single strain or mixture) design single_arm_before_after · population healthy_control · Lactobacillus casei Zhang probiotic ingestion, sampled over 28 days
“single-organism probiotic, Lactobacillus casei Zhang” — bioproject.description (study level; per-sample arms are in the intervention column below)
longitudinal
6 of 6 people sampled more than once (18 samples; median 3, up to 3 per person) · follow-up median 28 d (max 28 d) · median interval between samples 14 d (time from collection dates). Schedule stated by the source: “Stool samples collected on Days 0, 14, and 28 relative to probiotic consumption start” (time origin: intervention start); stated follow-up 28 d.
Each row is one person (6 shown); dots are samples at days since that person's first sample.
Genera, mean relative abundance over 17 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 | 18 | 100% | ||||
| country | 18 | 100% | 18 | |||
| health_condition | 18 | 100% | 18 | |||
| subject_id | 18 | 100% | 18 | |||
| collection_date | 18 | 100% | 18 | |||
| detailed_location | 18 | 100% | ||||
| health_condition_detail | 18 | 100% | 18 | |||
| latitude | 18 | 100% | 18 | |||
| location_locality | 18 | 100% | 18 | |||
| location_region | 18 | 100% | 18 | |||
| longitude | 18 | 100% | 18 | |||
| sex | 18 | 100% | 18 | |||
| timepoint_label | 18 | 100% | 18 |
- Metagenomic and metatranscriptomic profiling of Lactobacillus casei Zhang in the human gut. 2021 PMID 34210980 PMC8249650 own_data
Archive description
A mechanistic understanding of the purported health benefits conferred by consumption of probiotic bacteria has been limited by our knowledge of the resident gut microbiota and its interaction with the host. Here, we detail the impact of a single-organism probiotic, Lactobacillus casei Zhang (LcZ), on the structure and functional dynamics (gene expression) of the gut microbiota in a study of 6 healthy individuals, 20 to 30 years old. The analysis revealed that while the overall community composition was stable as assessed by metagenomics DNA profiling, the transcriptional response of the gut microbiota was modulated by probiotic treatment. Comparison of transcriptional profiles based on taxonomic composition yielded distinct transcriptome groups that displayed considerable differences in functional dynamics.
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of adult by sonnet_x2 with confidence 0.85. Assay shotgun_dna.
- host study.title · “Human gut microbiome raw sequence reads”
- body site run.scientific_name · “gut metagenome”
- life stage study.description · “6 healthy individuals, 20 to 30 years old”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN04233251 | collection_date | 2013-10-30 | R1 | 0.90 | biosample.attribute:collection_date | 2013-10-30 |
| SAMN04233251 | country | CN | R1 | 0.90 | sample.attr.geo_loc_name | China: Hohhot, Inner Mongolia |
| SAMN04233251 | health_condition | healthy_control | R3 | 0.70 | paper.fulltext.methods | six healthy young volunteers (20–30 years old |
| SAMN04233251 | health_condition_detail | six healthy young volunteers | R3 | 0.70 | paper.fulltext.methods | six healthy young volunteers (20–30 years old |
| SAMN04233251 | latitude | 40.8200 | R1 | 0.90 | biosample.attribute:lat_lon | 40.82 N 111.65 E |
| SAMN04233251 | location_locality | Hohhot | R1 | 0.85 | biosample.attribute:geo_loc_name | China: Hohhot, Inner Mongolia |
| SAMN04233251 | location_region | Inner Mongolia | R1 | 0.85 | biosample.attribute:geo_loc_name | China: Hohhot, Inner Mongolia |
| SAMN04233251 | longitude | 111.6500 | R1 | 0.90 | biosample.attribute:lat_lon | 40.82 N 111.65 E |
| SAMN04233251 | sex | male | R2 | 0.75 | paper.supp.41522_2021_227_MOESM2_ESM.xlsx[Supplementary Table 6!Sex] | Subject=A; Sex=Male |
| SAMN04233251 | subject_id | A | R1 | 0.70 | sample.name_rule:alias | A_0_DNA |
| SAMN04233251 | timepoint_label | 0 | R1 | 0.70 | sample.name_rule:alias | A_0_DNA |
Sequencing
30 runs over 18 samples · mean 2.11 Gbp per run (median 1.62 Gbp, total 63.34 Gbp; 30 runs with a base count) · layout PAIRED 30 · platform ILLUMINA 30 · models Illumina HiSeq 2000 (30) · 73% of runs with a Sandpiper profile · first public 2017-11-07
Downloads
PRJNA300602.csv.gz (1.5 KB) · parquet (71.1 KB) — all 18 samples, every field with route and confidence · PRJNA300602_determinations.csv.gz (2.3 KB) — 198 evidence rows