Gut microbiota and COVID-19 severity in Indian adults
84 gut microbiome samples from adult patients in India, studying associations between gut microbial dysbiosis and COVID-19 disease severity, treatment response, and outcomes. machine-written summary
84 samples · 84 runs · IN · Adult · 2024 · 0.13 Gbp / sample
Checked this project's papers and archive records yourself? Mark it human-verified.
what each source gave
| ✓ Sequence archive | 168 sample values (collection date, country) |
| ✓ Abstract / description | 252 sample values (health condition, health condition detail, location region) |
| ✓ Full text | 168 sample values (location locality, location site) · PMC10170741, PMC11596909, PMC12471913 |
| ○ Supplementary tables | files read; no table could be matched to the samples |
| – 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 |
No Sandpiper profile for this project's samples yet.
| field | samples | coverage | R1 | R2 | R3 | R4 |
|---|---|---|---|---|---|---|
| age_category | 84 | 100% | ||||
| country | 84 | 100% | 84 | |||
| health_condition | 84 | 100% | 84 | |||
| subject_id | 0 | 0% | ||||
| collection_date | 84 | 100% | 84 | |||
| detailed_location | 84 | 100% | ||||
| health_condition_detail | 84 | 100% | 84 | |||
| location_locality | 84 | 100% | 84 | |||
| location_region | 84 | 100% | 84 | |||
| location_site | 84 | 100% | 84 |
- In Silico Analysis of Probiotic Bacteria Changes Across COVID-19 Severity Stages. 2024 PMID 39597740 PMC11596909 cites_accession
- Changes in Probiotic Lachnospiraceae Genera Across Different Stages of COVID-19: A Meta-Analysis of 16S rRNA Microbial Data. 2025 PMID 41011393 PMC12471913 cites_accession
- Association of gut microbial dysbiosis with disease severity, response to therapy and disease outcomes in Indian patients with COVID-19. 2023 PMID 37161621 PMC10170741 own_data
Archive description
Severe coronavirus disease 2019 (COVID-19) is associated with a systemic hyper-</p><p>inflammation. Healthy immune homeostasis is known to be maintained by gut commensals, but data on association of these microbes with COVID-19 disease severity is sparse, especially from India. We analysed faecal microbial diversity and abundances in a cohort of Indian COVID-19 patients to identify key signatures in the gut microbial ecology in patients withsevereCOVID-19 disease as well</p><p>as in response to convalescent plasma therapy (CPT).
How this project entered the registry
Classified as human gut / stool shotgun DNA metagenome of adult by sonnet_x2 with confidence 0.68. Assay shotgun_dna.
- host run.host_tax_id · “9606”
- host run.scientific_name · “human gut metagenome”
- body site run.scientific_name · “human gut metagenome”
- body site study.title · “Association of gut microbial dysbiosis”
- life stage study.title · “Indian patients with COVID-19”
Evidence examples (one per field × route)
| sample | field | value | route | conf. | source | quote |
|---|---|---|---|---|---|---|
| SAMN31508929 | collection_date | 2020-06 | R1 | 0.85 | biosample.attribute:collection_date | 2020-06 |
| SAMN31508929 | country | IN | R1 | 0.90 | sample.attr.geo_loc_name | India |
| SAMN31508929 | health_condition | other_infection | R4 | 0.50 | paper.abstract | The composition of the gut microbiome was characterized using 16Sr RNA gene sequences of genomic DNA extracted from faecal samples of 52 COVID-19 patients. |
| SAMN31508929 | health_condition_detail | COVID-19 (mild and severe disease) | R4 | 0.50 | paper.abstract | The composition of the gut microbiome was characterized using 16Sr RNA gene sequences of genomic DNA extracted from faecal samples of 52 COVID-19 patients. |
| SAMN31508929 | location_locality | Kolkata | R3 | 0.70 | paper.body.methods | ID & BG Hospital (IDBGH/Ethics/2429) and CSIR-Indian Institute of Chemical Biology, Kolkata, India, in accordance with the Helsinki Declaration. |
| SAMN31508929 | location_region | India | R4 | 0.50 | paper.abstract | gut microbial ecology in patients with severe COVID-19 |
| SAMN31508929 | location_site | ID & BG Hospital | R3 | 0.70 | paper.body.methods | ID & BG Hospital (IDBGH/Ethics/2429) and CSIR-Indian Institute of Chemical Biology, Kolkata, India, in accordance with the Helsinki Declaration. |
Sequencing
84 runs over 84 samples · mean 0.13 Gbp per run (median 0.13 Gbp, total 10.86 Gbp; 84 runs with a base count) · layout PAIRED 84 · platform ILLUMINA 84 · models Illumina MiSeq (84) · 0% of runs with a Sandpiper profile · first public 2024-01-28
Authors (0)
No author record.
Downloads
PRJNA895415.csv.gz (2.8 KB) · parquet (73.3 KB) — all 84 samples, every field with route and confidence · PRJNA895415_determinations.csv.gz (3.9 KB) — 588 evidence rows