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PRJNA705217 SRP308421

Metagenomes in post-infection IBS vs healthy controls

Gut metagenomes of patients with post-infection irritable bowel syndrome

50 fecal metagenome samples from Rochester, Minnesota, USA, comparing Campylobacter post-infection IBS patients (29) and healthy controls (21) in a case-control study, with proteolytic activity data per sample. machine-written summary

50 samples · 50 runs · US · Adult · 2022 · 1.34 Gbp / sample

One study deposited as 2 BioProjects (77 catalog samples together): PRJNA705217 · PRJNA705695 · show together

ENA BioProject Sample sheet Registry Download Flag an issue

Sources

✓Sequence archive 500○Abstract / description✓Full text 100○Supplementary tables–External resources–User contribution–Human verified

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

what each source gave

✓ Sequence archive	500 sample values (age, bmi, country, health condition, health condition detail, latitude, location locality, location region)
○ Abstract / description	read; no usable statement
✓ Full text	100 sample values (collection date, location site) · PMC11707044, PMC9081267
○ 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

Samples at a glance

1 sampling locations · 1 country

Age

adult43

elderly7

Condition

ibs29

healthy_control21

Sex

female36

male14

Country

US50

Body site

primary50

Sequencing depth per sample · this project all projects

Community composition

Bacteroides 15.1%Phocaeicola 11.0%Prevotella 7.7%Roseburia 5.5%Alistipes 5.2%Faecalibacterium 5.2%Blautia_A 3.3%Parabacteroides 2.4%Lachnospira 2.0%Ruminococcoides 1.4%Mediterraneibacter 1.4%Acetatifactor 1.2%not assigned to a genus 9.3%other genera 29.3%

Genera, mean relative abundance over 46 profiled gut samples of this project (Sandpiper SingleM profiles, GTDB R232; low-depth and non-metagenome profiles left out).

Field coverage

field	samples	coverage	R1	R3
age_category	50	100%
country	50	100%	50
health_condition	50	100%	50
subject_id	0	0%
age_at_collection_days	50	100%	50
bmi	50	100%	50
collection_date	50	100%		50
detailed_location	50	100%
health_condition_detail	50	100%	50
latitude	50	100%	50
location_locality	50	100%	50
location_region	50	100%	50
location_site	50	100%		50
longitude	50	100%	50
sex	50	100%	50

Papers (2)

Transcriptomic and Metabolomic Correlates of Increased Colonic Permeability in Postinfection Irritable Bowel Syndrome. 2025 PMID 38987012 PMC11707044 own_data
Gut microbial β-glucuronidases regulate host luminal proteases and are depleted in irritable bowel syndrome. 2022 PMID 35484230 PMC9081267 unsure

Details

Archive description

Gut metagenomes of patients with post-infection irritable bowel syndrome, as well as healthy volunteers, with information about the proteolytic activity displayed by each sample.

How this project entered the registry

Classified as human gut / stool shotgun DNA metagenome of adult and elderly by deterministic_prior with confidence 0.90. Assay shotgun_dna.

host external_curation.infant_catalog · “infant triage reason_code age_adult_only”
body site study.title · “Gut metagenomes of patients”
body site study.description · “Gut metagenomes of patients”
life stage external_curation.infant_catalog · “infant triage reason_code age_adult_only”
life stage study.description · “well as healthy volunteers , with information”
life stage sample.attr.host_age · “65 (n=7/50)”

Evidence examples (one per field × route)

sample	field	value	route	conf.	source	quote
SAMN18078977	age_at_collection_days	16791.5	R1	0.85	sample.attr.host_age	46
SAMN18078977	bmi	39.6	R1	0.90	sample.attr.host_body_mass_index	39.6
SAMN18078977	collection_date	2011-11/2019-09	R3	0.70	paper.fulltext.methods	recruiting individuals from November 1, 2011, to September 30, 2019
SAMN18078977	country	US	R1	0.90	sample.attr.geo_loc_name	USA:Rochester,Minnesota
SAMN18078977	health_condition	ibs	R1	0.85	biosample.attribute:Phenotype	PIIBS
SAMN18078981	health_condition	healthy_control	R1	0.70	biosample_attr	HV
SAMN18078977	health_condition_detail	PIIBS	R1	0.90	sample.attr.phenotype	PIIBS
SAMN18078977	latitude	44.0234	R1	0.90	biosample.attribute:lat_lon	44.0234 N 92.46295 W
SAMN18078977	location_locality	Rochester	R1	0.85	biosample.attribute:geo_loc_name	USA:Rochester,Minnesota
SAMN18078977	location_region	Minnesota	R1	0.85	biosample.attribute:geo_loc_name	USA:Rochester,Minnesota
SAMN18078977	location_site	Mayo Clinic	R3	0.70	paper.fulltext.methods	invited for recruitment at Mayo Clinic where the study physician
SAMN18078977	longitude	-92.4630	R1	0.90	biosample.attribute:lat_lon	44.0234 N 92.46295 W
SAMN18078977	sex	female	R1	0.90	sample.attr.host_sex	female

Sequencing

50 runs over 50 samples · mean 1.37 Gbp per run (median 1.34 Gbp, total 68.26 Gbp; 50 runs with a base count) · layout PAIRED 50 · platform ILLUMINA 50 · models Illumina HiSeq 4000 (50) · 92% of runs with a Sandpiper profile · first public 2022-03-03

Authors (33)

Edwinson AL first · Yang L · Peters S · Hanning N · Jeraldo P · Jagtap P · Simpson JB · Yang TY · Kumar P · Mehta S · Nair A · Breen-Lyles M · Chikkamenahalli L · Graham RP · De Winter B · Patel R · Dasari S · Kashyap P · Griffin T · Chen J · Farrugia G · Redinbo MR · Grover M last · Caceres Lessa AY first · Edwinson A · Sato H · Berumen A · Byale A · Ryks M · Keehn A · Camilleri M · Decuir M · Smith K

Downloads

PRJNA705217.csv.gz (2.6 KB) · parquet (73.2 KB) — all 50 samples, every field with route and confidence · PRJNA705217_determinations.csv.gz (4.8 KB) — 600 evidence rows

Samples (50 · every field this project has values for · hover a cell for its source)

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