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PRJNA755324 SRP333172

VE303 Live Biotherapeutic in Healthy Adults, Baltimore

Colonization of the Live Biotherapeutic Product VE303 and Modulation of the Microbiota and Metabolites in Healthy Volunteers

450 stool metagenome samples from healthy adult volunteers in Baltimore, USA, in an intervention study evaluating antibiotic pretreatment and colonization by the live biotherapeutic product VE303. machine-written summary

450 samples · 450 runs · US · Adult · 2022 · 6.32 Gbp / sample

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Sources

✓Sequence archive 3,728○Abstract / description○Full text○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	3,728 sample values (collection date, country, intervention, intervention detail, latitude, location locality, location region, longitude)
○ Abstract / description	read; no usable statement
○ Full text	read; no usable statement or table · PMC12736906, PMC12919772
○ 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

Interventions

intervention — arms not resolved

Antibiotic given as the study intervention (incl. eradication therapy Defined bacterial consortium / live biotherapeutic product design randomized_controlled_trial · population healthy_control · VE303 (8-strain LBP) dosed after vancomycin pretreatment, phase 1a/b

“VE303 strains optimally colonize HVs if dosed over multiple days after vancomycin” — abstract:35421353 (study level; per-sample arms are in the intervention column below)

Samples at a glance

1 sampling locations · 1 country

Age

adult450

Country

US450

Body site

primary450

Collected 2017–2019

Sequencing depth per sample · this project all projects

Sampling design and relatedness

longitudinal

32 of 32 people sampled more than once (450 samples; median 14, up to 17 per person) · follow-up median 12 mo (max 13 mo) · median interval between samples 7 d (time from collection dates). Schedule stated by the source: “Samples collected at Screening, Day -1, Day 0, Day 02, Day 04, Day 05, Day 06, Day 08, Day 10, Week 4, Week 6, Week 8, Week 12, Week 52 and other timepoints per subject”; stated follow-up 12 mo.

Each row is one person (32 shown); dots are samples at days since that person's first sample.

How longitudinal and relatedness information is derived

Community composition

Bacteroides 14.8%Phocaeicola 7.6%Prevotella 6.5%Klebsiella 4.2%Acidaminococcus 4.1%Roseburia 3.3%Alistipes 3.2%Faecalibacterium 2.8%Escherichia 2.1%Parabacteroides 2.1%Blautia_A 1.9%Akkermansia 1.8%not assigned to a genus 3.5%other genera 42.2%

Genera, mean relative abundance over 411 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
age_category	450	100%
country	450	100%	450
health_condition	0	0%
subject_id	450	100%	450
collection_date	450	100%	450
detailed_location	450	100%
latitude	450	100%	450
location_locality	450	100%	450
location_region	450	100%	450
longitude	450	100%	450
timepoint_label	450	100%	450
intervention	64	14%	64
intervention_detail	64	14%	64

Papers (3)

Colonization of the live biotherapeutic product VE303 and modulation of the microbiota and metabolites in healthy volunteers. 2022 PMID 35421353 own_data
<i>Flavonifractor plautii</i> as a Next-Generation Probiotic Enhancing the NGP F/P Index in a Simulated Human Gut Microbiome Ecosystem. 2025 PMID 41471117 PMC12736906 own_data
Metabolic modeling reveals determinants of prebiotic and probiotic treatment efficacy across multiple human intervention trials. 2026 PMID 41712536 PMC12919772 unsure

Details

Archive description

VE303 isolated bacterial genome sequences and stool metagenomes from the VE303 phase 1 healthy volunteer study conducted by Vedanta Biosciences, Inc.

How this project entered the registry

Classified as human gut / stool shotgun DNA metagenome of adult by sonnet_x2 with confidence 0.78. Assay shotgun_dna.

host study.description · “VE303 isolated bacterial genome sequences and stool metagenomes”
body site study.description · “stool metagenomes from the VE303 phase 1”
life stage study.title · “Healthy Volunteers”

Evidence examples (one per field × route)

sample	field	value	route	conf.	source	quote
SAMN20850198	collection_date	2017-12-01	R1	0.90	biosample.attribute:collection_date	2017-12-01
SAMN20850198	country	US	R1	0.90	sample.attr.geo_loc_name	USA:Baltimore
SAMN20850198	intervention	no_intervention	R1	0.80	biosample.attribute:Study Timepoint	Study Timepoint: Screening
SAMN20850198	intervention_detail	screening baseline before VE303 dosing	R1	0.80	biosample.attribute:Study Timepoint	Study Timepoint: Screening
SAMN20850198	latitude	39.2904	R1	0.90	biosample.attribute:lat_lon	39.2904 N 76.6122 W
SAMN20850198	location_locality	Baltimore	R1	0.85	biosample.attribute:geo_loc_name	USA:Baltimore
SAMN20850198	location_region	Maryland	R1	0.60	biosample.attribute:lat_lon	39.2904 N 76.6122 W
SAMN20850198	longitude	-76.6122	R1	0.90	biosample.attribute:lat_lon	39.2904 N 76.6122 W
SAMN20850198	subject_id	Cohort Vanco; Subject 5	R1	0.85	sample.attr.cohort_subject_id	Cohort Vanco; Subject 5
SAMN20850198	timepoint_label	Screening	R1	0.85	sample.attr.study_timepoint	Screening

Sequencing

450 runs over 450 samples · mean 6.84 Gbp per run (median 6.32 Gbp, total 3,078.37 Gbp; 450 runs with a base count) · layout PAIRED 450 · platform ILLUMINA 450 · models NextSeq 500 (450) · 91% of runs with a Sandpiper profile · first public 2022-04-14

Authors (48)

Dsouza M first · Menon R · Crossette E · Bhattarai SK · Schneider J · Kim YG · Reddy S · Caballero S · Felix C · Cornacchione L · Hendrickson J · Watson AR · Minot SS · Greenfield N · Schopf L · Szabady R · Patarroyo J · Smith W · Harrison P · Kuijper EJ · Kelly CP · Olle B · Bobilev D · Silber JL · Bucci V · Roberts B · Faith J · Norman JM last · Shuvo MSH first · Kim S · Jo S · Rahim MA · Barman I · Hossain MS · Yoon Y · Tajdozian H · Ahmed I · Atashi A · Jeong G · Suh HS · You J · Sung C · Kim M · Seo H · Song HY last · Quinn-Bohmann N first · Carr AV · Gibbons SM last

Downloads

PRJNA755324.csv.gz (13.5 KB) · parquet (87.5 KB) — all 450 samples, every field with route and confidence · PRJNA755324_determinations.csv.gz (23.3 KB) — 3,728 evidence rows

Samples (450 · every field this project has values for · hover a cell for its source)

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