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PRJNA850529 SRP382366

Gut mycobiome and host factors in Polish adults

Host factors associated with gut mycobiome structure

923 fecal samples from participants in Poland (mostly adults, with adolescents and elderly) were profiled by whole-metagenome sequencing to examine associations between gut mycobiota and 53 host-related factors, in a cross-sectional design. machine-written summary

923 samples · 923 runs · PL · Adult · 2023 · 2.34 Gbp / sample · cohort Gut Mycobiota Dysbiosis Is Associated with Melanom

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Sources

✓Sequence archive 4,615○Abstract / description○Full text✓Supplementary tables 5,600–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	4,615 sample values (collection date, country, latitude, location region, longitude)
○ Abstract / description	read; no usable statement
○ Full text	read; no usable statement or table · PMC10134842, PMC10985481
✓ Supplementary tables	5,600 sample values (age, antibiotic exposure, bmi, diet, health condition, health condition detail, medication, 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

Samples at a glance

1 sampling locations · 1 country

Age

adult829

adolescent61

elderly33

Condition

allergy_or_atopy129

cardiometabolic_other66

autoimmune_inflammatory40

ibs21

pregnancy_postpartum6

ibd_unspecified4

+2 more

Sex

male484

female438

Country

PL923

Body site

primary923

Sequencing depth per sample · this project all projects

Community composition

Roseburia 10.0%Prevotella 6.0%Ruminococcoides 5.3%Blautia_A 3.3%Gemmiger 2.6%Fusicatenibacter 2.3%Phocaeicola 1.7%Coprococcus 1.7%Acetatifactor 1.7%Fimenecus 1.7%Vescimonas 1.4%Ruminococcus_C 1.4%not assigned to a genus 12.7%other genera 48.3%

Genera, mean relative abundance over 815 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	R2
age_category	923	100%
country	923	100%	923
health_condition	270	29%		270
subject_id	922	100%		922
collection_date	923	100%	923
detailed_location	923	100%
latitude	923	100%	923
location_region	923	100%	923
longitude	923	100%	923
sex	922	100%		922
age_at_collection_days	915	99%		915
smoking_status	896	97%		896
diet	872	94%		872
medication	295	32%		295
health_condition_detail	270	29%		270
bmi	133	14%		133
antibiotic_exposure	105	11%		105

Papers (2)

Host Factors Associated with Gut Mycobiome Structure. 2023 PMID 36786595 PMC10134842 own_data
Gut Mycobiota Dysbiosis Is Associated with Melanoma and Response to Anti-PD-1 Therapy. 2024 PMID 38315788 PMC10985481 unsure

Details

Archive description

The study included 923 participants. Fecal DNA samples were analyzed by next-generation sequencing. Subsequently, fungi taxonomic profiles were determined and accompanied by computational and statistical analyses of the association with 53 host-related factors.</p><p>Fungal communities were characterized by a high prevalence of Saccharomyces, Candida, and Sporisorium. Ten factors were found to correlate significantly with the overall mycobiome variation. Most were dietary-related, including the consumption of chips, meat, sodas, sweetening, processed food, and alcohol, followed by age and marital status. Differences in alpha and/or beta diversity were also reported for other factors such as BMI, job type, autoimmunological diseases, and probiotics. Differential abundance analysis revealed fungal species that exhibited different patterns of changes under specific conditions.

How this project entered the registry

Classified as human gut / stool shotgun DNA metagenome of adult 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 · “factors associated with gut mycobiome structure”
body site study.description · “included 923 participants. Fecal DNA samples were”
life stage external_curation.infant_catalog · “infant triage reason_code age_adult_only”

Evidence examples (one per field × route)

sample	field	value	route	conf.	source	quote
SAMN29182993	age_at_collection_days	11688	R2	0.85	paper.supp.msystems.00986-22-s0001.xlsx[Sheet1!age]	32
SAMN29182995	antibiotic_exposure	yes	R2	0.85	paper.supp.msystems.00986-22-s0001.xlsx[Sheet1!antibiotics]	MMP_0372 \| antibiotics: recently
SAMN29182996	bmi	27.17	R2	0.85	paper.supp.cir-23-0592_supplementary_table_1_suppst1.xlsx[Metadata!BMI]	MMP_0004 \| BMI: 27.1664479106254
SAMN29182993	collection_date	2019	R1	0.90	biosample.attribute:collection_date	2019
SAMN29182993	country	PL	R1	0.90	sample.attr.geo_loc_name	Poland
SAMN29182993	diet	omnivore	R2	0.85	paper.supp.msystems.00986-22-s0001.xlsx[Sheet1!diet]	GMP_04201 \| diet: diverse
SAMN29182994	health_condition	allergy_or_atopy	R2	0.85	paper.supp.msystems.00986-22-s0001.xlsx[Sheet1!disease_allergy]	GMP_04202 \| disease_allergy: TRUE
SAMN29182994	health_condition_detail	disease_allergy=TRUE	R2	0.85	paper.supp.msystems.00986-22-s0001.xlsx[Sheet1!disease_allergy]	GMP_04202 \| disease_allergy: TRUE
SAMN29182993	latitude	52.4064	R1	0.90	biosample.attribute:lat_lon	52.4064 N 16.9252 E
SAMN29182993	location_region	Greater Poland Voivodeship	R1	0.60	biosample.attribute:lat_lon	52.4064 N 16.9252 E
SAMN29182993	longitude	16.9252	R1	0.90	biosample.attribute:lat_lon	52.4064 N 16.9252 E
SAMN29182993	medication	probiotic_or_prebiotic	R2	0.85	paper.supp.msystems.00986-22-s0001.xlsx[Sheet1!probiotics]	GMP_04201 \| probiotics: seasonal
SAMN29182993	sex	male	R2	0.85	paper.supp.msystems.00986-22-s0001.xlsx[Sheet1!sex]	male
SAMN29182993	smoking_status	never	R2	0.85	paper.supp.msystems.00986-22-s0001.xlsx[Sheet1!smoking]	GMP_04201 \| smoking: no
SAMN29182993	subject_id	722	R2	0.80	paper.supp.msystems.00986-22-s0001.xlsx[Sheet1!id]	id 722 \| code GMP_04201

Sequencing

923 runs over 923 samples · mean 2.32 Gbp per run (median 2.34 Gbp, total 2,144.81 Gbp; 923 runs with a base count) · layout PAIRED 923 · platform ILLUMINA 923 · models NextSeq 550 (923) · 88% of runs with a Sandpiper profile · first public 2023-01-01

Authors (13)

Szóstak N first · Handschuh L · Samelak-Czajka A · Tomela K · Schmidt M · Pruss · Milanowska-Zabel K · Kozlowski P · Philips A last · Pietrzak B · Galus · Mackiewicz J · Mackiewicz A

Downloads

PRJNA850529.csv.gz (30.4 KB) · parquet (113.1 KB) — all 923 samples, every field with route and confidence · PRJNA850529_determinations.csv.gz (92.5 KB) — 10,215 evidence rows

Samples (923 · every field this project has values for · hover a cell for its source)

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