Description

Helminth colonization has been associated with altered composition of the gut microbiota, such as increases in Clostridia. However, it is unclear if specific bacterial species display differential effects on helminth reproduction. This study isolated and sequenced the genome of 13 Clostridia from the Orang Asli, an indigenous population in Malaysia with a high prevalence of helminth infections. Metagenomic analysis of 650 fecal samples from urban and rural Malaysians confirm the prevalence of species corresponding to these isolates. This dataset includes raw sequencing and assembled whole genome sequencing data as well as supplementary data tied to the publication. The supplementary data contains data on sample characteristics of the Orang Asli cohort from Pangsun village, GTDB-Tk taxonomy, metabolic pathways, gene orthologs, 47 closest relatives, and peptostreptococcaceae.

Subject of Study
Subject Domain
Population Age
Child (2 years - 12 years)
Adolescent (13 years - 18 years)
Adult (19 years - 64 years)
Keywords

Access

Restrictions
Free to All
Instructions
Raw sequences and assembled whole genome sequences reported in this study have been deposited to NCBI's BioProject. All other data are provided in the paper on PubMed Central (PMC) under Supplementary Materials.
Access via BioProject

Sequencing data
Accession #: PRJNA800461

Access via PMC

Other data
Accession #: PMC9790084

Associated Publications
Data Type
Equipment Used
Agilent 2200 TapeStation System
Eppendorf Centrifuge 5415 D
Nikon Eclipse Ti2-E
Qubit Fluorometer
Zeiss Primovert Microscope
Software Used
Bowtie2
DFAST v1.2.13
EzBioCloud
FastANI v1.32
FastQC
FastTree v1.11.2
Flye v2.8.1
ggplot2 v3.3.5
GraphPad Prism
GTDB-Tk v1.5.0
iTOL v5
KEGG
KneadData v0.7.4
KofamScan v1.3.0
KrakenUniq
NIS-Elements
OrthoFinder v2.5.4
R v4.1.1
SMRT Link
UMAP v0.2.7
Grant Support
HHMI Faculty Scholars/Howard Hughes Medical Institute
Crohn’s & Colitis Foundation/Crohn’s & Colitis Foundation
Kenneth Rainin Foundation/Kenneth Rainin Foundation
Judith & Stewart Colton Center for Autoimmunity/NYU Langone Health
Antimicrobial-Resistant Pathogens Program/NYU Langone Health
PacBio Local SMRT Grant/PacBio
Division of Intramural Research/National Institute of Allergy and Infectious Diseases