Documenting the diversity of the Namibian Ju|’hoansi intestinal microbiome
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Date
Authors
Truter, Mia
Koopman, Jessica E.
Jordaan, Karen
Tsamkxao, Leon Oma
Cowan, Don A.
Underdown, Simon J.
Ramond, Jean-Baptiste
Rifkin, R.F. (Riaan)
Journal Title
Journal ISSN
Volume Title
Publisher
Cell Press
Abstract
We investigate the bacterial and fungal composition and functionality of the Ju|’hoansi intestinal microbiome (IM). The Juǀʼhoansi are a hunter-gatherer community residing in northeastern Namibia. They formerly subsisted by hunting and gathering but have been increasingly exposed to industrial dietary sources, medicines, and lifestyle features. They present an opportunity to study the evolution of the human IM in situ, from a predominantly hunter-gatherer to an increasingly Western urban-forager-farmer lifestyle. Their bacterial IM resembles that of typical hunter-gatherers, being enriched for genera such as Prevotella, Blautia, Faecalibacterium, Succinivibrio, and Treponema. Fungal IM inhabitants include animal pathogens and plant saprotrophs such as Fusarium, Issatchenkia, and Panellus. Our results suggest that diet and culture exert a greater influence on Ju|’hoansi IM composition than age, self-identified biological sex, and medical history. The Ju|’hoansi exhibit a unique core IM composition that diverges from the core IMs of other populations.
Description
DATA AND CODE AVAILABILITY : •
All raw sequencing data have been uploaded to the NCBI under accession number PRJNA1029329.
•
This paper does not report the original code.
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Any additional information required to reanalyze the data reported in this paper is available from the lead contact upon request.
SUPPLEMENT MATERIAL : FIGURES S1–S4 and TABLE S4.
TABLE S1. List of soft-core bacterial genera within the Ju|’hoansi villages, detected at a prevalence of 50% and a detection threshold of 0.1%, related to Figure 4.
TABLE 2. List of soft-core fungal genera within the Ju|’hoansi villages, detected at a prevalence of 50% and a detection threshold of 0.1%, related to Figure 4.
TABLE S3. Fungal functional profiling using FUNGuild, related to the results section “metabolic enrichment of the Ju|’hoansi IM”.
TABLE S5. Bacterial core microbiome of the Ju|’hoansi, American, Papua New Guinea, BaAka, and Bantu populations, detected at 50% prevalence and a detection threshold of 0.1%, related to Figure 6.
SUPPLEMENT MATERIAL : FIGURES S1–S4 and TABLE S4.
TABLE S1. List of soft-core bacterial genera within the Ju|’hoansi villages, detected at a prevalence of 50% and a detection threshold of 0.1%, related to Figure 4.
TABLE 2. List of soft-core fungal genera within the Ju|’hoansi villages, detected at a prevalence of 50% and a detection threshold of 0.1%, related to Figure 4.
TABLE S3. Fungal functional profiling using FUNGuild, related to the results section “metabolic enrichment of the Ju|’hoansi IM”.
TABLE S5. Bacterial core microbiome of the Ju|’hoansi, American, Papua New Guinea, BaAka, and Bantu populations, detected at 50% prevalence and a detection threshold of 0.1%, related to Figure 6.
Keywords
Intestinal microbiome, Hunter-gatherer, Kalahari, Westernization
Sustainable Development Goals
None
Citation
Truter, M., Koopman, J.E., Jordaan, K. et al. 2024, 'Documenting the diversity of the Namibian Ju|’hoansi intestinal microbiome', Cell Reports, vol. 43, no. 2, art. 113690, pp. , doi : 10.1016/j.celrep.2024.113690.