Expanding the human gut microbiome atlas of Africa
成果类型：
Article
署名作者：
Maghini, Dylan G.; Oduaran, Ovokeraye H.; Olubayo, Luicer A. Ingasia; Cook, Jane A.; Smyth, Natalie; Mathema, Theophilous; Belger, Carl W.; Agongo, Godfred; Boua, Palwende R.; Choma, Solomon S. R.; Gomez-Olive, F. Xavier; Kisiangani, Isaac; Mashaba, Given R.; Micklesfield, Lisa; Mohamed, Shukri F.; Nonterah, Engelbert A.; Norris, Shane; Sorgho, Hermann; Tollman, Stephen; Wafawanaka, Floidy; Tluway, Furahini; Ramsay, Michele; Wirbel, Jakob; Bhatt, Ami S.; Hazelhurst, Scott
署名单位：
University of Witwatersrand; Stanford University; Stanford University; University of Witwatersrand; Navrongo Health Research Center; University of Limpopo; University of Witwatersrand; African Population & Health Research Centre; University of Witwatersrand; University of Southampton; Stanford University; University of Witwatersrand
刊物名称：
Nature
ISSN/ISSBN：
0028-1717
DOI：
10.1038/s41586-024-08485-8
发表日期：
2025-02-20
关键词：
摘要：
Population studies provide insights into the interplay between the gut microbiome and geographical, lifestyle, genetic and environmental factors. However, low- and middle-income countries, in which approximately 84% of the world's population lives1, are not equitably represented in large-scale gut microbiome research2, 3-4. Here we present the AWI-Gen 2 Microbiome Project, a cross-sectional gut microbiome study sampling 1,801 women from Burkina Faso, Ghana, Kenya and South Africa. By engaging with communities that range from rural and horticultural to post-industrial and urban informal settlements, we capture a far greater breadth of the world's population diversity. Using shotgun metagenomic sequencing, we identify taxa with geographic and lifestyle associations, including Treponema and Cryptobacteroides species loss and Bifidobacterium species gain in urban populations. We uncover 1,005 bacterial metagenome-assembled genomes, and we identify antibiotic susceptibility as a factor that might drive Treponema succinifaciens absence in urban populations. Finally, we find an HIV infection signature defined by several taxa not previously associated with HIV, including Dysosmobacter welbionis and Enterocloster sp. This study represents the largest population-representative survey of gut metagenomes of African individuals so far, and paired with extensive clinical biomarkers and demographic data, provides extensive opportunity for microbiome-related discovery.