Multi-proxy analyses of a mid-15th century Middle Iron Age Bantu-speaker palaeo-faecal specimen elucidates the configuration of the 'ancestral' sub-Saharan African intestinal microbiome

Research output: Contribution to journal › Journal article › Research › peer-review

Standard

Multi-proxy analyses of a mid-15th century Middle Iron Age Bantu-speaker palaeo-faecal specimen elucidates the configuration of the 'ancestral' sub-Saharan African intestinal microbiome. / Rifkin, Riaan F.; Vikram, Surendra; Ramond, Jean Baptiste; Rey-Iglesia, Alba; Brand, Tina B.; Porraz, Guillaume; Val, Aurore; Hall, Grant; Woodborne, Stephan; Le Bailly, Matthieu; Potgieter, Marnie; Underdown, Simon J.; Koopman, Jessica E.; Cowan, Don A.; Van De Peer, Yves; Willerslev, Eske; Hansen, Anders J.

In: Microbiome, Vol. 8, No. 1, 62, 06.05.2020.

Research output: Contribution to journal › Journal article › Research › peer-review

Harvard

Rifkin, RF, Vikram, S, Ramond, JB, Rey-Iglesia, A, Brand, TB, Porraz, G, Val, A, Hall, G, Woodborne, S, Le Bailly, M, Potgieter, M, Underdown, SJ, Koopman, JE, Cowan, DA, Van De Peer, Y, Willerslev, E & Hansen, AJ 2020, 'Multi-proxy analyses of a mid-15th century Middle Iron Age Bantu-speaker palaeo-faecal specimen elucidates the configuration of the 'ancestral' sub-Saharan African intestinal microbiome', Microbiome, vol. 8, no. 1, 62. https://doi.org/10.1186/s40168-020-00832-x

APA

Rifkin, R. F., Vikram, S., Ramond, J. B., Rey-Iglesia, A., Brand, T. B., Porraz, G., Val, A., Hall, G., Woodborne, S., Le Bailly, M., Potgieter, M., Underdown, S. J., Koopman, J. E., Cowan, D. A., Van De Peer, Y., Willerslev, E., & Hansen, A. J. (2020). Multi-proxy analyses of a mid-15th century Middle Iron Age Bantu-speaker palaeo-faecal specimen elucidates the configuration of the 'ancestral' sub-Saharan African intestinal microbiome. Microbiome, 8(1), [62]. https://doi.org/10.1186/s40168-020-00832-x

Vancouver

Rifkin RF, Vikram S, Ramond JB, Rey-Iglesia A, Brand TB, Porraz G et al. Multi-proxy analyses of a mid-15th century Middle Iron Age Bantu-speaker palaeo-faecal specimen elucidates the configuration of the 'ancestral' sub-Saharan African intestinal microbiome. Microbiome. 2020 May 6;8(1). 62. https://doi.org/10.1186/s40168-020-00832-x

Author

Rifkin, Riaan F. ; Vikram, Surendra ; Ramond, Jean Baptiste ; Rey-Iglesia, Alba ; Brand, Tina B. ; Porraz, Guillaume ; Val, Aurore ; Hall, Grant ; Woodborne, Stephan ; Le Bailly, Matthieu ; Potgieter, Marnie ; Underdown, Simon J. ; Koopman, Jessica E. ; Cowan, Don A. ; Van De Peer, Yves ; Willerslev, Eske ; Hansen, Anders J. / Multi-proxy analyses of a mid-15th century Middle Iron Age Bantu-speaker palaeo-faecal specimen elucidates the configuration of the 'ancestral' sub-Saharan African intestinal microbiome. In: Microbiome. 2020 ; Vol. 8, No. 1.

Bibtex

@article{def43a0e928f4c7693c612cbbae7bb70,
title = "Multi-proxy analyses of a mid-15th century Middle Iron Age Bantu-speaker palaeo-faecal specimen elucidates the configuration of the 'ancestral' sub-Saharan African intestinal microbiome",
abstract = "Background: The archaeological incidence of ancient human faecal material provides a rare opportunity to explore the taxonomic composition and metabolic capacity of the ancestral human intestinal microbiome (IM). Here, we report the results of the shotgun metagenomic analyses of an ancient South African palaeo-faecal specimen. Methods: Following the recovery of a single desiccated palaeo-faecal specimen from Bushman Rock Shelter in Limpopo Province, South Africa, we applied a multi-proxy analytical protocol to the sample. The extraction of ancient DNA from the specimen and its subsequent shotgun metagenomic sequencing facilitated the taxonomic and metabolic characterisation of this ancient human IM. Results: Our results indicate that the distal IM of the Neolithic 'Middle Iron Age' (c. AD 1460) Bantu-speaking individual exhibits features indicative of a largely mixed forager-agro-pastoralist diet. Subsequent comparison with the IMs of the Tyrolean Iceman ({\"O}tzi) and contemporary Hadza hunter-gatherers, Malawian agro-pastoralists and Italians reveals that this IM precedes recent adaptation to 'Western' diets, including the consumption of coffee, tea, chocolate, citrus and soy, and the use of antibiotics, analgesics and also exposure to various toxic environmental pollutants. Conclusions: Our analyses reveal some of the causes and means by which current human IMs are likely to have responded to recent dietary changes, prescription medications and environmental pollutants, providing rare insight into human IM evolution following the advent of the Neolithic c. 12,000 years ago. [MediaObject not available: see fulltext.]",
keywords = "Ancient DNA, Human evolution, Intestinal microbiome, Metabolic capacity, Molecular ecology, Taxonomic composition",
author = "Rifkin, {Riaan F.} and Surendra Vikram and Ramond, {Jean Baptiste} and Alba Rey-Iglesia and Brand, {Tina B.} and Guillaume Porraz and Aurore Val and Grant Hall and Stephan Woodborne and {Le Bailly}, Matthieu and Marnie Potgieter and Underdown, {Simon J.} and Koopman, {Jessica E.} and Cowan, {Don A.} and {Van De Peer}, Yves and Eske Willerslev and Hansen, {Anders J.}",
year = "2020",
month = may,
day = "6",
doi = "10.1186/s40168-020-00832-x",
language = "English",
volume = "8",
journal = "Microbiome",
issn = "2049-2618",
publisher = "BioMed Central Ltd.",
number = "1",

}

RIS

TY - JOUR

T1 - Multi-proxy analyses of a mid-15th century Middle Iron Age Bantu-speaker palaeo-faecal specimen elucidates the configuration of the 'ancestral' sub-Saharan African intestinal microbiome

AU - Rifkin, Riaan F.

AU - Vikram, Surendra

AU - Ramond, Jean Baptiste

AU - Rey-Iglesia, Alba

AU - Brand, Tina B.

AU - Porraz, Guillaume

AU - Val, Aurore

AU - Hall, Grant

AU - Woodborne, Stephan

AU - Le Bailly, Matthieu

AU - Potgieter, Marnie

AU - Underdown, Simon J.

AU - Koopman, Jessica E.

AU - Cowan, Don A.

AU - Van De Peer, Yves

AU - Willerslev, Eske

AU - Hansen, Anders J.

PY - 2020/5/6

Y1 - 2020/5/6

N2 - Background: The archaeological incidence of ancient human faecal material provides a rare opportunity to explore the taxonomic composition and metabolic capacity of the ancestral human intestinal microbiome (IM). Here, we report the results of the shotgun metagenomic analyses of an ancient South African palaeo-faecal specimen. Methods: Following the recovery of a single desiccated palaeo-faecal specimen from Bushman Rock Shelter in Limpopo Province, South Africa, we applied a multi-proxy analytical protocol to the sample. The extraction of ancient DNA from the specimen and its subsequent shotgun metagenomic sequencing facilitated the taxonomic and metabolic characterisation of this ancient human IM. Results: Our results indicate that the distal IM of the Neolithic 'Middle Iron Age' (c. AD 1460) Bantu-speaking individual exhibits features indicative of a largely mixed forager-agro-pastoralist diet. Subsequent comparison with the IMs of the Tyrolean Iceman (Ötzi) and contemporary Hadza hunter-gatherers, Malawian agro-pastoralists and Italians reveals that this IM precedes recent adaptation to 'Western' diets, including the consumption of coffee, tea, chocolate, citrus and soy, and the use of antibiotics, analgesics and also exposure to various toxic environmental pollutants. Conclusions: Our analyses reveal some of the causes and means by which current human IMs are likely to have responded to recent dietary changes, prescription medications and environmental pollutants, providing rare insight into human IM evolution following the advent of the Neolithic c. 12,000 years ago. [MediaObject not available: see fulltext.]

AB - Background: The archaeological incidence of ancient human faecal material provides a rare opportunity to explore the taxonomic composition and metabolic capacity of the ancestral human intestinal microbiome (IM). Here, we report the results of the shotgun metagenomic analyses of an ancient South African palaeo-faecal specimen. Methods: Following the recovery of a single desiccated palaeo-faecal specimen from Bushman Rock Shelter in Limpopo Province, South Africa, we applied a multi-proxy analytical protocol to the sample. The extraction of ancient DNA from the specimen and its subsequent shotgun metagenomic sequencing facilitated the taxonomic and metabolic characterisation of this ancient human IM. Results: Our results indicate that the distal IM of the Neolithic 'Middle Iron Age' (c. AD 1460) Bantu-speaking individual exhibits features indicative of a largely mixed forager-agro-pastoralist diet. Subsequent comparison with the IMs of the Tyrolean Iceman (Ötzi) and contemporary Hadza hunter-gatherers, Malawian agro-pastoralists and Italians reveals that this IM precedes recent adaptation to 'Western' diets, including the consumption of coffee, tea, chocolate, citrus and soy, and the use of antibiotics, analgesics and also exposure to various toxic environmental pollutants. Conclusions: Our analyses reveal some of the causes and means by which current human IMs are likely to have responded to recent dietary changes, prescription medications and environmental pollutants, providing rare insight into human IM evolution following the advent of the Neolithic c. 12,000 years ago. [MediaObject not available: see fulltext.]

KW - Ancient DNA

KW - Human evolution

KW - Intestinal microbiome

KW - Metabolic capacity

KW - Molecular ecology

KW - Taxonomic composition

U2 - 10.1186/s40168-020-00832-x

DO - 10.1186/s40168-020-00832-x

M3 - Journal article

C2 - 32375874

AN - SCOPUS:85084328125

VL - 8

JO - Microbiome

JF - Microbiome

SN - 2049-2618

IS - 1

M1 - 62

ER -

ID: 243248267