The Cynomolgus Macaque Intestinal Mycobiome Is Dominated by the Kazachstania Genus and K. pintolopesii Species

Steve A. James; Aimee Parker; Catherine Purse; Andrea Telatin; David Baker; Sandy Holmes; James Durham; Simon G.P. Funnell; Simon R. Carding

doi:10.3390/jof8101054

The Cynomolgus Macaque Intestinal Mycobiome Is Dominated by the Kazachstania Genus and K. pintolopesii Species

Steve A. James, Aimee Parker, Catherine Purse, Andrea Telatin, David Baker, Sandy Holmes, James Durham, Simon G.P. Funnell, Simon R. Carding^*

^*Corresponding author for this work

UK Health Security Agency

Research output: Contribution to journal › Article › peer-review

6 Citations (Scopus)

Abstract

The cynomolgus macaque, Macaca fascicularis, is a non-human primate (NHP) widely used in biomedical research as its genetics, immunology and physiology are similar to those of humans. They may also be a useful model of the intestinal microbiome as their prokaryome resembles that of humans. However, beyond the prokaryome relatively little is known about other constituents of the macaque intestinal microbiome including the mycobiome. Here, we conducted a region-by-region taxonomic survey of the cynomolgus intestinal mycobiota, from duodenum to distal colon, of sixteen captive animals of differing age (from young to old). Using a high-throughput ITS1 amplicon sequencing-based approach, the cynomolgus gut mycobiome was dominated by fungi from the Ascomycota phylum. The budding yeast genus Kazachstania was most abundant, with the thermotolerant species K. pintolopesii highly prevalent, and the predominant species in both the small and large intestines. This is in marked contrast to humans, in which the intestinal mycobiota is characterised by other fungal genera including Candida and Saccharomyces, and Candida albicans. This study provides a comprehensive insight into the fungal communities present within the captive cynomolgus gut, and for the first time identifies K. pintolopesii as a candidate primate gut commensal.

Original language	English
Article number	1054
Journal	Journal of Fungi
Volume	8
Issue number	10
DOIs	https://doi.org/10.3390/jof8101054
Publication status	Published - Oct 2022

Bibliographical note

Funding Information:
The authors would like to thank Sumeet Tiwari from the Quadram Institute Bioscience for his rendering of . We thank all staff of the specialized UK Health Security Agency (UKHSA) primate facility at Porton and in particular, Caroline Cruttwell, for animal husbandry, and ensuring animal welfare and for maximizing the use of tissues that would otherwise have been discarded. UKHSA also acknowledges funding from the UK Department of Health for funding for the maintenance and operation of the primate facility. Bioinformatics analyses were performed on CLIMB-BIG-DATA computing infrastructure (funded by the UK’s Medical Research Council through grant MR/T030062/1) and the Norwich BioScience Institute Partnership “Research Computing” team (for High Performance Computing resources).

Funding Information:
The authors gratefully acknowledge the support of the Biotechnology and Biological Sciences Research Council (BBSRC), this research was funded by BBSRC Core Capability Grant BB/CCG1860/1, and BBSRC Institute Strategic Programme Grant Gut Microbes and Health (BB/R012490/1) and constituent project BBS/E/F/000PR10353. Additional support was provided by a BBSRC NRP DTP Studentship Grant BB/T008717/1 (C.P.).

Publisher Copyright:
© 2022 by the authors.

Keywords

Kazachstania pintolopesii
cynomolgus macaque
fungi
gastrointestinal tract
mycobiome
non-human primate
pathobiont
yeast

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10.3390/jof8101054

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title = "The Cynomolgus Macaque Intestinal Mycobiome Is Dominated by the Kazachstania Genus and K. pintolopesii Species",

abstract = "The cynomolgus macaque, Macaca fascicularis, is a non-human primate (NHP) widely used in biomedical research as its genetics, immunology and physiology are similar to those of humans. They may also be a useful model of the intestinal microbiome as their prokaryome resembles that of humans. However, beyond the prokaryome relatively little is known about other constituents of the macaque intestinal microbiome including the mycobiome. Here, we conducted a region-by-region taxonomic survey of the cynomolgus intestinal mycobiota, from duodenum to distal colon, of sixteen captive animals of differing age (from young to old). Using a high-throughput ITS1 amplicon sequencing-based approach, the cynomolgus gut mycobiome was dominated by fungi from the Ascomycota phylum. The budding yeast genus Kazachstania was most abundant, with the thermotolerant species K. pintolopesii highly prevalent, and the predominant species in both the small and large intestines. This is in marked contrast to humans, in which the intestinal mycobiota is characterised by other fungal genera including Candida and Saccharomyces, and Candida albicans. This study provides a comprehensive insight into the fungal communities present within the captive cynomolgus gut, and for the first time identifies K. pintolopesii as a candidate primate gut commensal.",

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author = "James, {Steve A.} and Aimee Parker and Catherine Purse and Andrea Telatin and David Baker and Sandy Holmes and James Durham and Funnell, {Simon G.P.} and Carding, {Simon R.}",

note = "Funding Information: The authors would like to thank Sumeet Tiwari from the Quadram Institute Bioscience for his rendering of . We thank all staff of the specialized UK Health Security Agency (UKHSA) primate facility at Porton and in particular, Caroline Cruttwell, for animal husbandry, and ensuring animal welfare and for maximizing the use of tissues that would otherwise have been discarded. UKHSA also acknowledges funding from the UK Department of Health for funding for the maintenance and operation of the primate facility. Bioinformatics analyses were performed on CLIMB-BIG-DATA computing infrastructure (funded by the UK{\textquoteright}s Medical Research Council through grant MR/T030062/1) and the Norwich BioScience Institute Partnership “Research Computing” team (for High Performance Computing resources). Funding Information: The authors gratefully acknowledge the support of the Biotechnology and Biological Sciences Research Council (BBSRC), this research was funded by BBSRC Core Capability Grant BB/CCG1860/1, and BBSRC Institute Strategic Programme Grant Gut Microbes and Health (BB/R012490/1) and constituent project BBS/E/F/000PR10353. Additional support was provided by a BBSRC NRP DTP Studentship Grant BB/T008717/1 (C.P.). Publisher Copyright: {\textcopyright} 2022 by the authors.",

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AU - Baker, David

AU - Holmes, Sandy

AU - Durham, James

AU - Funnell, Simon G.P.

AU - Carding, Simon R.

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N2 - The cynomolgus macaque, Macaca fascicularis, is a non-human primate (NHP) widely used in biomedical research as its genetics, immunology and physiology are similar to those of humans. They may also be a useful model of the intestinal microbiome as their prokaryome resembles that of humans. However, beyond the prokaryome relatively little is known about other constituents of the macaque intestinal microbiome including the mycobiome. Here, we conducted a region-by-region taxonomic survey of the cynomolgus intestinal mycobiota, from duodenum to distal colon, of sixteen captive animals of differing age (from young to old). Using a high-throughput ITS1 amplicon sequencing-based approach, the cynomolgus gut mycobiome was dominated by fungi from the Ascomycota phylum. The budding yeast genus Kazachstania was most abundant, with the thermotolerant species K. pintolopesii highly prevalent, and the predominant species in both the small and large intestines. This is in marked contrast to humans, in which the intestinal mycobiota is characterised by other fungal genera including Candida and Saccharomyces, and Candida albicans. This study provides a comprehensive insight into the fungal communities present within the captive cynomolgus gut, and for the first time identifies K. pintolopesii as a candidate primate gut commensal.

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The Cynomolgus Macaque Intestinal Mycobiome Is Dominated by the Kazachstania Genus and K. pintolopesii Species

Abstract

Bibliographical note

Keywords

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