Host Traits Impact the Outcome of Metagenomic Library Preparation From Dental Calculus Samples Across Diverse Mammals
Name
Molecular_Ecology_Resources_-_2025_-_Moraitou_-_Host_Traits_Impact_the_Outcome_of_Metagenomic_Library_Preparation_From.pdf
Description
visibility:open
Size
1.71 MB
Format
Adobe PDF
Checksum (CRC64NVME)
1zUF6O+y/RE=
Resource type
Journal article
Date published
September 1, 2025
Abstract
Dental calculus metagenomics has emerged as a valuable tool for studying the oral microbiomes of humans and a few select mammals. With increasing interest in wild animal microbiomes, it is important to understand how widely this material can be used across the mammalian tree of life, refine the related protocols and understand the expected outcomes and potential challenges of dental calculus sample processing. In this study, we significantly expand the breadth of studied host species, analysing laboratory and bioinformatics metadata of dental calculus samples from 32 ecologically and phylogenetically diverse mammals. Although we confirm the presence of an oral microbiome signature in the metagenomes of all studied mammals, the fraction recognised as oral varies between host species, possibly because of both biological differences and methodological biases. The overall success rate of dental calculus processing, from extractions to sequencing, was ~74%. Although input sample weight was positively associated with the number of produced library molecules, we identify a negative impact of enzymatic inhibition on the library preparation protocol. The inhibition was most prevalent in herbivores and frugivores and is likely diet†derived. In contrast, hosts with an animalivore diet posed fewer challenges during laboratory processing and yielded more DNA relative to sample weight. Our results translate into recommendations for future studies of dental calculus metagenomics from a variety of host species, identifying required sample amounts, and emphasising the utility of dental calculus in exploring the oral microbiome in relation to broader ecological and evolutionary questions.
Funder
| Funder name | Awards |
Svenska Forskningsrà¥det Formas | 2019†00275 |
Journal title
Molecular Ecology Resources
Publisher
Wiley
ISSN
1755-098X
eISSN
1755-0998
Date accepted
August 13, 2025
Official URL
Rights statement
In Copyright