Data from: An innovative tool for non-invasive contact-free pathogen monitoring in animal saliva
Data files
Jul 06, 2026 version files 4.19 GB
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README.md
2.03 KB
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RR1.pass.fastq.gz
2.90 GB
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RR3_pass-20260225T181306Z-1-001.zip
1.29 GB
Abstract
Habitat fragmentation, climate change, poaching, human-wildlife conflicts, and infectious diseases are the main threats to biodiversity conservation. They alter host-pathogen dynamics, reduce viable conservation areas, and promote genetic isolation, resulting in physiological stress among animal populations. Moreover, increased proximity between domestic and wild animals further facilitates disease spillovers, exposing naive host species and ecosystems to new pathogens. Of the more than 200 known zoonotic diseases, approximately 60% originate from animals, contributing significantly to the global infectious disease burden. Here, we describe the development of an innovative non-invasive approach for biological sampling that has been validated in mice and shelter cats. Our device consists of a disposable plastic cassette that, through odor attractants, lures animals to lick a filter paper. This saliva collection approach allowed for the detection of RNA viruses by RTqPCR and third-generation sequencing. RTqPCR oral swab and licked paper results showed that both methods significantly predicted serological status. Our sequencing results revealed the richness of the gene space, demonstrating the potential of this device for discovering rare or unknown species circulating in the saliva donor, enabling this player to be recognized as an environmental sentinel. This study demonstrates the feasibility of deploying this device in sheltered/captive animal settings as well as under laboratory simulations of different environments, providing necessary foundations for future field applications. Our methodology holds great potential for monitoring zoonotic pathogens in both captive and free-ranging animals, to even possibly allow proactive mitigation measures prior to spillover, without interfering with natural animal behaviour and social structures.
Dataset DOI: 10.5061/dryad.f4qrfj79h
Description of the data and file structure
These datasets contain the fastq files obtained from cDNA metagenomic sequencing in Camargo et al. (in review), validating the use of saliva samples obtained non-invasively from cats (F. catus) and mice (M. musculus) for microbial and environmental contaminants discovery. Each sample was barcoded. Dataset RR1 contains 10 mouse samples (five samples per group of 10 mice) and 10 cat samples. Dataset RR3 contains 22 cats.
Sequencing depth was not ideal given the small amount of starting material (see manuscript for details on sequencing strategy) but revealed that diet components can be detected uniformly through the experimental course, while components of animals' microbiota changed over time. Sequencing also detected a myriad of pathogenic microbes in all samples, as well as environmental contaminants (insets, plants).
Files and variables
File: RR1.pass.fastq.gz
Description: Dataset RR1 contains 10 mouse samples (five samples per group of 10 mice experimentally infected with rabies virus) and 10 cat samples (healthy or naturally infected with Feline Leukemia Virus).
File: RR3_pass-20260225T181306Z-1-001.zip
Description: Dataset RR3 contains samples from 22 cats (healthy or naturally infected with Feline Leukemia Virus).
Code/software
Sequencing was performed using MinION software (Oxford Nanopore Technology).
Reads were demultiplexed using EPI2ME (Oxford Nanopore Technology).
Alignment to GenBank sequences was performed using default settings of CZID (czid.org).
Access information
Other publicly accessible locations of the data:
Data was derived from the following sources:
