The canine oral microbiome: variation in bacterial populations across different niches

Ruparell, Avika; Inui, Taichi; Staunton, Ruth; Wallis, Corrin; Deusch, Oliver; Holcombe, Lucy J.

doi:10.1186/s12866-020-1704-3

Cited by 57 publications

(83 citation statements)

References 41 publications

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“…In addition, dog saliva and human sweat were artificially spiked to the external tick microbiome to add complex microbial communities of potential hosts. The microbiome of dog saliva and human sweat has been frequently reported and the most abundant bacterial genera of its compositions were not found in tick microbiomes [39,40], which is also true for this study (Supplementary Table S1).…”

Section: Contamination and Decontamination Of Tickssupporting

confidence: 64%

Analysis of Tick Surface Decontamination Methods

Hoffmann

Fingerle²,

Noll

2020

Microorganisms

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Various microbial pathogens have been found in ticks such as Ixodes ricinus. However, most studies assessed tick microbiomes without prior decontamination of the tick surface, which may alter the results and mislead conclusions regarding the composition of the tick-borne microbiome. The aim of this study was to test four different decontamination methods, namely (i.) 70% ethanol, (ii.) DNA Away, (iii.) 5% sodium hypochlorite and (iv.) Reactive Skin Decontamination Lotion (RSDL), which have been previously reported for tick surface and animal or human skin decontamination. To test the efficiency of decontamination, we contaminated each tick with a defined mixture of Escherichia coli, Micrococcus luteus, Pseudomonas fluorescens, dog saliva and human sweat. No contamination was used as a negative control, and for a positive control, a no decontamination strategy was carried out. After nucleic acid extraction, the recovery rate of contaminants was determined for RNA and DNA samples by qPCR and tick-borne microbiome analyses by bacterial 16S rRNA and 16S rRNA gene amplicon sequencing. Ticks treated with 5% sodium hypochlorite revealed the lowest number of contaminants followed by DNA Away, RSDL and 70% ethanol. Moreover, tick microbiomes after 5% sodium hypochlorite decontamination clustered with negative controls. Therefore, the efficiency of decontamination was optimal with 5% sodium hypochlorite and is recommended for upcoming studies to address the unbiased detection of tick-borne pathogens.

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Section: Contamination and Decontamination Of Tickssupporting

confidence: 64%

Analysis of Tick Surface Decontamination Methods

Hoffmann

Fingerle²,

Noll

2020

Microorganisms

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“…Oral microbiome changes have been associated with dental disease, especially periodontal diseases in humans and many animal species, including horses [9,11] dogs [20], cats [21] and cattle [22], but not yet in donkeys suffering from dental abnormalities. Dental floating, the most common dental treatment, plays an important role in dental disease control within farm-raised donkeys.…”

Section: Discussionmentioning

confidence: 99%

Investigation of Oral Microbiome in Donkeys and the Effect of Dental Care on Oral Microbial Composition

Zhu

Jiang

Holyoak

et al. 2020

Animals

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The objective of this study was to investigate the oral microbial composition of the donkey and whether basic dental treatment, such as dental floating, would make a difference to the oral microbial environment in donkeys with dental diseases using high-throughput bacterial 16S rRNA gene sequencing. Oral swab samples were collected from 14 donkeys with various dental abnormalities on day 0 (before treatment) and day 20 (twenty days after treatment). It is the first report focusing on the oral microbiome in donkeys with dental diseases and the impact of common dental procedures thereon. Identified in group Day 0 and group Day 20, respectively, were 60,439.6 and 58,579.1 operational taxonomic units (OTUs). Several taxa in Day 0 differed significantly from Day 20 at the phylum and genus levels, but no statistically significant difference was observed in richness and diversity of Day 0 and Day 20. The results also indicated that a larger-scale study focusing on healthy donkey oral microbiome, as well as the correlation of dental diseases and oral microbiomes at different time frames following more specific and consistent dental treatment, are warranted.

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“…In the present study, oral microbiome samples were obtained from several different niches within the oral cavity. Previous studies have shown that each niche may harbour a unique microbial community, and direct comparisons with such studies are thus limited by the fact that we pooled samples from multiple niches [79].…”

Section: Discussionmentioning

confidence: 99%

Oral Microbiome Metabarcoding in Two Invasive Small Mammals from New Zealand

et al. 2020

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All multicellular organisms host a wide diversity of microorganisms in and on their bodies, which are collectively known as their microbiome. Characterising microbial communities that inhabit different body niches in wild animals is critical to better understand the dynamics of microbiome diversityand its functional significance. The current study is the first to apply massively parallel sequencing of 16S rRNA to characterise the microbial diversity and functional content of oral microbiota in two of New Zealand’s most important invasive mammals, the omnivorous common brushtail possum (Trichosurus vulpecula) and the carnivorous stoat (Mustela erminea). In total, strains of bacteria belonging to 19 different phyla, 27 classes, 52 orders, 103 families, 163 genera and 51 known species were identified from the oral cavities of the study species. Strains of the phyla Proteobacteria, Firmicutes, Bacteroidetes, Fusobacteria, and Actinobacteria dominated the core oral microbial diversity in both species, while other taxa were comparatively less abundant. Despite invasive populations typically demonstrating limited genetic variation, intraspecific variation of the core bacterial taxa in the oral microbiota was considerable. This suggests that a complex interaction between genetic, physiological, and environmental factors determines the diversity of the study species’oral microbiome.

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The canine oral microbiome: variation in bacterial populations across different niches

Cited by 57 publications

References 41 publications

Analysis of Tick Surface Decontamination Methods

Analysis of Tick Surface Decontamination Methods

Investigation of Oral Microbiome in Donkeys and the Effect of Dental Care on Oral Microbial Composition

Oral Microbiome Metabarcoding in Two Invasive Small Mammals from New Zealand

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