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Updated: Feb 18, 2026

Isolation and Identification of Bacterial Strains from Skin of Terrestrial Amphibians
Published on: June 17, 2025
Common Cutaneous Bacteria Isolated from Snakes Inhibit Growth of Ophidiomyces ophiodiicola
Aubree J Hill1, Jacob E Leys2, Danny Bryan3
1Department of Biology, Tennessee Technological University, 1100 North Dixie Avenue, Box 5063, Cookeville, TN, 38505, USA. aubreehill@tntech.edu.
Abstract:
There is increasing concern regarding potential impacts of snake fungal disease (SFD), caused by Ophidiomyces ophiodiicola (Oo), on free-ranging snake populations in the eastern USA. The snake cutaneous microbiome likely serves as the first line of defense against Oo and other pathogens; however, little is known about microbial associations in snakes. The objective of this study was to better define the composition and immune function of the snake cutaneous microbiome. Eight timber rattlesnakes (Crotalus horridus) and four black racers (Coluber constrictor) were captured in Arkansas and Tennessee, with some snakes exhibiting signs of SFD. Oo was detected through real-time qPCR in five snakes. Additional histopathological techniques confirmed a diagnosis of SFD in one racer, the species' first confirmed case of SFD in Tennessee. Fifty-eight bacterial and five fungal strains were isolated from skin swabs and identified with Sanger sequencing. Non-metric multidimensional scaling and PERMANOVA analyses indicated that the culturable microbiome does not differ between snake species. Fifteen bacterial strains isolated from rattlesnakes and a single strain isolated from a racer inhibited growth of Oo in vitro. Results shed light on the culturable cutaneous microbiome of snakes and probiotic members that may play a role in fighting an emergent disease.
Insights
Snake fungal disease (SFD) threatens snakes. This study identified beneficial skin microbes, including bacteria from timber rattlesnakes and black racers, that inhibit the pathogen Ophidiomyces ophiodiicola in vitro.
Area of Science:
- Herpetology
- Microbiology
- Ecology
Background:
- Snake fungal disease (SFD), caused by Ophidiomyces ophiodiicola (Oo), poses a significant threat to snake populations in the eastern USA.
- The snake cutaneous microbiome's role in defense against pathogens like Oo is poorly understood.
- This study investigates the composition and immune function of the snake skin microbiome.
Purpose of the Study:
- To characterize the culturable cutaneous microbiome of timber rattlesnakes (Crotalus horridus) and black racers (Coluber constrictor).
- To identify potential probiotic bacteria that inhibit the growth of Ophidiomyces ophiodiicola in vitro.
- To understand the snake microbiome's role in combating SFD.
Main Methods:
- Skin swabs were collected from eight timber rattlesnakes and four black racers in Arkansas and Tennessee.
- Bacterial and fungal strains were isolated, identified using Sanger sequencing, and tested for inhibition of Oo growth in vitro.
- Real-time qPCR and histopathology were used to detect and confirm SFD.
Main Results:
- Ophidiomyces ophiodiicola was detected in five snakes, with SFD confirmed in one black racer, marking the first case in Tennessee.
- Fifty-eight bacterial and five fungal strains were isolated and identified.
- Fifteen bacterial strains from rattlesnakes and one from a racer demonstrated in vitro inhibition of Oo growth.
Conclusions:
- The culturable skin microbiome composition did not significantly differ between the studied snake species.
- Certain bacterial strains isolated from snake skin exhibit potential as probiotics against SFD.
- Further research into the snake microbiome could reveal novel strategies for managing SFD.
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