Pervasive horizontal gene transfer in coagulase-negative Staphylococcus

Pervasive horizontal gene transfer in coagulase-negative Staphylococcus
Like

Coagulase-negative Staphylococcus (CoNS) species have long been overshadowed by the more notorious Staphylococcus aureus. Prior to molecular methods, the coagulase test was initially used to distinguish the coagulase-positive S. aureus from the staphylococci deemed to be non- or less pathogenic 1. The coagulase enzyme converts fibrinogen to fibrin, thus promoting the clotting of blood plasma2.

                                               Mixed bacterial colonies on blood agar plate

We have been collaborating with Robert Gibson, Director of the New Hampshire Veterinary Diagnostic Laboratory (NHVDL) for the past seven years on Staphylococcus genomics. He and his staff members receive thousands of specimens from pets, farm animals, wildlife, aquatic and zoo animals from the state of New Hampshire and other states in the New England region of the United States. In our culture collection of Staphylococcus isolates from diseased animals (n = 1,034 isolates) sampled from 2017 - 2022, we were pleasantly surprised by the astounding diversity of non-aureus species. There were 28 non-aureus species (898 isolates) and 15 unnamed isolates, based on initial identification using MALDI-TOF. If CoNS are not as clinically important as S. aureus, why do we find so many of them in animal diseases?

 

We were particularly interested in the evolutionary history of CoNS. A few prior studies reported evidence of horizontal gene transfer (HGT) in some CoNS species 3-4 and between S. aureus and the CoNS species S. epidermidis 5, but we hypothesized that HGT is more widespread in CoNS than previously recognized. We sought to investigate genome-wide frequencies and patterns of HGT in 191 genomes representing 15 CoNS species. These were obtained from 10 animal species, most of which came from dogs, cats, and cows. We examined homologous recombination, mobile genetic elements, and shared accessory genes.

                                                         Co-author Stephanie S.R. Souza with Fred

Our results showed that frequent but structured patterns of HGT exist within and between CoNS species shaped by their overlapping ecological niches (animal hosts) and geographical proximity. We found frequent transfer partners as well as certain lineages and species that are frequent donors or frequent recipients of exogenous DNA, regardless of the identify of their animal hosts. They are also major reservoirs of diverse phages, plasmids and mobilizable genes encoding antimicrobial resistance, heavy metal resistance, and virulence. These findings underscore the importance of CoNS not only in maintaining animal health but also in understanding the evolutionary history of the genus Staphylococcus.

 

My research group and I feel especially fortunate that we have a strong collaboration with NHVDL Director Robert Gibson. Our paper is testament to what academic institutions and veterinary diagnostic laboratories can achieve together. We showed that the application of genomic methods should not be limited to human clinical settings. Antimicrobial resistance and other genetic material can traverse recognized boundaries of bacterial species as well as across different ecological niches. Whole genome sequencing across the One Health continuum is imperative to the development of effective surveillance, diagnostic, and treatment options for CoNS infections. Lastly, we hope our findings will encourage more in-depth studies of CoNS and sampling of more diverse animal species. There are likely many more Staphylococcus species yet to be discovered. Exciting times ahead!

 

                                                       Senior author Cheryl Andam with Sparky

Full details of our findings are described in https://www.nature.com/articles/s42003-023-04877-0

 

References cited:

1 Cadness-Graves B. et al. Slide test for coagulase-positive staphylococci. Lancet 2,736–738 (1943).

2 McAdow M. et al. Staphylococcus aureus secretes coagulase and von Willebrand factor binding protein to modify the coagulation cascade and establish host infections. Journal of Innate Immunology 4, 141–148 (2012).

3 Sun Z. et al. Determining the genetic characteristics of resistance and virulence of the "Epidermidis Cluster Group" through pan-genome analysis. Frontiers in Cellular Infection and Microbiology 10, 274 (2020).

4 Zong Z. et al. Diversity of SCCmec elements in methicillin-resistant coagulase-negative staphylococci clinical isolates. PLoS One 6, e20191 (2011).

5 Méric G. et al. Ecological overlap and horizontal gene transfer in Staphylococcus aureus and Staphylococcus epidermidis. Genome Biology and Evolution 7,1313-1328 (2015).

Please sign in or register for FREE

If you are a registered user on Research Communities by Springer Nature, please sign in

Subscribe to the Topic

Microbiology
Life Sciences > Biological Sciences > Microbiology

Related Collections

With collections, you can get published faster and increase your visibility.

RNA biology and RNA-based applications to medicine

This cross-journal Collection welcomes articles that report on RNA-driven cellular mechanisms, physiologically relevant RNA processes, and the development and characterisation of novel RNA-based medical applications for disease prevention, diagnostic and therapeutic purposes.

Publishing Model: Open Access

Deadline: Mar 27, 2024

Biology of reproduction

For this Collection, we encourage submissions that push forward our understanding of reproduction and its impact on offspring in both model organisms and human studies.

Publishing Model: Open Access

Deadline: Apr 10, 2024