Abstract
The opportunistic pathogens Staphylococcus aureus and Staphylococcus epidermidis represent major causes of severe nosocomial infection, and are associated with high levels of mortality and morbidity worldwide. These species are both common commensals on the human skin and in the nasal pharynx, but are genetically distinct, differing at 24% average nucleotide divergence in 1,478 core genes. To better understand the genome dynamics of these ecologically similar staphylococcal species, we carried out a comparative analysis of 324 S. aureus and S. epidermidis genomes, including 83 novel S. epidermidis sequences. A reference pan-genome approach and whole genome multilocus-sequence typing revealed that around half of the genome was shared between the species. Based on a BratNextGen analysis, homologous recombination was found to have impacted on 40% of the core genes in S. epidermidis, but on only 24% of the core genes in S. aureus. Homologous recombination between the species is rare, with a maximum of nine gene alleles shared between any two S. epidermidis and S. aureus isolates. In contrast, there was considerable interspecies admixture of mobile elements, in particular genes associated with the SaPIn1 pathogenicity island, metal detoxification, and the methicillin-resistance island SCCmec. Our data and analysis provide a context for considering the nature of recombinational boundaries between S. aureus and S. epidermidis and, the selective forces that influence realized recombination between these species.
| Original language | English |
|---|---|
| Pages (from-to) | 1313-1328 |
| Number of pages | 16 |
| Journal | Genome biology and evolution |
| Volume | 7 |
| Issue number | 5 |
| Early online date | 16 Apr 2015 |
| DOIs | |
| Publication status | Published - May 2015 |
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Keywords
- Ecological and Environmental Processes
- Evolution, Molecular
- Gene Transfer, Horizontal
- Genes, Fungal
- Genetic Variation
- Genome, Fungal
- Homologous Recombination
- Staphylococcus aureus
- Staphylococcus epidermidis
Cite this
Ecological overlap and horizontal gene transfer in Staphylococcus aureus and Staphylococcus epidermidis. / Méric, Guillaume; Miragaia, Maria; de Been, Mark; Yahara, Koji; Pascoe, Ben; Mageiros, Leonardos; Mikhail, Jane; Harris, Llinos G; Wilkinson, Thomas S; Rolo, Joana; Lamble, Sarah; Bray, James E; Jolley, Keith A; Hanage, William P; Bowden, Rory; Maiden, Martin C J; Mack, Dietrich; de Lencastre, Hermínia; Feil, Edward J; Corander, Jukka; Sheppard, Samuel K.
In: Genome biology and evolution, Vol. 7, No. 5, 05.2015, p. 1313-1328.Research output: Contribution to journal › Article
}
TY - JOUR
T1 - Ecological overlap and horizontal gene transfer in Staphylococcus aureus and Staphylococcus epidermidis
AU - Méric, Guillaume
AU - Miragaia, Maria
AU - de Been, Mark
AU - Yahara, Koji
AU - Pascoe, Ben
AU - Mageiros, Leonardos
AU - Mikhail, Jane
AU - Harris, Llinos G
AU - Wilkinson, Thomas S
AU - Rolo, Joana
AU - Lamble, Sarah
AU - Bray, James E
AU - Jolley, Keith A
AU - Hanage, William P
AU - Bowden, Rory
AU - Maiden, Martin C J
AU - Mack, Dietrich
AU - de Lencastre, Hermínia
AU - Feil, Edward J
AU - Corander, Jukka
AU - Sheppard, Samuel K
N1 - © The Author(s) 2015. Published by Oxford University Press on behalf of the Society for Molecular Biology and Evolution.
PY - 2015/5
Y1 - 2015/5
N2 - The opportunistic pathogens Staphylococcus aureus and Staphylococcus epidermidis represent major causes of severe nosocomial infection, and are associated with high levels of mortality and morbidity worldwide. These species are both common commensals on the human skin and in the nasal pharynx, but are genetically distinct, differing at 24% average nucleotide divergence in 1,478 core genes. To better understand the genome dynamics of these ecologically similar staphylococcal species, we carried out a comparative analysis of 324 S. aureus and S. epidermidis genomes, including 83 novel S. epidermidis sequences. A reference pan-genome approach and whole genome multilocus-sequence typing revealed that around half of the genome was shared between the species. Based on a BratNextGen analysis, homologous recombination was found to have impacted on 40% of the core genes in S. epidermidis, but on only 24% of the core genes in S. aureus. Homologous recombination between the species is rare, with a maximum of nine gene alleles shared between any two S. epidermidis and S. aureus isolates. In contrast, there was considerable interspecies admixture of mobile elements, in particular genes associated with the SaPIn1 pathogenicity island, metal detoxification, and the methicillin-resistance island SCCmec. Our data and analysis provide a context for considering the nature of recombinational boundaries between S. aureus and S. epidermidis and, the selective forces that influence realized recombination between these species.
AB - The opportunistic pathogens Staphylococcus aureus and Staphylococcus epidermidis represent major causes of severe nosocomial infection, and are associated with high levels of mortality and morbidity worldwide. These species are both common commensals on the human skin and in the nasal pharynx, but are genetically distinct, differing at 24% average nucleotide divergence in 1,478 core genes. To better understand the genome dynamics of these ecologically similar staphylococcal species, we carried out a comparative analysis of 324 S. aureus and S. epidermidis genomes, including 83 novel S. epidermidis sequences. A reference pan-genome approach and whole genome multilocus-sequence typing revealed that around half of the genome was shared between the species. Based on a BratNextGen analysis, homologous recombination was found to have impacted on 40% of the core genes in S. epidermidis, but on only 24% of the core genes in S. aureus. Homologous recombination between the species is rare, with a maximum of nine gene alleles shared between any two S. epidermidis and S. aureus isolates. In contrast, there was considerable interspecies admixture of mobile elements, in particular genes associated with the SaPIn1 pathogenicity island, metal detoxification, and the methicillin-resistance island SCCmec. Our data and analysis provide a context for considering the nature of recombinational boundaries between S. aureus and S. epidermidis and, the selective forces that influence realized recombination between these species.
KW - Ecological and Environmental Processes
KW - Evolution, Molecular
KW - Gene Transfer, Horizontal
KW - Genes, Fungal
KW - Genetic Variation
KW - Genome, Fungal
KW - Homologous Recombination
KW - Staphylococcus aureus
KW - Staphylococcus epidermidis
UR - http://www.scopus.com/inward/record.url?scp=84942321996&partnerID=8YFLogxK
UR - http://dx.doi.org/10.1093/gbe/evv066
U2 - 10.1093/gbe/evv066
DO - 10.1093/gbe/evv066
M3 - Article
VL - 7
SP - 1313
EP - 1328
JO - Genome biology and evolution
JF - Genome biology and evolution
SN - 1759-6653
IS - 5
ER -