Identification of Three Clf-Sdr Subfamily Proteins in Staphylococcus warneri, and Comparative Genomics Analysis of a Locus Encoding CWA Proteins in Staphylococcus Species Article Swipe
Zhewei Sun
,
Xueya Zhang
,
Danying Zhou
,
Kexin Zhou
,
Qiaoling Li
,
Hailong Lin
,
Wei Lü
,
Hongmao Liu
,
Junwan Lu
,
Xi Lin
,
Kewei Li
,
Teng Xu
,
Mei Zhu
,
Qiyu Bao
,
Hailin Zhang
·
YOU?
·
· 2021
· Open Access
·
· DOI: https://doi.org/10.3389/fmicb.2021.691087
YOU?
·
· 2021
· Open Access
·
· DOI: https://doi.org/10.3389/fmicb.2021.691087
Coagulase-negative Staphylococcus warneri is an opportunistic pathogen that is capable of causing several infections, especially in patients with indwelling medical devices. Here, we determined the complete genome sequence of a clinical S. warneri strain isolated from the blood culture of a 1-year-old nursling patient with acute upper respiratory infection. Genome-wide phylogenetic analysis confirmed the phylogenetic relationships between S. warneri and other Staphylococcus species. Using comparative genomics, we identified three cell wall-anchored (CWA) proteins at the same locus ( sdr ), named SdrJ, SdrK, and SdrL, on the chromosome sequences of different S. warneri strains. Structural predictions showed that SdrJ/K/L have structural features characteristic of Sdr proteins but exceptionally contained an unusual N-terminal repeat region. However, the C-terminal repetitive (R) region of SdrJ contains a significantly larger proportion of alanine (142/338, 42.01%) than the previously reported SdrI (37.00%). Investigation of the genetic organization revealed that the sdrJ/K/L genes were always followed by one or two glycosyltransferase genes, gtfA and gtfB and were present in an ∼56 kb region bordered by a pair of 8 bp identical direct repeats, named Sw-Sdr. This region was further found to be located on a 160-kb region subtended by a pair of 160-bp direct repeats along with other virulence genes and resistance genes. Sw-Sdr contained a putative integrase that was probably a remnant of a functional integrase. Evidence suggests that Sw-Sdr is improbably an efficient pathogenicity island. A large-scale investigation of Staphylococcus genomes showed that sdr loci were a potential hotspot of insertion sequences (ISs), which could lead to intraspecific diversity at these loci. Our work expanded the repository of Staphylococcus Sdr proteins, and for the first time, we established the connection between sdr loci and phylogenetic relationships and compared the sdr loci in different Staphylococcus species, which provided large insights into the genetic environment of CWA genes in Staphylococcus .
Related Topics
Concepts
Genetics
Biology
Gene
Locus (genetics)
Genome
Comparative genomics
Phylogenetic tree
Virulence
Subfamily
Integrase
Genomics
Metadata
- Type
- article
- Language
- en
- Landing Page
- https://doi.org/10.3389/fmicb.2021.691087
- OA Status
- gold
- Cited By
- 2
- References
- 71
- Related Works
- 10
- OpenAlex ID
- https://openalex.org/W3184743785
All OpenAlex metadata
Raw OpenAlex JSON
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https://openalex.org/W3184743785Canonical identifier for this work in OpenAlex
- DOI
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https://doi.org/10.3389/fmicb.2021.691087Digital Object Identifier
- Title
-
Identification of Three Clf-Sdr Subfamily Proteins in Staphylococcus warneri, and Comparative Genomics Analysis of a Locus Encoding CWA Proteins in Staphylococcus SpeciesWork title
- Type
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articleOpenAlex work type
- Language
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enPrimary language
- Publication year
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2021Year of publication
- Publication date
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2021-07-29Full publication date if available
- Authors
-
Zhewei Sun, Xueya Zhang, Danying Zhou, Kexin Zhou, Qiaoling Li, Hailong Lin, Wei Lü, Hongmao Liu, Junwan Lu, Xi Lin, Kewei Li, Teng Xu, Mei Zhu, Qiyu Bao, Hailin ZhangList of authors in order
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https://doi.org/10.3389/fmicb.2021.691087Publisher landing page
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YesWhether a free full text is available
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goldOpen access status per OpenAlex
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https://doi.org/10.3389/fmicb.2021.691087Direct OA link when available
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Genetics, Biology, Gene, Locus (genetics), Genome, Comparative genomics, Phylogenetic tree, Virulence, Subfamily, Integrase, GenomicsTop concepts (fields/topics) attached by OpenAlex
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2Total citation count in OpenAlex
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2024: 1, 2022: 1Per-year citation counts (last 5 years)
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10Other works algorithmically related by OpenAlex
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