High Resolution Typing by Whole Genome Mapping Enables Discrimination of LA-MRSA (CC398) Strains and Identification of Transmission Events
Publication Date
June 21, 2013
Journal
PLoS ONE
Authors
Thijs Bosch, Erwin Verkade, Martijn van Luit, Bruno Pot, et al
Volume
8
Issue
6
Pages
e66493
DOI
http://doi.org/10.1371/journal.pone.0066493
Publisher URL
http://journals.plos.org/plosone/article?id=10.1371%2Fjournal.pone.0066493
Web of Science
000320846500053
Scopus
84879274702
Mendeley
http://www.mendeley.com/research/high-resolution-typing-whole-genome-mapping-enables-discrimination-lamrsa-cc398-strains-identificati
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Mendeley | Further Information

{"title"=>"High Resolution Typing by Whole Genome Mapping Enables Discrimination of LA-MRSA (CC398) Strains and Identification of Transmission Events", "type"=>"journal", "authors"=>[{"first_name"=>"Thijs", "last_name"=>"Bosch", "scopus_author_id"=>"26667514600"}, {"first_name"=>"Erwin", "last_name"=>"Verkade", "scopus_author_id"=>"34873851700"}, {"first_name"=>"Martijn", "last_name"=>"van Luit", "scopus_author_id"=>"26433992900"}, {"first_name"=>"Bruno", "last_name"=>"Pot", "scopus_author_id"=>"7003317101"}, {"first_name"=>"Paul", "last_name"=>"Vauterin", "scopus_author_id"=>"8226762000"}, {"first_name"=>"Ronald", "last_name"=>"Burggrave", "scopus_author_id"=>"55771563100"}, {"first_name"=>"Paul", "last_name"=>"Savelkoul", "scopus_author_id"=>"7003470738"}, {"first_name"=>"Jan", "last_name"=>"Kluytmans", "scopus_author_id"=>"55770025000"}, {"first_name"=>"Leo", "last_name"=>"Schouls", "scopus_author_id"=>"7005046430"}], "year"=>2013, "source"=>"PLoS ONE", "identifiers"=>{"issn"=>"19326203", "pui"=>"369158165", "doi"=>"10.1371/journal.pone.0066493", "sgr"=>"84879274702", "scopus"=>"2-s2.0-84879274702", "isbn"=>"1932-6203", "pmid"=>"23805225"}, "id"=>"9e8ccfb8-9bec-3f3f-bf43-ba4f2470e76a", "abstract"=>"After its emergence in 2003, a livestock-associated (LA-)MRSA clade (CC398) has caused an impressive increase in the number of isolates submitted for the Dutch national MRSA surveillance and now comprises 40% of all isolates. The currently used molecular typing techniques have limited discriminatory power for this MRSA clade, which hampers studies on the origin and transmission routes. Recently, a new molecular analysis technique named whole genome mapping was introduced. This method creates high-resolution, ordered whole genome restriction maps that may have potential for strain typing. In this study, we assessed and validated the capability of whole genome mapping to differentiate LA-MRSA isolates. Multiple validation experiments showed that whole genome mapping produced highly reproducible results. Assessment of the technique on two well-documented MRSA outbreaks showed that whole genome mapping was able to confirm one outbreak, but revealed major differences between the maps of a second, indicating that not all isolates belonged to this outbreak. Whole genome mapping of LA-MRSA isolates that were epidemiologically unlinked provided a much higher discriminatory power than spa-typing or MLVA. In contrast, maps created from LA-MRSA isolates obtained during a proven LA-MRSA outbreak were nearly indistinguishable showing that transmission of LA-MRSA can be detected by whole genome mapping. Finally, whole genome maps of LA-MRSA isolates originating from two unrelated veterinarians and their household members showed that veterinarians may carry and transmit different LA-MRSA strains at the same time. No such conclusions could be drawn based spa-typing and MLVA. Although PFGE seems to be suitable for molecular typing of LA-MRSA, WGM provides a much higher discriminatory power. Furthermore, whole genome mapping can provide a comparison with other maps within 2 days after the bacterial culture is received, making it suitable to investigate transmission events and outbreaks caused by LA-MRSA.", "link"=>"http://www.mendeley.com/research/high-resolution-typing-whole-genome-mapping-enables-discrimination-lamrsa-cc398-strains-identificati", "reader_count"=>34, "reader_count_by_academic_status"=>{"Unspecified"=>2, "Professor > Associate Professor"=>1, "Researcher"=>3, "Student > Ph. D. Student"=>13, "Student > Postgraduate"=>2, "Other"=>5, "Student > Master"=>2, "Student > Bachelor"=>3, "Lecturer"=>1, "Professor"=>2}, "reader_count_by_user_role"=>{"Unspecified"=>2, "Professor > Associate Professor"=>1, "Researcher"=>3, "Student > Ph. D. Student"=>13, "Student > Postgraduate"=>2, "Other"=>5, "Student > Master"=>2, "Student > Bachelor"=>3, "Lecturer"=>1, "Professor"=>2}, "reader_count_by_subject_area"=>{"Unspecified"=>3, "Environmental Science"=>1, "Biochemistry, Genetics and Molecular Biology"=>2, "Agricultural and Biological Sciences"=>12, "Medicine and Dentistry"=>9, "Veterinary Science and Veterinary Medicine"=>2, "Social Sciences"=>2, "Computer Science"=>2, "Immunology and Microbiology"=>1}, "reader_count_by_subdiscipline"=>{"Medicine and Dentistry"=>{"Medicine and Dentistry"=>9}, "Social Sciences"=>{"Social Sciences"=>2}, "Immunology and Microbiology"=>{"Immunology and Microbiology"=>1}, "Agricultural and Biological Sciences"=>{"Agricultural and Biological Sciences"=>12}, "Computer Science"=>{"Computer Science"=>2}, "Biochemistry, Genetics and Molecular Biology"=>{"Biochemistry, Genetics and Molecular Biology"=>2}, "Unspecified"=>{"Unspecified"=>3}, "Environmental Science"=>{"Environmental Science"=>1}, "Veterinary Science and Veterinary Medicine"=>{"Veterinary Science and Veterinary Medicine"=>2}}, "reader_count_by_country"=>{"Sweden"=>1, "United States"=>1, "Brazil"=>1, "South Africa"=>1, "Spain"=>1}, "group_count"=>2}

Scopus | Further Information

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Figshare

  • {"files"=>["https://ndownloader.figshare.com/files/1096599"], "description"=>"*<p>VET-study, isolates collected for a longitudinal MRSA carriage study among veterinarians and written consent was provided by all participants (E. Verkade personal communication).</p>", "links"=>[], "tags"=>["Computational biology", "genomics", "Genome analysis tools", "Genetic maps", "microbiology", "Bacterial pathogens", "Gram positive", "staphylococci", "bacteriology", "Bacterial evolution", "Applied microbiology", "Emerging infectious diseases", "Host-pathogen interaction", "Medical microbiology", "Microbial evolution", "Veterinary medicine", "Livestock care", "strains"], "article_id"=>727899, "categories"=>["Biological Sciences", "Medicine"], "users"=>["Thijs Bosch", "Erwin Verkade", "Martijn van Luit", "Bruno Pot", "Paul Vauterin", "Ronald Burggrave", "Paul Savelkoul", "Jan Kluytmans", "Leo Schouls"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0066493.t001", "stats"=>{"downloads"=>0, "page_views"=>2, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Bacterial_strains_used_in_this_study_/727899", "title"=>"Bacterial strains used in this study.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2013-06-21 01:40:23"}
  • {"files"=>["https://ndownloader.figshare.com/files/1096593"], "description"=>"<p>Based on molecular typing (<i>spa</i>-typing, MLVA and PFGE) all isolates were indistinguishable.</p>", "links"=>[], "tags"=>["Computational biology", "genomics", "Genome analysis tools", "Genetic maps", "microbiology", "Bacterial pathogens", "Gram positive", "staphylococci", "bacteriology", "Bacterial evolution", "Applied microbiology", "Emerging infectious diseases", "Host-pathogen interaction", "Medical microbiology", "Microbial evolution", "Veterinary medicine", "Livestock care", "genome", "maps", "differences", "ha-mrsa", "outbreak", "isolates"], "article_id"=>727893, "categories"=>["Biological Sciences", "Medicine"], "users"=>["Thijs Bosch", "Erwin Verkade", "Martijn van Luit", "Bruno Pot", "Paul Vauterin", "Ronald Burggrave", "Paul Savelkoul", "Jan Kluytmans", "Leo Schouls"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0066493.g003", "stats"=>{"downloads"=>0, "page_views"=>10, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Detail_of_whole_genome_maps_showing_differences_between_HA_MRSA_outbreak_isolates_obtained_from_a_large_medical_care_center_in_the_Netherlands_/727893", "title"=>"Detail of whole genome maps showing differences between HA-MRSA outbreak isolates obtained from a large medical care center in the Netherlands.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-06-21 01:40:23"}
  • {"files"=>["https://ndownloader.figshare.com/files/1096597"], "description"=>"<p>A and B denote the clusters with highly similar WGMs of isolates obtained from VET45 and his household members (light red block). C denotes the cluster with highly similar WGMs of isolates obtained from VET66 and his household members (blue block). Sampling time-points, sampling sites, <i>spa</i>-type, MLVA-type and PFGE-type are indicated on the right hand side of the maps. The PFGE-type numbers are arbitrary numbers.</p>", "links"=>[], "tags"=>["Computational biology", "genomics", "Genome analysis tools", "Genetic maps", "microbiology", "Bacterial pathogens", "Gram positive", "staphylococci", "bacteriology", "Bacterial evolution", "Applied microbiology", "Emerging infectious diseases", "Host-pathogen interaction", "Medical microbiology", "Microbial evolution", "Veterinary medicine", "Livestock care", "wgms", "veterinarians", "members"], "article_id"=>727897, "categories"=>["Biological Sciences", "Medicine"], "users"=>["Thijs Bosch", "Erwin Verkade", "Martijn van Luit", "Bruno Pot", "Paul Vauterin", "Ronald Burggrave", "Paul Savelkoul", "Jan Kluytmans", "Leo Schouls"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0066493.g006", "stats"=>{"downloads"=>1, "page_views"=>13, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Detail_of_the_WGMs_of_two_veterinarians_and_their_household_members_showing_transmission_events_/727897", "title"=>"Detail of the WGMs of two veterinarians and their household members showing transmission events.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-06-21 01:40:23"}
  • {"files"=>["https://ndownloader.figshare.com/files/1096595"], "description"=>"<p>The 4 isolates represent 3 household members and 1 isolate originated from a pig on the farm. All isolates were identical in PFGE, <i>spa</i>-typing and MLVA.</p>", "links"=>[], "tags"=>["Computational biology", "genomics", "Genome analysis tools", "Genetic maps", "microbiology", "Bacterial pathogens", "Gram positive", "staphylococci", "bacteriology", "Bacterial evolution", "Applied microbiology", "Emerging infectious diseases", "Host-pathogen interaction", "Medical microbiology", "Microbial evolution", "Veterinary medicine", "Livestock care", "wgms", "la-mrsa", "isolates", "confirmed"], "article_id"=>727895, "categories"=>["Biological Sciences", "Medicine"], "users"=>["Thijs Bosch", "Erwin Verkade", "Martijn van Luit", "Bruno Pot", "Paul Vauterin", "Ronald Burggrave", "Paul Savelkoul", "Jan Kluytmans", "Leo Schouls"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0066493.g005", "stats"=>{"downloads"=>0, "page_views"=>11, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Complete_WGMs_of_LA_MRSA_isolates_obtained_from_a_confirmed_transmission_event_/727895", "title"=>"Complete WGMs of LA-MRSA isolates obtained from a confirmed transmission event.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-06-21 01:40:23"}
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