Microbead-based spoligotyping of Mycobacterium tuberculosis from Ziehl-Neelsen-stained microscopy preparations in Ethiopia View Full Text


Ontology type: schema:ScholarlyArticle      Open Access: True


Article Info

DATE

2018-12

AUTHORS

Barbara Molina-Moya, Mulualem Agonafir, Silvia Blanco, Russell Dacombe, Michel K. Gomgnimbou, Lizania Spinasse, Meissiner Gomes-Fernandes, Daniel G. Datiko, Thomas Edwards, Luis E. Cuevas, Jose Dominguez, Christophe Sola

ABSTRACT

The worldwide dissemination of Mycobacterium tuberculosis strains has led to the study of their genetic diversity. One of the most used genotyping methods is spoligotyping, based on the detection of spacers in the clustered regularly interspaced short palindromic repeats (CRISPR) locus. This study assessed the performance of a microbead-based spoligotyping assay using samples extracted from Ziehl-Neelsen-stained smear-microscopy preparations and described the genetic diversity of Mycobacterium tuberculosis among new TB patients in Southern Nations, Nationalities and Peoples' Region (SNNPR) in Ethiopia. Among the 91 samples analysed, 59 (64.8%) generated spoligotyping patterns. Fifty (84.7%) samples were classified into 12 clusters (mostly Lineage 4 or 3) comprising 2-11 samples and nine had unique spoligotyping patterns. Among the 59 spoligotyping patterns, 25 belonged to the T1 sublineage, 11 to the T3-ETH, 5 to the URAL, 4 to the H3 and 14 to other L4 sublineages. There was a remarkable variation in genetic distribution in SNNPR compared to other regions of the country. Microbead-based spoligotyping is an easy-to-perform, high-throughput assay that can generate genotyping information using material obtained from smear microscopy preparations. The method provides an opportunity to obtain data of the M. tuberculosis genetic epidemiology in settings with limited laboratory resources. More... »

PAGES

3987

References to SciGraph publications

Identifiers

URI

http://scigraph.springernature.com/pub.10.1038/s41598-018-22071-9

DOI

http://dx.doi.org/10.1038/s41598-018-22071-9

DIMENSIONS

https://app.dimensions.ai/details/publication/pub.1101244863

PUBMED

https://www.ncbi.nlm.nih.gov/pubmed/29507363


Indexing Status Check whether this publication has been indexed by Scopus and Web Of Science using the SN Indexing Status Tool
Incoming Citations Browse incoming citations for this publication using opencitations.net

JSON-LD is the canonical representation for SciGraph data.

TIP: You can open this SciGraph record using an external JSON-LD service: JSON-LD Playground Google SDTT

[
  {
    "@context": "https://springernature.github.io/scigraph/jsonld/sgcontext.json", 
    "about": [
      {
        "id": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/0604", 
        "inDefinedTermSet": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/", 
        "name": "Genetics", 
        "type": "DefinedTerm"
      }, 
      {
        "id": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/06", 
        "inDefinedTermSet": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/", 
        "name": "Biological Sciences", 
        "type": "DefinedTerm"
      }
    ], 
    "author": [
      {
        "affiliation": {
          "alternateName": "Instituto de Salud Carlos III", 
          "id": "https://www.grid.ac/institutes/grid.413448.e", 
          "name": [
            "Hospital Universitari Germans Trias i Pujol, Institut d\u2019Investigaci\u00f3 Germans Trias i Pujol, Universitat Aut\u00f2noma de Barcelona, Badalona, Spain", 
            "CIBER Enfermedades Respiratorias (CIBERES), Instituto de Salud Carlos III, Madrid, Spain"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Molina-Moya", 
        "givenName": "Barbara", 
        "id": "sg:person.01010134472.63", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01010134472.63"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "REACH ETHIOPIA", 
          "id": "https://www.grid.ac/institutes/grid.463619.f", 
          "name": [
            "Ethiopian Health and Nutrition Research Institute, Addis Ababa, Ethiopia", 
            "LSTM, Reach Ethiopia, Addis Ababa, Ethiopia"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Agonafir", 
        "givenName": "Mulualem", 
        "id": "sg:person.01263272153.50", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01263272153.50"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Addis Ababa University", 
          "id": "https://www.grid.ac/institutes/grid.7123.7", 
          "name": [
            "College of Natural Sciences, Addis Ababa University, Addis Ababa, Ethiopia"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Blanco", 
        "givenName": "Silvia", 
        "id": "sg:person.01272423337.83", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01272423337.83"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Liverpool School of Tropical Medicine", 
          "id": "https://www.grid.ac/institutes/grid.48004.38", 
          "name": [
            "Liverpool School of Tropical Medicine, Liverpool, UK"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Dacombe", 
        "givenName": "Russell", 
        "id": "sg:person.01146313215.07", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01146313215.07"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Centre Muraz", 
          "id": "https://www.grid.ac/institutes/grid.418128.6", 
          "name": [
            "Institut de Biologie Int\u00e9grative de la Cellule (I2BC), CEA, CNRS, Univ. Paris-Sud, Universit\u00e9 Paris-Saclay. Gif-sur-Yvette, Orsay, France", 
            "Centre Muraz, Bobo-Dioulasso, Burkina Faso"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Gomgnimbou", 
        "givenName": "Michel K.", 
        "id": "sg:person.01335517335.04", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01335517335.04"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Institute of Integrative Biology of the Cell", 
          "id": "https://www.grid.ac/institutes/grid.462411.4", 
          "name": [
            "Institut de Biologie Int\u00e9grative de la Cellule (I2BC), CEA, CNRS, Univ. Paris-Sud, Universit\u00e9 Paris-Saclay. Gif-sur-Yvette, Orsay, France"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Spinasse", 
        "givenName": "Lizania", 
        "id": "sg:person.011620111220.91", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.011620111220.91"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Coordena\u00e7\u00e3o de Aperfeicoamento de Pessoal de N\u00edvel Superior", 
          "id": "https://www.grid.ac/institutes/grid.452295.d", 
          "name": [
            "Hospital Universitari Germans Trias i Pujol, Institut d\u2019Investigaci\u00f3 Germans Trias i Pujol, Universitat Aut\u00f2noma de Barcelona, Badalona, Spain", 
            "CIBER Enfermedades Respiratorias (CIBERES), Instituto de Salud Carlos III, Madrid, Spain", 
            "CAPES Foundation, Ministry of Education of Brazil, Bras\u00edlia, Brazil"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Gomes-Fernandes", 
        "givenName": "Meissiner", 
        "id": "sg:person.0762004343.43", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0762004343.43"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "REACH ETHIOPIA", 
          "id": "https://www.grid.ac/institutes/grid.463619.f", 
          "name": [
            "REACH ETHIOPIA, Box 303, Hawassa, Ethiopia"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Datiko", 
        "givenName": "Daniel G.", 
        "id": "sg:person.0626154100.59", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0626154100.59"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Liverpool School of Tropical Medicine", 
          "id": "https://www.grid.ac/institutes/grid.48004.38", 
          "name": [
            "Liverpool School of Tropical Medicine, Liverpool, UK"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Edwards", 
        "givenName": "Thomas", 
        "id": "sg:person.07466213627.00", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.07466213627.00"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Liverpool School of Tropical Medicine", 
          "id": "https://www.grid.ac/institutes/grid.48004.38", 
          "name": [
            "Liverpool School of Tropical Medicine, Liverpool, UK"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Cuevas", 
        "givenName": "Luis E.", 
        "id": "sg:person.0655152104.12", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0655152104.12"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Instituto de Salud Carlos III", 
          "id": "https://www.grid.ac/institutes/grid.413448.e", 
          "name": [
            "Hospital Universitari Germans Trias i Pujol, Institut d\u2019Investigaci\u00f3 Germans Trias i Pujol, Universitat Aut\u00f2noma de Barcelona, Badalona, Spain", 
            "CIBER Enfermedades Respiratorias (CIBERES), Instituto de Salud Carlos III, Madrid, Spain"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Dominguez", 
        "givenName": "Jose", 
        "id": "sg:person.014377733652.28", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.014377733652.28"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Institute of Integrative Biology of the Cell", 
          "id": "https://www.grid.ac/institutes/grid.462411.4", 
          "name": [
            "Institut de Biologie Int\u00e9grative de la Cellule (I2BC), CEA, CNRS, Univ. Paris-Sud, Universit\u00e9 Paris-Saclay. Gif-sur-Yvette, Orsay, France"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Sola", 
        "givenName": "Christophe", 
        "id": "sg:person.0774766127.77", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0774766127.77"
        ], 
        "type": "Person"
      }
    ], 
    "citation": [
      {
        "id": "https://doi.org/10.1128/jcm.41.3.1101-1108.2003", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1000611014"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.3109/00365548.2013.773068", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1002001528"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1016/j.mimet.2006.09.001", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1002659386"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1155/2015/174732", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1006286757"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1371/journal.pone.0052841", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1008662255"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1155/2015/215015", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1017041097"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1016/j.cub.2015.10.061", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1019595756"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1016/j.cub.2015.10.061", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1019595756"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.4314/ahs.v12i3.15", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1027430305"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.4314/ahs.v12i3.15", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1027430305"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.3201/eid1903.120256", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1028657043"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.3201/eid1903.120256", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1028657043"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1128/cmr.00124-14", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1030676677"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1186/1756-0500-6-352", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1036235057", 
          "https://doi.org/10.1186/1756-0500-6-352"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1186/1756-0500-6-352", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1036235057", 
          "https://doi.org/10.1186/1756-0500-6-352"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1016/j.meegid.2012.02.004", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1036863199"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1128/jcm.00976-12", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1037861096"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.3201/1108.040982", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1043494937"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1186/s12889-015-2105-7", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1043604833", 
          "https://doi.org/10.1186/s12889-015-2105-7"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1128/jcm.03566-14", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1043825993"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.3201/eid1801.110275", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1048462755"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1371/journal.pone.0137865", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1048739099"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1016/j.ddmec.2010.09.004", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1050524436"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1099/jmm.0.016949-0", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1060391080"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1099/jmm.0.016949-0", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1060391080"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1186/s12879-017-2267-2", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1084250313", 
          "https://doi.org/10.1186/s12879-017-2267-2"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1186/s12879-017-2267-2", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1084250313", 
          "https://doi.org/10.1186/s12879-017-2267-2"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1128/jcm.02257-16", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1085274747"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.4269/ajtmh.16-0782", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1090648998"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1016/j.meegid.2017.09.016", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1091807153"
        ], 
        "type": "CreativeWork"
      }
    ], 
    "datePublished": "2018-12", 
    "datePublishedReg": "2018-12-01", 
    "description": "The worldwide dissemination of Mycobacterium tuberculosis strains has led to the study of their genetic diversity. One of the most used genotyping methods is spoligotyping, based on the detection of spacers in the clustered regularly interspaced short palindromic repeats (CRISPR) locus. This study assessed the performance of a microbead-based spoligotyping assay using samples extracted from Ziehl-Neelsen-stained smear-microscopy preparations and described the genetic diversity of Mycobacterium tuberculosis among new TB patients in Southern Nations, Nationalities and Peoples' Region (SNNPR) in Ethiopia. Among the 91 samples analysed, 59 (64.8%) generated spoligotyping patterns. Fifty (84.7%) samples were classified into 12 clusters (mostly Lineage 4 or 3) comprising 2-11 samples and nine had unique spoligotyping patterns. Among the 59 spoligotyping patterns, 25 belonged to the T1 sublineage, 11 to the T3-ETH, 5 to the URAL, 4 to the H3 and 14 to other L4 sublineages. There was a remarkable variation in genetic distribution in SNNPR compared to other regions of the country. Microbead-based spoligotyping is an easy-to-perform, high-throughput assay that can generate genotyping information using material obtained from smear microscopy preparations. The method provides an opportunity to obtain data of the M. tuberculosis genetic epidemiology in settings with limited laboratory resources.", 
    "genre": "research_article", 
    "id": "sg:pub.10.1038/s41598-018-22071-9", 
    "inLanguage": [
      "en"
    ], 
    "isAccessibleForFree": true, 
    "isPartOf": [
      {
        "id": "sg:journal.1045337", 
        "issn": [
          "2045-2322"
        ], 
        "name": "Scientific Reports", 
        "type": "Periodical"
      }, 
      {
        "issueNumber": "1", 
        "type": "PublicationIssue"
      }, 
      {
        "type": "PublicationVolume", 
        "volumeNumber": "8"
      }
    ], 
    "name": "Microbead-based spoligotyping of Mycobacterium tuberculosis from Ziehl-Neelsen-stained microscopy preparations in Ethiopia", 
    "pagination": "3987", 
    "productId": [
      {
        "name": "readcube_id", 
        "type": "PropertyValue", 
        "value": [
          "2e764d29ec5b0a66eb7ca69d86e54050f1b48ac45e3f293d560b10a9f528d6e3"
        ]
      }, 
      {
        "name": "pubmed_id", 
        "type": "PropertyValue", 
        "value": [
          "29507363"
        ]
      }, 
      {
        "name": "nlm_unique_id", 
        "type": "PropertyValue", 
        "value": [
          "101563288"
        ]
      }, 
      {
        "name": "doi", 
        "type": "PropertyValue", 
        "value": [
          "10.1038/s41598-018-22071-9"
        ]
      }, 
      {
        "name": "dimensions_id", 
        "type": "PropertyValue", 
        "value": [
          "pub.1101244863"
        ]
      }
    ], 
    "sameAs": [
      "https://doi.org/10.1038/s41598-018-22071-9", 
      "https://app.dimensions.ai/details/publication/pub.1101244863"
    ], 
    "sdDataset": "articles", 
    "sdDatePublished": "2019-04-11T11:00", 
    "sdLicense": "https://scigraph.springernature.com/explorer/license/", 
    "sdPublisher": {
      "name": "Springer Nature - SN SciGraph project", 
      "type": "Organization"
    }, 
    "sdSource": "s3://com-uberresearch-data-dimensions-target-20181106-alternative/cleanup/v134/2549eaecd7973599484d7c17b260dba0a4ecb94b/merge/v9/a6c9fde33151104705d4d7ff012ea9563521a3ce/jats-lookup/v90/0000000352_0000000352/records_60339_00000003.jsonl", 
    "type": "ScholarlyArticle", 
    "url": "https://www.nature.com/articles/s41598-018-22071-9"
  }
]
 

Download the RDF metadata as:  json-ld nt turtle xml License info

HOW TO GET THIS DATA PROGRAMMATICALLY:

JSON-LD is a popular format for linked data which is fully compatible with JSON.

curl -H 'Accept: application/ld+json' 'https://scigraph.springernature.com/pub.10.1038/s41598-018-22071-9'

N-Triples is a line-based linked data format ideal for batch operations.

curl -H 'Accept: application/n-triples' 'https://scigraph.springernature.com/pub.10.1038/s41598-018-22071-9'

Turtle is a human-readable linked data format.

curl -H 'Accept: text/turtle' 'https://scigraph.springernature.com/pub.10.1038/s41598-018-22071-9'

RDF/XML is a standard XML format for linked data.

curl -H 'Accept: application/rdf+xml' 'https://scigraph.springernature.com/pub.10.1038/s41598-018-22071-9'


 

This table displays all metadata directly associated to this object as RDF triples.

244 TRIPLES      21 PREDICATES      53 URIs      21 LITERALS      9 BLANK NODES

Subject Predicate Object
1 sg:pub.10.1038/s41598-018-22071-9 schema:about anzsrc-for:06
2 anzsrc-for:0604
3 schema:author N35688374f7b94533864abc5c3bedcde7
4 schema:citation sg:pub.10.1186/1756-0500-6-352
5 sg:pub.10.1186/s12879-017-2267-2
6 sg:pub.10.1186/s12889-015-2105-7
7 https://doi.org/10.1016/j.cub.2015.10.061
8 https://doi.org/10.1016/j.ddmec.2010.09.004
9 https://doi.org/10.1016/j.meegid.2012.02.004
10 https://doi.org/10.1016/j.meegid.2017.09.016
11 https://doi.org/10.1016/j.mimet.2006.09.001
12 https://doi.org/10.1099/jmm.0.016949-0
13 https://doi.org/10.1128/cmr.00124-14
14 https://doi.org/10.1128/jcm.00976-12
15 https://doi.org/10.1128/jcm.02257-16
16 https://doi.org/10.1128/jcm.03566-14
17 https://doi.org/10.1128/jcm.41.3.1101-1108.2003
18 https://doi.org/10.1155/2015/174732
19 https://doi.org/10.1155/2015/215015
20 https://doi.org/10.1371/journal.pone.0052841
21 https://doi.org/10.1371/journal.pone.0137865
22 https://doi.org/10.3109/00365548.2013.773068
23 https://doi.org/10.3201/1108.040982
24 https://doi.org/10.3201/eid1801.110275
25 https://doi.org/10.3201/eid1903.120256
26 https://doi.org/10.4269/ajtmh.16-0782
27 https://doi.org/10.4314/ahs.v12i3.15
28 schema:datePublished 2018-12
29 schema:datePublishedReg 2018-12-01
30 schema:description The worldwide dissemination of Mycobacterium tuberculosis strains has led to the study of their genetic diversity. One of the most used genotyping methods is spoligotyping, based on the detection of spacers in the clustered regularly interspaced short palindromic repeats (CRISPR) locus. This study assessed the performance of a microbead-based spoligotyping assay using samples extracted from Ziehl-Neelsen-stained smear-microscopy preparations and described the genetic diversity of Mycobacterium tuberculosis among new TB patients in Southern Nations, Nationalities and Peoples' Region (SNNPR) in Ethiopia. Among the 91 samples analysed, 59 (64.8%) generated spoligotyping patterns. Fifty (84.7%) samples were classified into 12 clusters (mostly Lineage 4 or 3) comprising 2-11 samples and nine had unique spoligotyping patterns. Among the 59 spoligotyping patterns, 25 belonged to the T1 sublineage, 11 to the T3-ETH, 5 to the URAL, 4 to the H3 and 14 to other L4 sublineages. There was a remarkable variation in genetic distribution in SNNPR compared to other regions of the country. Microbead-based spoligotyping is an easy-to-perform, high-throughput assay that can generate genotyping information using material obtained from smear microscopy preparations. The method provides an opportunity to obtain data of the M. tuberculosis genetic epidemiology in settings with limited laboratory resources.
31 schema:genre research_article
32 schema:inLanguage en
33 schema:isAccessibleForFree true
34 schema:isPartOf N1b9c18041b16491abe0750c8c5f648ad
35 N2934a60954374a18ae6e7012b70b0150
36 sg:journal.1045337
37 schema:name Microbead-based spoligotyping of Mycobacterium tuberculosis from Ziehl-Neelsen-stained microscopy preparations in Ethiopia
38 schema:pagination 3987
39 schema:productId N020fb1e4dc1246a39a2ac2c780d8028f
40 N0f5b1cfd52644ad09cfaed5e48fa532d
41 N64413d12e58349c799c01f4bd9ba2e81
42 Nb3011107a5414cc7aa7ca1deccd42b57
43 Nb8f7880cf6eb4b98924a410bec53ba87
44 schema:sameAs https://app.dimensions.ai/details/publication/pub.1101244863
45 https://doi.org/10.1038/s41598-018-22071-9
46 schema:sdDatePublished 2019-04-11T11:00
47 schema:sdLicense https://scigraph.springernature.com/explorer/license/
48 schema:sdPublisher N6db030da95fd4177a7a4a1c630cba6f1
49 schema:url https://www.nature.com/articles/s41598-018-22071-9
50 sgo:license sg:explorer/license/
51 sgo:sdDataset articles
52 rdf:type schema:ScholarlyArticle
53 N020fb1e4dc1246a39a2ac2c780d8028f schema:name doi
54 schema:value 10.1038/s41598-018-22071-9
55 rdf:type schema:PropertyValue
56 N024c0e2fe93b447f9382e992a19b2596 rdf:first sg:person.01272423337.83
57 rdf:rest N2645152e7fb24f59ad32dc2e78ee1467
58 N0cd510883ec24c53a2d805c6cdfff516 rdf:first sg:person.01335517335.04
59 rdf:rest N0ef9ea7c357b49c2aa0ff563f99ba373
60 N0ef9ea7c357b49c2aa0ff563f99ba373 rdf:first sg:person.011620111220.91
61 rdf:rest Na4e47c63c4ab4b5a8de51545f4ebe952
62 N0f5b1cfd52644ad09cfaed5e48fa532d schema:name dimensions_id
63 schema:value pub.1101244863
64 rdf:type schema:PropertyValue
65 N15f1d303412c486dbe5dcb6f79375f53 rdf:first sg:person.0655152104.12
66 rdf:rest N4cb152eb67ab415092075f435c04836f
67 N1b9c18041b16491abe0750c8c5f648ad schema:issueNumber 1
68 rdf:type schema:PublicationIssue
69 N2645152e7fb24f59ad32dc2e78ee1467 rdf:first sg:person.01146313215.07
70 rdf:rest N0cd510883ec24c53a2d805c6cdfff516
71 N2934a60954374a18ae6e7012b70b0150 schema:volumeNumber 8
72 rdf:type schema:PublicationVolume
73 N35688374f7b94533864abc5c3bedcde7 rdf:first sg:person.01010134472.63
74 rdf:rest N4255e0eb6200444e97d66bf38df1389c
75 N4255e0eb6200444e97d66bf38df1389c rdf:first sg:person.01263272153.50
76 rdf:rest N024c0e2fe93b447f9382e992a19b2596
77 N44b2c29a3afb4f62a5a685f27106d181 rdf:first sg:person.0626154100.59
78 rdf:rest Nebcf377fef9d4f40874f8992a1892e2b
79 N4cb152eb67ab415092075f435c04836f rdf:first sg:person.014377733652.28
80 rdf:rest Nb233383ca79a410b9f8981cf3b6fc6c1
81 N64413d12e58349c799c01f4bd9ba2e81 schema:name pubmed_id
82 schema:value 29507363
83 rdf:type schema:PropertyValue
84 N6db030da95fd4177a7a4a1c630cba6f1 schema:name Springer Nature - SN SciGraph project
85 rdf:type schema:Organization
86 Na4e47c63c4ab4b5a8de51545f4ebe952 rdf:first sg:person.0762004343.43
87 rdf:rest N44b2c29a3afb4f62a5a685f27106d181
88 Nb233383ca79a410b9f8981cf3b6fc6c1 rdf:first sg:person.0774766127.77
89 rdf:rest rdf:nil
90 Nb3011107a5414cc7aa7ca1deccd42b57 schema:name nlm_unique_id
91 schema:value 101563288
92 rdf:type schema:PropertyValue
93 Nb8f7880cf6eb4b98924a410bec53ba87 schema:name readcube_id
94 schema:value 2e764d29ec5b0a66eb7ca69d86e54050f1b48ac45e3f293d560b10a9f528d6e3
95 rdf:type schema:PropertyValue
96 Nebcf377fef9d4f40874f8992a1892e2b rdf:first sg:person.07466213627.00
97 rdf:rest N15f1d303412c486dbe5dcb6f79375f53
98 anzsrc-for:06 schema:inDefinedTermSet anzsrc-for:
99 schema:name Biological Sciences
100 rdf:type schema:DefinedTerm
101 anzsrc-for:0604 schema:inDefinedTermSet anzsrc-for:
102 schema:name Genetics
103 rdf:type schema:DefinedTerm
104 sg:journal.1045337 schema:issn 2045-2322
105 schema:name Scientific Reports
106 rdf:type schema:Periodical
107 sg:person.01010134472.63 schema:affiliation https://www.grid.ac/institutes/grid.413448.e
108 schema:familyName Molina-Moya
109 schema:givenName Barbara
110 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01010134472.63
111 rdf:type schema:Person
112 sg:person.01146313215.07 schema:affiliation https://www.grid.ac/institutes/grid.48004.38
113 schema:familyName Dacombe
114 schema:givenName Russell
115 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01146313215.07
116 rdf:type schema:Person
117 sg:person.011620111220.91 schema:affiliation https://www.grid.ac/institutes/grid.462411.4
118 schema:familyName Spinasse
119 schema:givenName Lizania
120 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.011620111220.91
121 rdf:type schema:Person
122 sg:person.01263272153.50 schema:affiliation https://www.grid.ac/institutes/grid.463619.f
123 schema:familyName Agonafir
124 schema:givenName Mulualem
125 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01263272153.50
126 rdf:type schema:Person
127 sg:person.01272423337.83 schema:affiliation https://www.grid.ac/institutes/grid.7123.7
128 schema:familyName Blanco
129 schema:givenName Silvia
130 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01272423337.83
131 rdf:type schema:Person
132 sg:person.01335517335.04 schema:affiliation https://www.grid.ac/institutes/grid.418128.6
133 schema:familyName Gomgnimbou
134 schema:givenName Michel K.
135 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01335517335.04
136 rdf:type schema:Person
137 sg:person.014377733652.28 schema:affiliation https://www.grid.ac/institutes/grid.413448.e
138 schema:familyName Dominguez
139 schema:givenName Jose
140 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.014377733652.28
141 rdf:type schema:Person
142 sg:person.0626154100.59 schema:affiliation https://www.grid.ac/institutes/grid.463619.f
143 schema:familyName Datiko
144 schema:givenName Daniel G.
145 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0626154100.59
146 rdf:type schema:Person
147 sg:person.0655152104.12 schema:affiliation https://www.grid.ac/institutes/grid.48004.38
148 schema:familyName Cuevas
149 schema:givenName Luis E.
150 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0655152104.12
151 rdf:type schema:Person
152 sg:person.07466213627.00 schema:affiliation https://www.grid.ac/institutes/grid.48004.38
153 schema:familyName Edwards
154 schema:givenName Thomas
155 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.07466213627.00
156 rdf:type schema:Person
157 sg:person.0762004343.43 schema:affiliation https://www.grid.ac/institutes/grid.452295.d
158 schema:familyName Gomes-Fernandes
159 schema:givenName Meissiner
160 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0762004343.43
161 rdf:type schema:Person
162 sg:person.0774766127.77 schema:affiliation https://www.grid.ac/institutes/grid.462411.4
163 schema:familyName Sola
164 schema:givenName Christophe
165 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0774766127.77
166 rdf:type schema:Person
167 sg:pub.10.1186/1756-0500-6-352 schema:sameAs https://app.dimensions.ai/details/publication/pub.1036235057
168 https://doi.org/10.1186/1756-0500-6-352
169 rdf:type schema:CreativeWork
170 sg:pub.10.1186/s12879-017-2267-2 schema:sameAs https://app.dimensions.ai/details/publication/pub.1084250313
171 https://doi.org/10.1186/s12879-017-2267-2
172 rdf:type schema:CreativeWork
173 sg:pub.10.1186/s12889-015-2105-7 schema:sameAs https://app.dimensions.ai/details/publication/pub.1043604833
174 https://doi.org/10.1186/s12889-015-2105-7
175 rdf:type schema:CreativeWork
176 https://doi.org/10.1016/j.cub.2015.10.061 schema:sameAs https://app.dimensions.ai/details/publication/pub.1019595756
177 rdf:type schema:CreativeWork
178 https://doi.org/10.1016/j.ddmec.2010.09.004 schema:sameAs https://app.dimensions.ai/details/publication/pub.1050524436
179 rdf:type schema:CreativeWork
180 https://doi.org/10.1016/j.meegid.2012.02.004 schema:sameAs https://app.dimensions.ai/details/publication/pub.1036863199
181 rdf:type schema:CreativeWork
182 https://doi.org/10.1016/j.meegid.2017.09.016 schema:sameAs https://app.dimensions.ai/details/publication/pub.1091807153
183 rdf:type schema:CreativeWork
184 https://doi.org/10.1016/j.mimet.2006.09.001 schema:sameAs https://app.dimensions.ai/details/publication/pub.1002659386
185 rdf:type schema:CreativeWork
186 https://doi.org/10.1099/jmm.0.016949-0 schema:sameAs https://app.dimensions.ai/details/publication/pub.1060391080
187 rdf:type schema:CreativeWork
188 https://doi.org/10.1128/cmr.00124-14 schema:sameAs https://app.dimensions.ai/details/publication/pub.1030676677
189 rdf:type schema:CreativeWork
190 https://doi.org/10.1128/jcm.00976-12 schema:sameAs https://app.dimensions.ai/details/publication/pub.1037861096
191 rdf:type schema:CreativeWork
192 https://doi.org/10.1128/jcm.02257-16 schema:sameAs https://app.dimensions.ai/details/publication/pub.1085274747
193 rdf:type schema:CreativeWork
194 https://doi.org/10.1128/jcm.03566-14 schema:sameAs https://app.dimensions.ai/details/publication/pub.1043825993
195 rdf:type schema:CreativeWork
196 https://doi.org/10.1128/jcm.41.3.1101-1108.2003 schema:sameAs https://app.dimensions.ai/details/publication/pub.1000611014
197 rdf:type schema:CreativeWork
198 https://doi.org/10.1155/2015/174732 schema:sameAs https://app.dimensions.ai/details/publication/pub.1006286757
199 rdf:type schema:CreativeWork
200 https://doi.org/10.1155/2015/215015 schema:sameAs https://app.dimensions.ai/details/publication/pub.1017041097
201 rdf:type schema:CreativeWork
202 https://doi.org/10.1371/journal.pone.0052841 schema:sameAs https://app.dimensions.ai/details/publication/pub.1008662255
203 rdf:type schema:CreativeWork
204 https://doi.org/10.1371/journal.pone.0137865 schema:sameAs https://app.dimensions.ai/details/publication/pub.1048739099
205 rdf:type schema:CreativeWork
206 https://doi.org/10.3109/00365548.2013.773068 schema:sameAs https://app.dimensions.ai/details/publication/pub.1002001528
207 rdf:type schema:CreativeWork
208 https://doi.org/10.3201/1108.040982 schema:sameAs https://app.dimensions.ai/details/publication/pub.1043494937
209 rdf:type schema:CreativeWork
210 https://doi.org/10.3201/eid1801.110275 schema:sameAs https://app.dimensions.ai/details/publication/pub.1048462755
211 rdf:type schema:CreativeWork
212 https://doi.org/10.3201/eid1903.120256 schema:sameAs https://app.dimensions.ai/details/publication/pub.1028657043
213 rdf:type schema:CreativeWork
214 https://doi.org/10.4269/ajtmh.16-0782 schema:sameAs https://app.dimensions.ai/details/publication/pub.1090648998
215 rdf:type schema:CreativeWork
216 https://doi.org/10.4314/ahs.v12i3.15 schema:sameAs https://app.dimensions.ai/details/publication/pub.1027430305
217 rdf:type schema:CreativeWork
218 https://www.grid.ac/institutes/grid.413448.e schema:alternateName Instituto de Salud Carlos III
219 schema:name CIBER Enfermedades Respiratorias (CIBERES), Instituto de Salud Carlos III, Madrid, Spain
220 Hospital Universitari Germans Trias i Pujol, Institut d’Investigació Germans Trias i Pujol, Universitat Autònoma de Barcelona, Badalona, Spain
221 rdf:type schema:Organization
222 https://www.grid.ac/institutes/grid.418128.6 schema:alternateName Centre Muraz
223 schema:name Centre Muraz, Bobo-Dioulasso, Burkina Faso
224 Institut de Biologie Intégrative de la Cellule (I2BC), CEA, CNRS, Univ. Paris-Sud, Université Paris-Saclay. Gif-sur-Yvette, Orsay, France
225 rdf:type schema:Organization
226 https://www.grid.ac/institutes/grid.452295.d schema:alternateName Coordenação de Aperfeicoamento de Pessoal de Nível Superior
227 schema:name CAPES Foundation, Ministry of Education of Brazil, Brasília, Brazil
228 CIBER Enfermedades Respiratorias (CIBERES), Instituto de Salud Carlos III, Madrid, Spain
229 Hospital Universitari Germans Trias i Pujol, Institut d’Investigació Germans Trias i Pujol, Universitat Autònoma de Barcelona, Badalona, Spain
230 rdf:type schema:Organization
231 https://www.grid.ac/institutes/grid.462411.4 schema:alternateName Institute of Integrative Biology of the Cell
232 schema:name Institut de Biologie Intégrative de la Cellule (I2BC), CEA, CNRS, Univ. Paris-Sud, Université Paris-Saclay. Gif-sur-Yvette, Orsay, France
233 rdf:type schema:Organization
234 https://www.grid.ac/institutes/grid.463619.f schema:alternateName REACH ETHIOPIA
235 schema:name Ethiopian Health and Nutrition Research Institute, Addis Ababa, Ethiopia
236 LSTM, Reach Ethiopia, Addis Ababa, Ethiopia
237 REACH ETHIOPIA, Box 303, Hawassa, Ethiopia
238 rdf:type schema:Organization
239 https://www.grid.ac/institutes/grid.48004.38 schema:alternateName Liverpool School of Tropical Medicine
240 schema:name Liverpool School of Tropical Medicine, Liverpool, UK
241 rdf:type schema:Organization
242 https://www.grid.ac/institutes/grid.7123.7 schema:alternateName Addis Ababa University
243 schema:name College of Natural Sciences, Addis Ababa University, Addis Ababa, Ethiopia
244 rdf:type schema:Organization
 




Preview window. Press ESC to close (or click here)


...