{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,9,20]],"date-time":"2026-09-20T05:29:47Z","timestamp":1789882187886,"version":"4.0.1"},"reference-count":31,"publisher":"American Society for Microbiology","issue":"11","license":[{"start":{"date-parts":[[2013,11,1]],"date-time":"2013-11-01T00:00:00Z","timestamp":1383264000000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/journals.asm.org\/non-commercial-tdm-license"}],"content-domain":{"domain":["journals.asm.org"],"crossmark-restriction":true},"short-container-title":["J Clin Microbiol"],"published-print":{"date-parts":[[2013,11]]},"abstract":"ABSTRACT<\/jats:title>\n \n This study compares the identification, typing, and phylogenetic relationships of the most prevalent clinical\n Nocardia<\/jats:named-content>\n species in Spain, as determined via sequence analysis of their housekeeping genes\n gyrB<\/jats:italic>\n and\n rpoB<\/jats:italic>\n , with the results returned by the gold standard 16S rRNA method.\n gyrB<\/jats:italic>\n and\n rpoB<\/jats:italic>\n analyses identified\n Nocardia abscessus<\/jats:named-content>\n ,\n N. cyriacigeorgica<\/jats:named-content>\n ,\n N. farcinica<\/jats:named-content>\n , and the\n N. nova<\/jats:named-content>\n complex, species that together account for more than half of the human nocardiosis cases recorded in Spain. The individual discriminatory power of\n gyrB<\/jats:italic>\n and\n rpoB<\/jats:italic>\n with respect to intraspecies typing, calculated using the Hunter-Gaston discriminatory index (HGDI), was generally high (HGDI, 0.85 to 1), except for\n rpoB<\/jats:italic>\n with respect to\n N. farcinica<\/jats:named-content>\n (HGDI, 0.71). Phylogenetically, different degrees of intra- and interspecies microheterogeneity were observed for\n gyrB<\/jats:italic>\n and\n rpoB<\/jats:italic>\n in a group of 119 clinical strains. A single 16S haplotype was obtained for each species, except for the\n N. nova<\/jats:named-content>\n complex (8 types), while\n gyrB<\/jats:italic>\n and\n rpoB<\/jats:italic>\n were more polymorphic:\n N. abscessus<\/jats:named-content>\n had 14 and 18 haplotypes,\n N. cyriacigeorgica<\/jats:named-content>\n had 17 and 12,\n N. farcinica<\/jats:named-content>\n had 11 and 5, and the\n N. nova<\/jats:named-content>\n complex had 26 and 29 haplotypes, respectively. A diversity gradient was therefore seen, with\n N. farcinica<\/jats:named-content>\n at the bottom followed by\n N. abscessus<\/jats:named-content>\n and\n N. cyriacigeorgica<\/jats:named-content>\n in the middle and\n N. nova<\/jats:named-content>\n complex at the top. The complexity of the\n N. nova<\/jats:named-content>\n complex is highlighted by its six variations in the GyrB\n 126<\/jats:sup>\n AAAPEH motif.\n gyrB<\/jats:italic>\n sequencing (with or without\n rpoB<\/jats:italic>\n sequencing) offers a simple means for identifying the most prevalent\n Nocardia<\/jats:named-content>\n species in Spanish medical laboratories and for determining the intraspecific diversity among their strains.\n <\/jats:p>","DOI":"10.1128\/jcm.00515-13","type":"journal-article","created":{"date-parts":[[2013,8,22]],"date-time":"2013-08-22T04:05:55Z","timestamp":1377144355000},"page":"3602-3608","update-policy":"https:\/\/doi.org\/10.1128\/asmj-crossmark-policy-page","source":"Crossref","is-referenced-by-count":39,"title":["Identification, Typing, and Phylogenetic Relationships of the Main Clinical Nocardia Species in Spain According to Their\n gyrB<\/i>\n and\n rpoB<\/i>\n Genes"],"prefix":"10.1128","volume":"51","author":[{"given":"Gema","family":"Carrasco","sequence":"first","affiliation":[{"name":"Laboratorio de Taxonom\u00eda, Servicio de Bacteriolog\u00eda, Centro Nacional de Microbiolog\u00eda, Instituto de Salud Carlos III, Majadahonda, Madrid, Spain"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Sylvia","family":"Valdezate","sequence":"additional","affiliation":[{"name":"Laboratorio de Taxonom\u00eda, Servicio de Bacteriolog\u00eda, Centro Nacional de Microbiolog\u00eda, Instituto de Salud Carlos III, Majadahonda, Madrid, Spain"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Noelia","family":"Garrido","sequence":"additional","affiliation":[{"name":"Laboratorio de Taxonom\u00eda, Servicio de Bacteriolog\u00eda, Centro Nacional de Microbiolog\u00eda, Instituto de Salud Carlos III, Majadahonda, Madrid, Spain"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Pilar","family":"Villal\u00f3n","sequence":"additional","affiliation":[{"name":"Laboratorio de Taxonom\u00eda, Servicio de Bacteriolog\u00eda, Centro Nacional de Microbiolog\u00eda, Instituto de Salud Carlos III, Majadahonda, Madrid, Spain"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Maria J.","family":"Medina-Pascual","sequence":"additional","affiliation":[{"name":"Laboratorio de Taxonom\u00eda, Servicio de Bacteriolog\u00eda, Centro Nacional de Microbiolog\u00eda, Instituto de Salud Carlos III, Majadahonda, Madrid, Spain"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Juan A.","family":"S\u00e1ez-Nieto","sequence":"additional","affiliation":[{"name":"Laboratorio de Taxonom\u00eda, Servicio de Bacteriolog\u00eda, Centro Nacional de Microbiolog\u00eda, Instituto de Salud Carlos III, Majadahonda, Madrid, Spain"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"235","reference":[{"key":"e_1_3_3_2_2","doi-asserted-by":"publisher","DOI":"10.1128\/CMR.19.2.259-282.2006"},{"key":"e_1_3_3_3_2","doi-asserted-by":"publisher","DOI":"10.1099\/ijs.0.015594-0"},{"key":"e_1_3_3_4_2","doi-asserted-by":"publisher","DOI":"10.1099\/ijs.0.020370-0"},{"key":"e_1_3_3_5_2","doi-asserted-by":"publisher","DOI":"10.1128\/JCM.41.10.4497-4501.2003"},{"key":"e_1_3_3_6_2","doi-asserted-by":"publisher","DOI":"10.1111\/j.1469-0691.2008.02070.x"},{"key":"e_1_3_3_7_2","doi-asserted-by":"publisher","DOI":"10.1128\/JCM.00883-10"},{"key":"e_1_3_3_8_2","doi-asserted-by":"publisher","DOI":"10.1128\/JCM.44.2.536-546.2006"},{"key":"e_1_3_3_9_2","doi-asserted-by":"publisher","DOI":"10.1128\/JCM.01113-10"},{"key":"e_1_3_3_10_2","doi-asserted-by":"publisher","DOI":"10.1099\/jmm.0.011346-0"},{"key":"e_1_3_3_11_2","doi-asserted-by":"publisher","DOI":"10.1128\/AEM.01177-06"},{"key":"e_1_3_3_12_2","doi-asserted-by":"publisher","DOI":"10.1007\/s10482-012-9780-5"},{"key":"e_1_3_3_13_2","doi-asserted-by":"publisher","DOI":"10.1099\/ijs.0.63222-0"},{"key":"e_1_3_3_14_2","doi-asserted-by":"publisher","DOI":"10.1128\/JCM.26.11.2465-2466.1988"},{"key":"e_1_3_3_15_2","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btp187"},{"key":"e_1_3_3_16_2","doi-asserted-by":"publisher","DOI":"10.1093\/molbev\/msm092"},{"key":"e_1_3_3_17_2","first-page":"406","article-title":"The neighbor-joining method: a new method for constructing phylogenetic trees","volume":"4","author":"Saitou N","year":"1987","unstructured":"SaitouN NeiM. 1987. 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