{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,10,22]],"date-time":"2025-10-22T10:27:18Z","timestamp":1761128838929},"reference-count":24,"publisher":"American Society for Microbiology","issue":"11","license":[{"start":{"date-parts":[[2010,11,1]],"date-time":"2010-11-01T00:00:00Z","timestamp":1288569600000},"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":[[2010,11]]},"abstract":"ABSTRACT<\/jats:title>\n \n Sequence analysis of the\n Nocardia<\/jats:italic>\n essential secretory protein SecA1 gene (\n secA1<\/jats:italic>\n ) for species identification of 120 American Type Culture Collection (ATCC) and clinical isolates of\n Nocardia<\/jats:italic>\n (16 species) was studied in comparison with 5\u2032-end 606-bp 16S rRNA gene sequencing. Species determination by both methods was concordant for all 10 ATCC strains.\n secA1<\/jats:italic>\n gene sequencing provided the same species identification as 16S rRNA gene analysis for 94\/110 (85.5%) clinical isolates. However, 40 (42.6%) isolates had sequences with <99.0% similarity to archived\n secA1<\/jats:italic>\n sequences for the species, including 29\n Nocardia cyriacigeorgica<\/jats:italic>\n (96.6 to 98.9% similarity) and 4\n Nocardia veterana<\/jats:italic>\n (91.5 to 98.9% similarity) strains. Discrepant species identification was obtained for 16 (14.5%) clinical isolates, including 13\/23\n Nocardia nova<\/jats:italic>\n strains (identified as various\n Nocardia<\/jats:italic>\n species by\n secA1<\/jats:italic>\n sequencing) and 1 isolate each of\n Nocardia abscessus<\/jats:italic>\n (identified as\n Nocardia asiatica<\/jats:italic>\n ),\n Nocardia elegans<\/jats:italic>\n (\n Nocardia africana<\/jats:italic>\n ), and\n Nocardia transvalensis<\/jats:italic>\n (\n Nocardia blacklockiae<\/jats:italic>\n ); both\n secA1<\/jats:italic>\n gene sequence analysis and deduced amino acid sequence analysis determined the species to be different from those assigned by 16S rRNA gene sequencing. The\n secA1<\/jats:italic>\n locus showed high sequence diversity (66 sequence or genetic types versus 40 16S rRNA gene sequence types), which was highest for\n N. nova<\/jats:italic>\n (14\n secA1<\/jats:italic>\n sequence types), followed by\n Nocardia farcinica<\/jats:italic>\n and\n N. veterana<\/jats:italic>\n (\n n<\/jats:italic>\n = 7 each); there was only a single sequence type among eight\n Nocardia paucivorans<\/jats:italic>\n strains. The\n secA1<\/jats:italic>\n locus has potential for species identification as an adjunct to 16S rRNA gene sequencing but requires additional deduced amino acid sequence analysis. It may be a suitable marker for phylogenetic\/subtyping studies.\n <\/jats:p>","DOI":"10.1128\/jcm.01113-10","type":"journal-article","created":{"date-parts":[[2010,9,2]],"date-time":"2010-09-02T02:49:35Z","timestamp":1283395775000},"page":"3928-3934","update-policy":"http:\/\/dx.doi.org\/10.1128\/asmj-crossmark-policy-page","source":"Crossref","is-referenced-by-count":41,"title":["secA1<\/i>\n Gene Sequence Polymorphisms for Species Identification of\n Nocardia<\/i>\n Species and Recognition of Intraspecies Genetic Diversity"],"prefix":"10.1128","volume":"48","author":[{"given":"Fanrong","family":"Kong","sequence":"first","affiliation":[{"name":"Centre for Infectious Diseases and Microbiology, University of Sydney, Westmead Hospital, Westmead, New South Wales, Australia"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Huiping","family":"Wang","sequence":"additional","affiliation":[{"name":"Department of Dermatology, Tianjin Medical University General Hospital, Tianjin, People's Republic of China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Erqing","family":"Zhang","sequence":"additional","affiliation":[{"name":"Department of Infectious Diseases, Beijing Children's Hospital, Capital Medical University, Beijing, People's Republic of China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Vitali","family":"Sintchenko","sequence":"additional","affiliation":[{"name":"Centre for Infectious Diseases and Microbiology, University of Sydney, Westmead Hospital, Westmead, New South Wales, Australia"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Meng","family":"Xiao","sequence":"additional","affiliation":[{"name":"Life Science College, Peking University, Beijing, People's Republic of China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Tania C.","family":"Sorrell","sequence":"additional","affiliation":[{"name":"Centre for Infectious Diseases and Microbiology, University of Sydney, Westmead Hospital, Westmead, New South Wales, Australia"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Xiaoyou","family":"Chen","sequence":"additional","affiliation":[{"name":"Department of Tuberculosis, Beijing Tuberculosis and Thoracic Tumour Research Institute, Beijing, People's Republic of China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Sharon C.-A.","family":"Chen","sequence":"additional","affiliation":[{"name":"Centre for Infectious Diseases and Microbiology, University of Sydney, Westmead Hospital, Westmead, New South Wales, 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