{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,7,23]],"date-time":"2026-07-23T14:11:31Z","timestamp":1784815891457,"version":"3.55.0"},"reference-count":39,"publisher":"American Society for Microbiology","issue":"11","license":[{"start":{"date-parts":[[2022,11,16]],"date-time":"2022-11-16T00:00:00Z","timestamp":1668556800000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/doi.org\/10.1128\/ASMCopyrightv2"},{"start":{"date-parts":[[2022,11,16]],"date-time":"2022-11-16T00:00:00Z","timestamp":1668556800000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/journals.asm.org\/non-commercial-tdm-license"}],"funder":[{"name":"Pathology Queensland, Study Education and Research Committee","award":["SERC 5891_HarrisP"],"award-info":[{"award-number":["SERC 5891_HarrisP"]}]},{"DOI":"10.13039\/501100001077","name":"Royal Brisbane and Women's Hospital Foundation","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100001077","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["journals.asm.org"],"crossmark-restriction":true},"short-container-title":["J Clin Microbiol"],"published-print":{"date-parts":[[2022,11,16]]},"abstract":"<jats:p>The application of direct metagenomic sequencing from positive blood culture broth may solve the challenges of sequencing from low-bacterial-load blood samples in patients with sepsis. Forty prospectively collected blood culture broth samples growing Gram-negative bacteria were extracted using commercially available kits to achieve high-quality DNA.<\/jats:p>","DOI":"10.1128\/jcm.01012-22","type":"journal-article","created":{"date-parts":[[2022,10,31]],"date-time":"2022-10-31T13:02:03Z","timestamp":1667221323000},"update-policy":"https:\/\/doi.org\/10.1128\/asmj-crossmark-policy-page","source":"Crossref","is-referenced-by-count":16,"title":["Optimized Method for Bacterial Nucleic Acid Extraction from Positive Blood Culture Broth for Whole-Genome Sequencing, Resistance Phenotype Prediction, and Downstream Molecular Applications"],"prefix":"10.1128","volume":"60","author":[{"given":"Michelle J.","family":"Bauer","sequence":"first","affiliation":[{"name":"University of Queensland, Faculty of Medicine, UQ Centre for Clinical Research, Royal Brisbane and Women\u2019s Hospital Campus, Brisbane, Australia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Anna Maria","family":"Peri","sequence":"additional","affiliation":[{"name":"University of Queensland, Faculty of Medicine, UQ Centre for Clinical Research, Royal Brisbane and Women\u2019s Hospital Campus, Brisbane, Australia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Lukas","family":"L\u00fcftinger","sequence":"additional","affiliation":[{"name":"Ares Genetics GmbH, Vienna, Austria"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Stephan","family":"Beisken","sequence":"additional","affiliation":[{"name":"Ares Genetics GmbH, Vienna, Austria"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Haakon","family":"Bergh","sequence":"additional","affiliation":[{"name":"Central Microbiology, Pathology Queensland, Royal Brisbane and Women\u2019s Hospital, Brisbane, Australia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-2264-4785","authenticated-orcid":true,"given":"Brian M.","family":"Forde","sequence":"additional","affiliation":[{"name":"University of Queensland, Faculty of Medicine, UQ Centre for Clinical Research, Royal Brisbane and Women\u2019s Hospital Campus, Brisbane, Australia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Cameron","family":"Buckley","sequence":"additional","affiliation":[{"name":"University of Queensland, Faculty of Medicine, UQ Centre for Clinical Research, Royal Brisbane and Women\u2019s Hospital Campus, Brisbane, Australia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Thom","family":"Cuddihy","sequence":"additional","affiliation":[{"name":"University of Queensland, Faculty of Medicine, UQ Centre for Clinical Research, Royal Brisbane and Women\u2019s Hospital Campus, Brisbane, Australia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Patrice","family":"Tan","sequence":"additional","affiliation":[{"name":"University of Queensland, Faculty of Medicine, UQ Centre for Clinical Research, Royal Brisbane and Women\u2019s Hospital Campus, Brisbane, Australia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-2079-4437","authenticated-orcid":true,"given":"David L.","family":"Paterson","sequence":"additional","affiliation":[{"name":"University of Queensland, Faculty of Medicine, UQ Centre for Clinical Research, Royal Brisbane and Women\u2019s Hospital Campus, Brisbane, Australia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"David M.","family":"Whiley","sequence":"additional","affiliation":[{"name":"University of Queensland, Faculty of Medicine, UQ Centre for Clinical Research, Royal Brisbane and Women\u2019s Hospital Campus, Brisbane, Australia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-2895-0345","authenticated-orcid":true,"given":"Patrick N. A.","family":"Harris","sequence":"additional","affiliation":[{"name":"University of Queensland, Faculty of Medicine, UQ Centre for Clinical Research, Royal Brisbane and Women\u2019s Hospital Campus, Brisbane, Australia"},{"name":"Central Microbiology, Pathology Queensland, Royal Brisbane and Women\u2019s Hospital, Brisbane, Australia"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"235","reference":[{"key":"e_1_3_3_2_2","doi-asserted-by":"publisher","DOI":"10.1128\/CMR.00053-14"},{"key":"e_1_3_3_3_2","doi-asserted-by":"publisher","DOI":"10.1128\/CMR.00089-17"},{"key":"e_1_3_3_4_2","doi-asserted-by":"publisher","DOI":"10.1128\/JCM.00149-11"},{"key":"e_1_3_3_5_2","doi-asserted-by":"publisher","DOI":"10.1038\/s41598-020-64616-x"},{"key":"e_1_3_3_6_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.cmi.2016.11.012"},{"key":"e_1_3_3_7_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.jmoldx.2011.10.001"},{"key":"e_1_3_3_8_2","doi-asserted-by":"publisher","DOI":"10.1093\/nargab\/lqac007"},{"key":"e_1_3_3_9_2","doi-asserted-by":"publisher","DOI":"10.1101\/gr.213959.116"},{"key":"e_1_3_3_10_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.ymeth.2016.02.020"},{"key":"e_1_3_3_11_2","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btz848"},{"key":"e_1_3_3_12_2","doi-asserted-by":"publisher","DOI":"10.1002\/cpz1.323"},{"key":"e_1_3_3_13_2","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btt086"},{"key":"e_1_3_3_14_2","doi-asserted-by":"publisher","DOI":"10.1128\/JCM.00273-20"},{"key":"e_1_3_3_15_2","doi-asserted-by":"publisher","DOI":"10.1093\/jac\/dkaa345"},{"key":"e_1_3_3_16_2","volume-title":"Verification of commercial microbial identification and antimicrobial susceptibility testing systems.","author":"Clinical and Laboratory Standards Institute","year":"2015","unstructured":"Clinical and Laboratory Standards Institute. 2015. Verification of commercial microbial identification and antimicrobial susceptibility testing systems. Clinical and Laboratory Standards Institute, Wayne, PA."},{"key":"e_1_3_3_17_2","doi-asserted-by":"publisher","DOI":"10.1128\/AAC.00483-19"},{"key":"e_1_3_3_18_2","doi-asserted-by":"publisher","DOI":"10.1038\/s41598-021-91456-0"},{"key":"e_1_3_3_19_2","doi-asserted-by":"publisher","DOI":"10.1016\/S0166-0934(00)00244-5"},{"key":"e_1_3_3_20_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.diagmicrobio.2014.05.023"},{"key":"e_1_3_3_21_2","doi-asserted-by":"publisher","DOI":"10.1186\/s12879-019-4176-z"},{"key":"e_1_3_3_22_2","doi-asserted-by":"publisher","DOI":"10.1128\/JCM.02647-10"},{"key":"e_1_3_3_23_2","volume-title":"Multiplex real-time OCR detection of Klebsiella pneumoniae carbapenemase (KPC) and New Delhi metallo-\u03b2-lactamase (NDM-1) genes.","author":"Centers for Disease Control and Prevention","year":"2011","unstructured":"Centers for Disease Control and Prevention. 2011. Multiplex real-time OCR detection of Klebsiella pneumoniae carbapenemase (KPC) and New Delhi metallo-\u03b2-lactamase (NDM-1) genes. Centers for Disease Control and Prevention, Atlanta, GA. https:\/\/www.cdc.gov\/hai\/settings\/lab\/kpc-ndm1-lab-protocol.html."},{"key":"e_1_3_3_24_2","doi-asserted-by":"publisher","DOI":"10.1128\/mSphere.00486-18"},{"key":"e_1_3_3_25_2","doi-asserted-by":"publisher","DOI":"10.1128\/JCM.40.9.3449-3454.2002"},{"key":"e_1_3_3_26_2","doi-asserted-by":"publisher","DOI":"10.1111\/1469-0691.12373"},{"key":"e_1_3_3_27_2","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0104400"},{"key":"e_1_3_3_28_2","doi-asserted-by":"publisher","DOI":"10.3390\/microorganisms10020435"},{"key":"e_1_3_3_29_2","doi-asserted-by":"publisher","DOI":"10.1128\/CMR.00006-21"},{"key":"e_1_3_3_30_2","doi-asserted-by":"publisher","DOI":"10.1038\/s41591-020-1105-z"},{"key":"e_1_3_3_31_2","doi-asserted-by":"publisher","DOI":"10.1099\/jmm.0.000855"},{"key":"e_1_3_3_32_2","doi-asserted-by":"publisher","DOI":"10.2353\/jmoldx.2009.080081"},{"key":"e_1_3_3_33_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.mimet.2006.09.003"},{"key":"e_1_3_3_34_2","doi-asserted-by":"publisher","DOI":"10.3389\/fgene.2021.620009"},{"key":"e_1_3_3_35_2","doi-asserted-by":"publisher","DOI":"10.1128\/JCM.36.10.2810-2816.1998"},{"key":"e_1_3_3_36_2","doi-asserted-by":"publisher","DOI":"10.1099\/mgen.0.000631"},{"key":"e_1_3_3_37_2","first-page":"S36","article-title":"Complementary DNA shearing and size-selection tools for mate-pair library construction","volume":"23","author":"Durin G","year":"2012","unstructured":"Durin G, Boles C, Ventura P. 2012. Complementary DNA shearing and size-selection tools for mate-pair library construction. J Biomol Tech 23:S36\u2013S37.","journal-title":"J Biomol Tech"},{"key":"e_1_3_3_38_2","doi-asserted-by":"publisher","DOI":"10.1038\/nmeth.f.397"},{"key":"e_1_3_3_39_2","doi-asserted-by":"publisher","DOI":"10.1186\/1756-0500-1-70"},{"key":"e_1_3_3_40_2","doi-asserted-by":"publisher","DOI":"10.1080\/14787210.2022.2013806"}],"container-title":["Journal of Clinical Microbiology"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/journals.asm.org\/doi\/pdf\/10.1128\/jcm.01012-22","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/journals.asm.org\/doi\/pdf\/10.1128\/jcm.01012-22","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2022,11,16]],"date-time":"2022-11-16T14:03:13Z","timestamp":1668607393000},"score":1,"resource":{"primary":{"URL":"https:\/\/journals.asm.org\/doi\/10.1128\/jcm.01012-22"}},"subtitle":[],"editor":[{"given":"Nathan A.","family":"Ledeboer","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"editor"}]}],"short-title":[],"issued":{"date-parts":[[2022,11,16]]},"references-count":39,"journal-issue":{"issue":"11","published-print":{"date-parts":[[2022,11,16]]}},"alternative-id":["10.1128\/jcm.01012-22"],"URL":"https:\/\/doi.org\/10.1128\/jcm.01012-22","relation":{},"ISSN":["0095-1137","1098-660X"],"issn-type":[{"value":"0095-1137","type":"print"},{"value":"1098-660X","type":"electronic"}],"subject":[],"published":{"date-parts":[[2022,11,16]]},"assertion":[{"value":"2022-07-10","order":0,"name":"received","label":"Received","group":{"name":"publication_history","label":"Publication History"}},{"value":"2022-10-03","order":1,"name":"accepted","label":"Accepted","group":{"name":"publication_history","label":"Publication History"}},{"value":"2022-10-31","order":2,"name":"published","label":"Published","group":{"name":"publication_history","label":"Publication History"}}],"article-number":"e01012-22"}}