Assessment of the N-PCR Assay in Diagnosis of Pleural Tuberculosis: Detection of M.tuberculosis in Pleural Fluid and Sputum Collected in Tandem
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{"title"=>"Assessment of the N-PCR assay in diagnosis of pleural tuberculosis: Detection of M.tuberculosis in pleural fluid and sputum collected in Tandem", "type"=>"journal", "authors"=>[{"first_name"=>"Parameet", "last_name"=>"Kumar", "scopus_author_id"=>"33767732100"}, {"first_name"=>"Manas K.", "last_name"=>"Sen", "scopus_author_id"=>"8645853800"}, {"first_name"=>"Devendra S.", "last_name"=>"Chauhan", "scopus_author_id"=>"21739091900"}, {"first_name"=>"Vishwa M.", "last_name"=>"Katoch", "scopus_author_id"=>"35447695000"}, {"first_name"=>"Sarman", "last_name"=>"Singh", "scopus_author_id"=>"7407872558"}, {"first_name"=>"Hanumanthappa K.", "last_name"=>"Prasad", "scopus_author_id"=>"7007007629"}], "year"=>2010, "source"=>"PLoS ONE", "identifiers"=>{"sgr"=>"77956307597", "pmid"=>"20419090", "pui"=>"359482271", "isbn"=>"1932-6203 (Electronic)\\r1932-6203 (Linking)", "scopus"=>"2-s2.0-77956307597", "doi"=>"10.1371/journal.pone.0010220", "issn"=>"19326203"}, "id"=>"45cb96c0-984d-34c4-a290-a1c6358746da", "abstract"=>"BACKGROUND: The nonspecific clinical presentation and paucibacillary nature of tuberculous pleuritis remains a challenge for diagnosis. Diagnosis of tuberculous pleural effusion depends on the demonstration of the presence of tubercle bacilli in the sputum, pleural fluid, or pleural biopsy specimen, or demonstration of granuloma in pleura by histological examination. We examined the clinical utility of the diagnosis of pleural tuberculosis using the in house N-PCR assay, AFB smear microscopy and culture. Besides pleural fluid the inclusion of sputum in the efficacy of diagnosis of pleural tuberculosis was scrutinized.\\n\\nMETHODOLOGY/PRINCIPAL FINDINGS: Pleural fluid and sputum samples of 58 tuberculous and 42 non-tuberculous pleural effusion patients were processed for AFB smear microscopy, culture and the N-PCR assay. Mycobacteria were detected exclusively in tuberculous pleural effusion samples. None of the non-tuberculous pleural effusion samples were positive for mycobacteria. Comparative analysis showed that the N-PCR assay had the highest sensitivity. Inclusion of sputum along with pleural fluid increased N-PCR sensitivity from 51.7 to 70.6% (p<0.0001).This improved sensitivity was reflected in AFB smear microscopy and isolation by culture. The sensitivity enhanced on inclusion of sputum from 3.4 (p = 0.50) to 10.3% (p = 0.038) for AFB smear microscopy and for isolation of mycobacteria from 10.3(p = 0.03) to 22.4% (p = 0.0005). Thirteen isolates were obtained from 58 pleural tuberculosis patients. Eleven mycobacterial isolates were identified as M. tuberculosis and two as M. fortuitum and M. chelonae. Complete concordance was seen between the biochemical identification of isolates and the N-PCR identification of mycobacterial species prior to isolation.\\n\\nCONCLUSIONS/SIGNIFICANCE: To the best of our knowledge this is the first PCR based report on utility of sputum for diagnosis of pleural tuberculosis. The present study demonstrates that a combination of pleural fluid with sputum sample and N-PCR improved the diagnosis of pleural tuberculosis.", "link"=>"http://www.mendeley.com/research/assessment-npcr-assay-diagnosis-pleural-tuberculosis-detection-mtuberculosis-pleural-fluid-sputum-co", "reader_count"=>38, "reader_count_by_academic_status"=>{"Unspecified"=>2, "Student > Doctoral Student"=>1, "Researcher"=>7, "Student > Ph. D. Student"=>11, "Student > Postgraduate"=>1, "Student > Master"=>7, "Other"=>3, "Student > Bachelor"=>1, "Lecturer"=>2, "Professor"=>3}, "reader_count_by_user_role"=>{"Unspecified"=>2, "Student > Doctoral Student"=>1, "Researcher"=>7, "Student > Ph. D. Student"=>11, "Student > Postgraduate"=>1, "Student > Master"=>7, "Other"=>3, "Student > Bachelor"=>1, "Lecturer"=>2, "Professor"=>3}, "reader_count_by_subject_area"=>{"Unspecified"=>4, "Biochemistry, Genetics and Molecular Biology"=>2, "Medicine and Dentistry"=>19, "Agricultural and Biological Sciences"=>11, "Chemistry"=>1, "Immunology and Microbiology"=>1}, "reader_count_by_subdiscipline"=>{"Medicine and Dentistry"=>{"Medicine and Dentistry"=>19}, "Chemistry"=>{"Chemistry"=>1}, "Immunology and Microbiology"=>{"Immunology and Microbiology"=>1}, "Agricultural and Biological Sciences"=>{"Agricultural and Biological Sciences"=>11}, "Biochemistry, Genetics and Molecular Biology"=>{"Biochemistry, Genetics and Molecular Biology"=>2}, "Unspecified"=>{"Unspecified"=>4}}, "reader_count_by_country"=>{"Colombia"=>1, "Egypt"=>1, "Brazil"=>2, "United Kingdom"=>1, "Australia"=>1}, "group_count"=>0}

Scopus | Further Information

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  • {"files"=>["https://ndownloader.figshare.com/files/853367"], "description"=>"<p><b>NOTE</b>. PPV, positive predictive value; NPV, negative predictive value; OR, odds ratio; CI, confidence interval.</p>*<p>Categorized based on detection of AFB by smear microscopy/isolation by culture.</p>**<p>Categorized based on clinical criteria detailed in <a href=\"http://www.plosone.org/article/info:doi/10.1371/journal.pone.0010220#s2\" target=\"_blank\">methods</a>, but no AFB detected smear microscopy/isolation by culture.</p><p>ns  =  not significant.</p>", "links"=>[], "tags"=>["n-pcr", "assay", "samples", "derived", "58", "clinically", "diagnosed", "tuberculous", "pleural", "effusion", "16", "afb", "42"], "article_id"=>523808, "categories"=>["Infectious Diseases", "Microbiology", "Medicine"], "users"=>["Parameet Kumar", "Manas K. Sen", "Devendra S. Chauhan", "Vishwa M. Katoch", "Sarman Singh", "Hanumanthappa K. Prasad"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0010220.t004", "stats"=>{"downloads"=>1, "page_views"=>7, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Comparison_of_N_PCR_assay_results_of_samples_derived_from_58_clinically_diagnosed_tuberculous_pleural_effusion_patients_16_AFB_positive_Vs_42_AFB_Negative_samples_/523808", "title"=>"Comparison of N-PCR assay results of samples derived from 58 clinically diagnosed tuberculous pleural effusion patients: 16 AFB positive Vs 42 AFB Negative samples.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2013-02-21 01:45:02"}
  • {"files"=>["https://ndownloader.figshare.com/files/853467"], "description"=>"<p><b>NOTE</b>. Clinical diagnosis, Categorization of patients and controls as describe in <a href=\"http://www.plosone.org/article/info:doi/10.1371/journal.pone.0010220#s2\" target=\"_blank\">methods</a>; PPV, positive predictive value; NPV, negative predictive value; Sensitivity, TP/(TP+ FN) x 100, where T is true, F is false, P is positive, and N is negative; Specificity, TN/(TN+ FP) x 100; N-PCR, 116 bp amplicon generated by Nested-PCR assay specific for <i>Mycobacterium tuberculosis</i>; Culture, AFB Growth detected on LJ, 7H9 and/MGIT; AFB, acid fast bacilli.</p>", "links"=>[], "tags"=>["70", "sputum", "samples", "afb"], "article_id"=>523920, "categories"=>["Infectious Diseases", "Microbiology", "Medicine"], "users"=>["Parameet Kumar", "Manas K. Sen", "Devendra S. Chauhan", "Vishwa M. Katoch", "Sarman Singh", "Hanumanthappa K. Prasad"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0010220.t002", "stats"=>{"downloads"=>1, "page_views"=>10, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Comparative_analysis_of_70_sputum_samples_with_N_PCR_Culture_and_AFB_with_clinical_diagnosis_/523920", "title"=>"Comparative analysis of 70 sputum samples with N-PCR, Culture and AFB with clinical diagnosis.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2013-02-21 01:45:35"}
  • {"files"=>["https://ndownloader.figshare.com/files/853322"], "description"=>"<p><b>NOTE</b>. AFB, acid fast bacilli; N-PCR, 116 bp amplicon generated by Nested-PCR assay specific for <i>Mycobacterium tuberculosis</i>; Culture, AFB Growth detected on LJ, 7H9 and/MGIT; Biochemical characterization of the isolates, detailed in <a href=\"http://www.plosone.org/article/info:doi/10.1371/journal.pone.0010220#s2\" target=\"_blank\">methods</a>.</p>", "links"=>[], "tags"=>["detection", "mycobacteria", "confirmed", "tuberculous", "pleural", "effusion", "samples", "n-pcr", "assay", "afb", "biochemical"], "article_id"=>523763, "categories"=>["Infectious Diseases", "Microbiology", "Medicine"], "users"=>["Parameet Kumar", "Manas K. Sen", "Devendra S. Chauhan", "Vishwa M. Katoch", "Sarman Singh", "Hanumanthappa K. Prasad"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0010220.t005", "stats"=>{"downloads"=>3, "page_views"=>10, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Correlation_of_direct_detection_of_Mycobacteria_in_confirmed_tuberculous_pleural_effusion_samples_by_N_PCR_assay_Vs_Detection_of_AFB_by_microscopy_isolation_by_culture_and_biochemical_identification_of_the_isolates_/523763", "title"=>"Correlation of direct detection of Mycobacteria in confirmed tuberculous pleural effusion samples by N-PCR assay Vs Detection of AFB by microscopy, isolation by culture and biochemical identification of the isolates.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2013-02-21 01:44:43"}
  • {"files"=>["https://ndownloader.figshare.com/files/853501"], "description"=>"<p><b>NOTE</b>. Clinical diagnosis, Categorization of patients and controls as describe in <a href=\"http://www.plosone.org/article/info:doi/10.1371/journal.pone.0010220#s2\" target=\"_blank\">methods</a>; PPV, positive predictive value; NPV, negative predictive value; Sensitivity, TP/(TP+ FN) x 100, where T is true, F is false, P is positive, and N is negative; Specificity, TN/(TN+ FP) x 100; N-PCR, 116 bp amplicon generated by Nested-PCR assay specific for <i>Mycobacterium tuberculosis</i>; Culture, AFB Growth detected on LJ, 7H9 and/MGIT; AFB, acid fast bacilli.</p>", "links"=>[], "tags"=>["100", "pleural", "samples", "afb"], "article_id"=>523956, "categories"=>["Infectious Diseases", "Microbiology", "Medicine"], "users"=>["Parameet Kumar", "Manas K. Sen", "Devendra S. Chauhan", "Vishwa M. Katoch", "Sarman Singh", "Hanumanthappa K. Prasad"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0010220.t001", "stats"=>{"downloads"=>8, "page_views"=>10, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Comparative_analysis_of_100_Pleural_fluid_samples_with_N_PCR_Culture_and_AFB_with_clinical_diagnosis_/523956", "title"=>"Comparative analysis of 100 Pleural fluid samples with N-PCR, Culture and AFB with clinical diagnosis.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2013-02-21 01:45:47"}
  • {"files"=>["https://ndownloader.figshare.com/files/853433"], "description"=>"<p><b>NOTE</b>. AFB, acid fast bacilli; N-PCR, 116 bp amplicon generated by Nested-PCR assay specific for <i>Mycobacterium tuberculosis</i>; Culture, AFB Growth detected on LJ, 7H9 and/MGIT.</p>", "links"=>[], "tags"=>["mycobacterial", "pathogens", "sputum", "pleural", "samples", "tandem", "58", "clinically", "suspected", "tuberculous", "effusion", "patients", "afb", "smear"], "article_id"=>523869, "categories"=>["Infectious Diseases", "Microbiology", "Medicine"], "users"=>["Parameet Kumar", "Manas K. Sen", "Devendra S. Chauhan", "Vishwa M. Katoch", "Sarman Singh", "Hanumanthappa K. Prasad"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0010220.t003", "stats"=>{"downloads"=>1, "page_views"=>13, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Detection_amp_distribution_of_mycobacterial_pathogens_in_sputum_amp_pleural_fluid_samples_collected_in_tandem_from_58_clinically_suspected_tuberculous_pleural_effusion_patients_by_N_PCR_Culture_amp_AFB_smear_microscopy_/523869", "title"=>"Detection & distribution of mycobacterial pathogens in sputum & pleural fluid samples collected in tandem from 58 clinically suspected tuberculous pleural effusion patients by N-PCR, Culture & AFB smear microscopy.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2013-02-21 01:45:18"}

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