A novel approach - the propensity to propagate (PTP) method for controlling for host factors in studying the transmission of Mycobacterium tuberculosis
Understanding the genetic variations among Mycobacterium tuberculosis (MTB) strains with differential ability to transmit would be a major step forward in preventing transmission. To describe a method to extend conventional proxy measures of transmissibility by adjusting for patient-related factors,...
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| Veröffentlicht in: | PloS one 2014-05, Vol.9 (5), p.e97816-e97816 |
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| creator | Nebenzahl-Guimaraes, Hanna Borgdorff, Martien W Murray, Megan B van Soolingen, Dick |
| description | Understanding the genetic variations among Mycobacterium tuberculosis (MTB) strains with differential ability to transmit would be a major step forward in preventing transmission.
To describe a method to extend conventional proxy measures of transmissibility by adjusting for patient-related factors, thus strengthening the causal association found with bacterial factors.
Clinical, demographic and molecular fingerprinting data were obtained during routine surveillance of verified MTB cases reported in the Netherlands between 1993 and 2011, and the phylogenetic lineages of the isolates were inferred. Odds ratios for host risk factors for clustering were used to obtain a measure of each patient's and cluster's propensity to propagate (CPP). Mean and median cluster sizes across different categories of CPP were compared amongst four different phylogenetic lineages.
Both mean and median cluster size grew with increasing CPP category. On average, CPP values from Euro-American lineage strains were higher than Beijing and EAI strains. There were no significant differences between the mean and median cluster sizes among the four phylogenetic lineages within each CPP category.
Our finding that the distribution of CPP scores was unequal across four different phylogenetic lineages supports the notion that host-related factors should be controlled for to attain comparability in measuring the different phylogenetic lineages' ability to propagate. Although Euro-American strains were more likely to be in clusters in an unadjusted analysis, no significant differences among the four lineages persisted after we controlled for host factors. |
| doi_str_mv | 10.1371/journal.pone.0097816 |
| format | Article |
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To describe a method to extend conventional proxy measures of transmissibility by adjusting for patient-related factors, thus strengthening the causal association found with bacterial factors.
Clinical, demographic and molecular fingerprinting data were obtained during routine surveillance of verified MTB cases reported in the Netherlands between 1993 and 2011, and the phylogenetic lineages of the isolates were inferred. Odds ratios for host risk factors for clustering were used to obtain a measure of each patient's and cluster's propensity to propagate (CPP). Mean and median cluster sizes across different categories of CPP were compared amongst four different phylogenetic lineages.
Both mean and median cluster size grew with increasing CPP category. On average, CPP values from Euro-American lineage strains were higher than Beijing and EAI strains. There were no significant differences between the mean and median cluster sizes among the four phylogenetic lineages within each CPP category.
Our finding that the distribution of CPP scores was unequal across four different phylogenetic lineages supports the notion that host-related factors should be controlled for to attain comparability in measuring the different phylogenetic lineages' ability to propagate. Although Euro-American strains were more likely to be in clusters in an unadjusted analysis, no significant differences among the four lineages persisted after we controlled for host factors.</description><identifier>ISSN: 1932-6203</identifier><identifier>EISSN: 1932-6203</identifier><identifier>DOI: 10.1371/journal.pone.0097816</identifier><identifier>PMID: 24849817</identifier><language>eng</language><publisher>United States: Public Library of Science</publisher><subject>Adolescent ; Adult ; Aged ; Aged, 80 and over ; Biology and Life Sciences ; Chemical fingerprinting ; Child ; Child, Preschool ; Classification ; Cluster Analysis ; Clustering ; Demographics ; Deoxyribonucleic acid ; DNA ; Drug resistance ; Epidemiologic Methods ; Epidemiology ; Female ; Fingerprinting ; Genetic diversity ; Genetic Variation ; Genetics ; Genotype & phenotype ; Health sciences ; Homeless people ; Humans ; Identification ; Infant ; Infant, Newborn ; Laboratories ; Lineage ; Male ; Medical diagnosis ; Medicine and Health Sciences ; Methods ; Middle Aged ; Mycobacterium tuberculosis ; Mycobacterium tuberculosis - genetics ; Mycobacterium tuberculosis - physiology ; Patients ; Phylogenetics ; Phylogeny ; Public health ; Risk analysis ; Risk factors ; Strains (organisms) ; Surveillance ; Tuberculosis ; Tuberculosis - epidemiology ; Tuberculosis - transmission ; Young Adult</subject><ispartof>PloS one, 2014-05, Vol.9 (5), p.e97816-e97816</ispartof><rights>COPYRIGHT 2014 Public Library of Science</rights><rights>2014 Nebenzahl-Guimaraes et al. This is an open-access article distributed under the terms of the Creative Commons Attribution License: http://creativecommons.org/licenses/by/4.0/ (the “License”), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License.</rights><rights>2014 Nebenzahl-Guimaraes et al 2014 Nebenzahl-Guimaraes et al</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c618t-397a5d380dbd8a320762ec0780b25dff84f051ae5d1287f1df2176df8bc692c23</citedby><cites>FETCH-LOGICAL-c618t-397a5d380dbd8a320762ec0780b25dff84f051ae5d1287f1df2176df8bc692c23</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC4029888/pdf/$$EPDF$$P50$$Gpubmedcentral$$Hfree_for_read</linktopdf><linktohtml>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC4029888/$$EHTML$$P50$$Gpubmedcentral$$Hfree_for_read</linktohtml><link.rule.ids>230,314,727,780,784,864,885,2102,2928,23866,27344,27924,27925,33774,53791,53793,79600,79601</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/24849817$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><contributor>Neyrolles, Olivier</contributor><creatorcontrib>Nebenzahl-Guimaraes, Hanna</creatorcontrib><creatorcontrib>Borgdorff, Martien W</creatorcontrib><creatorcontrib>Murray, Megan B</creatorcontrib><creatorcontrib>van Soolingen, Dick</creatorcontrib><title>A novel approach - the propensity to propagate (PTP) method for controlling for host factors in studying the transmission of Mycobacterium tuberculosis</title><title>PloS one</title><addtitle>PLoS One</addtitle><description>Understanding the genetic variations among Mycobacterium tuberculosis (MTB) strains with differential ability to transmit would be a major step forward in preventing transmission.
To describe a method to extend conventional proxy measures of transmissibility by adjusting for patient-related factors, thus strengthening the causal association found with bacterial factors.
Clinical, demographic and molecular fingerprinting data were obtained during routine surveillance of verified MTB cases reported in the Netherlands between 1993 and 2011, and the phylogenetic lineages of the isolates were inferred. Odds ratios for host risk factors for clustering were used to obtain a measure of each patient's and cluster's propensity to propagate (CPP). Mean and median cluster sizes across different categories of CPP were compared amongst four different phylogenetic lineages.
Both mean and median cluster size grew with increasing CPP category. On average, CPP values from Euro-American lineage strains were higher than Beijing and EAI strains. There were no significant differences between the mean and median cluster sizes among the four phylogenetic lineages within each CPP category.
Our finding that the distribution of CPP scores was unequal across four different phylogenetic lineages supports the notion that host-related factors should be controlled for to attain comparability in measuring the different phylogenetic lineages' ability to propagate. Although Euro-American strains were more likely to be in clusters in an unadjusted analysis, no significant differences among the four lineages persisted after we controlled for host factors.</description><subject>Adolescent</subject><subject>Adult</subject><subject>Aged</subject><subject>Aged, 80 and over</subject><subject>Biology and Life Sciences</subject><subject>Chemical fingerprinting</subject><subject>Child</subject><subject>Child, Preschool</subject><subject>Classification</subject><subject>Cluster Analysis</subject><subject>Clustering</subject><subject>Demographics</subject><subject>Deoxyribonucleic acid</subject><subject>DNA</subject><subject>Drug resistance</subject><subject>Epidemiologic Methods</subject><subject>Epidemiology</subject><subject>Female</subject><subject>Fingerprinting</subject><subject>Genetic diversity</subject><subject>Genetic Variation</subject><subject>Genetics</subject><subject>Genotype & phenotype</subject><subject>Health sciences</subject><subject>Homeless people</subject><subject>Humans</subject><subject>Identification</subject><subject>Infant</subject><subject>Infant, Newborn</subject><subject>Laboratories</subject><subject>Lineage</subject><subject>Male</subject><subject>Medical diagnosis</subject><subject>Medicine and Health Sciences</subject><subject>Methods</subject><subject>Middle Aged</subject><subject>Mycobacterium tuberculosis</subject><subject>Mycobacterium tuberculosis - genetics</subject><subject>Mycobacterium tuberculosis - physiology</subject><subject>Patients</subject><subject>Phylogenetics</subject><subject>Phylogeny</subject><subject>Public health</subject><subject>Risk analysis</subject><subject>Risk factors</subject><subject>Strains (organisms)</subject><subject>Surveillance</subject><subject>Tuberculosis</subject><subject>Tuberculosis - epidemiology</subject><subject>Tuberculosis - transmission</subject><subject>Young Adult</subject><issn>1932-6203</issn><issn>1932-6203</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2014</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><sourceid>ABUWG</sourceid><sourceid>AFKRA</sourceid><sourceid>AZQEC</sourceid><sourceid>BENPR</sourceid><sourceid>BHHNA</sourceid><sourceid>CCPQU</sourceid><sourceid>DWQXO</sourceid><sourceid>GNUQQ</sourceid><sourceid>DOA</sourceid><recordid>eNptUstuEzEUHSEQfcAfILDEpiwS_JiHvakUVRQqFdFFWVsePxJHM_ZgeyrlS_hdPMm0alDlhX2vzzn3oVMUHxBcItKgr1s_Bie65eCdXkLIGorqV8UpYgQvagzJ62fvk-Isxi2EFaF1_bY4wSUtGUXNafF3BZx_0B0QwxC8kBuwAGmjQQ4G7aJNO5D8PhJrkTS4uLu_-wJ6nTZeAeMDkN6l4LvOuvU-3viYgBEy-RCBdSCmUe2mz0k1BeFib2O03gFvwM-d9G3G6mDHHqSx1UGOnY82viveGNFF_X6-z4vf19_ur34sbn99v7la3S5kjWhaENaIShEKVauoIBg2NdYSNhS2uFLG0NLACgldKYRpY5AyGDW1MrSVNcMSk_Pi00F3yGX5vNPIUYVrRiCuqoy4OSCUF1s-BNuLsONeWL5P-LDmIiQrO83LumVGS9rAti0ZzD3ICmnTMo1KgpXMWpdztbHttZI67050R6LHP85u-No_8BJiRinNAhezQPB_Rh0Tz9uUuuuE037c900JKVk5Tfb5P-jL082otcgDWGd8risnUb4qEUWEQTKhli-g8lG6t9kB2ticPyKUB4IMPsagzdOMCPLJvo_N8Mm-fLZvpn18vp8n0qNfyT_93e_b</recordid><startdate>20140521</startdate><enddate>20140521</enddate><creator>Nebenzahl-Guimaraes, Hanna</creator><creator>Borgdorff, Martien W</creator><creator>Murray, Megan B</creator><creator>van Soolingen, Dick</creator><general>Public Library of Science</general><general>Public Library of Science (PLoS)</general><scope>CGR</scope><scope>CUY</scope><scope>CVF</scope><scope>ECM</scope><scope>EIF</scope><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>3V.</scope><scope>7QG</scope><scope>7QL</scope><scope>7QO</scope><scope>7RV</scope><scope>7SN</scope><scope>7SS</scope><scope>7T5</scope><scope>7TG</scope><scope>7TM</scope><scope>7U3</scope><scope>7U9</scope><scope>7X2</scope><scope>7X7</scope><scope>7XB</scope><scope>88E</scope><scope>8AO</scope><scope>8C1</scope><scope>8FD</scope><scope>8FE</scope><scope>8FG</scope><scope>8FH</scope><scope>8FI</scope><scope>8FJ</scope><scope>8FK</scope><scope>ABJCF</scope><scope>ABUWG</scope><scope>AFKRA</scope><scope>ARAPS</scope><scope>ATCPS</scope><scope>AZQEC</scope><scope>BBNVY</scope><scope>BENPR</scope><scope>BGLVJ</scope><scope>BHHNA</scope><scope>BHPHI</scope><scope>C1K</scope><scope>CCPQU</scope><scope>D1I</scope><scope>DWQXO</scope><scope>FR3</scope><scope>FYUFA</scope><scope>GHDGH</scope><scope>GNUQQ</scope><scope>H94</scope><scope>HCIFZ</scope><scope>K9.</scope><scope>KB.</scope><scope>KB0</scope><scope>KL.</scope><scope>L6V</scope><scope>LK8</scope><scope>M0K</scope><scope>M0S</scope><scope>M1P</scope><scope>M7N</scope><scope>M7P</scope><scope>M7S</scope><scope>NAPCQ</scope><scope>P5Z</scope><scope>P62</scope><scope>P64</scope><scope>PATMY</scope><scope>PDBOC</scope><scope>PIMPY</scope><scope>PQEST</scope><scope>PQQKQ</scope><scope>PQUKI</scope><scope>PRINS</scope><scope>PTHSS</scope><scope>PYCSY</scope><scope>RC3</scope><scope>7X8</scope><scope>5PM</scope><scope>DOA</scope></search><sort><creationdate>20140521</creationdate><title>A novel approach - the propensity to propagate (PTP) method for controlling for host factors in studying the transmission of Mycobacterium tuberculosis</title><author>Nebenzahl-Guimaraes, Hanna ; Borgdorff, Martien W ; Murray, Megan B ; van Soolingen, Dick</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c618t-397a5d380dbd8a320762ec0780b25dff84f051ae5d1287f1df2176df8bc692c23</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2014</creationdate><topic>Adolescent</topic><topic>Adult</topic><topic>Aged</topic><topic>Aged, 80 and over</topic><topic>Biology and Life Sciences</topic><topic>Chemical fingerprinting</topic><topic>Child</topic><topic>Child, Preschool</topic><topic>Classification</topic><topic>Cluster Analysis</topic><topic>Clustering</topic><topic>Demographics</topic><topic>Deoxyribonucleic acid</topic><topic>DNA</topic><topic>Drug resistance</topic><topic>Epidemiologic Methods</topic><topic>Epidemiology</topic><topic>Female</topic><topic>Fingerprinting</topic><topic>Genetic diversity</topic><topic>Genetic Variation</topic><topic>Genetics</topic><topic>Genotype & phenotype</topic><topic>Health sciences</topic><topic>Homeless people</topic><topic>Humans</topic><topic>Identification</topic><topic>Infant</topic><topic>Infant, Newborn</topic><topic>Laboratories</topic><topic>Lineage</topic><topic>Male</topic><topic>Medical diagnosis</topic><topic>Medicine and Health Sciences</topic><topic>Methods</topic><topic>Middle Aged</topic><topic>Mycobacterium tuberculosis</topic><topic>Mycobacterium tuberculosis - genetics</topic><topic>Mycobacterium tuberculosis - physiology</topic><topic>Patients</topic><topic>Phylogenetics</topic><topic>Phylogeny</topic><topic>Public health</topic><topic>Risk analysis</topic><topic>Risk factors</topic><topic>Strains (organisms)</topic><topic>Surveillance</topic><topic>Tuberculosis</topic><topic>Tuberculosis - epidemiology</topic><topic>Tuberculosis - transmission</topic><topic>Young Adult</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Nebenzahl-Guimaraes, Hanna</creatorcontrib><creatorcontrib>Borgdorff, Martien W</creatorcontrib><creatorcontrib>Murray, Megan B</creatorcontrib><creatorcontrib>van Soolingen, Dick</creatorcontrib><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>ProQuest Central (Corporate)</collection><collection>Animal Behavior Abstracts</collection><collection>Bacteriology Abstracts (Microbiology B)</collection><collection>Biotechnology Research Abstracts</collection><collection>Nursing & Allied Health Database</collection><collection>Ecology Abstracts</collection><collection>Entomology Abstracts (Full archive)</collection><collection>Immunology Abstracts</collection><collection>Meteorological & Geoastrophysical Abstracts</collection><collection>Nucleic Acids Abstracts</collection><collection>Social Services Abstracts</collection><collection>Virology and AIDS Abstracts</collection><collection>Agricultural Science Collection</collection><collection>Health & Medical Collection</collection><collection>ProQuest Central (purchase pre-March 2016)</collection><collection>Medical Database (Alumni Edition)</collection><collection>ProQuest Pharma Collection</collection><collection>Public Health Database</collection><collection>Technology Research Database</collection><collection>ProQuest SciTech Collection</collection><collection>ProQuest Technology Collection</collection><collection>ProQuest Natural Science Collection</collection><collection>Hospital Premium Collection</collection><collection>Hospital Premium Collection (Alumni Edition)</collection><collection>ProQuest Central (Alumni) (purchase pre-March 2016)</collection><collection>Materials Science & Engineering Collection</collection><collection>ProQuest Central (Alumni Edition)</collection><collection>ProQuest Central UK/Ireland</collection><collection>Advanced Technologies & Aerospace Collection</collection><collection>Agricultural & Environmental Science Collection</collection><collection>ProQuest Central Essentials</collection><collection>Biological Science Collection</collection><collection>ProQuest Central</collection><collection>Technology Collection</collection><collection>Sociological Abstracts</collection><collection>Natural Science Collection</collection><collection>Environmental Sciences and Pollution Management</collection><collection>ProQuest One Community College</collection><collection>ProQuest Materials Science Collection</collection><collection>ProQuest Central Korea</collection><collection>Engineering Research Database</collection><collection>Health Research Premium Collection</collection><collection>Health Research Premium Collection (Alumni)</collection><collection>ProQuest Central Student</collection><collection>AIDS and Cancer Research Abstracts</collection><collection>SciTech Premium Collection</collection><collection>ProQuest Health & Medical Complete (Alumni)</collection><collection>Materials Science Database</collection><collection>Nursing & Allied Health Database (Alumni Edition)</collection><collection>Meteorological & Geoastrophysical Abstracts - 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Academic</collection><collection>PubMed Central (Full Participant titles)</collection><collection>DOAJ Directory of Open Access Journals</collection><jtitle>PloS one</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Nebenzahl-Guimaraes, Hanna</au><au>Borgdorff, Martien W</au><au>Murray, Megan B</au><au>van Soolingen, Dick</au><au>Neyrolles, Olivier</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>A novel approach - the propensity to propagate (PTP) method for controlling for host factors in studying the transmission of Mycobacterium tuberculosis</atitle><jtitle>PloS one</jtitle><addtitle>PLoS One</addtitle><date>2014-05-21</date><risdate>2014</risdate><volume>9</volume><issue>5</issue><spage>e97816</spage><epage>e97816</epage><pages>e97816-e97816</pages><issn>1932-6203</issn><eissn>1932-6203</eissn><abstract>Understanding the genetic variations among Mycobacterium tuberculosis (MTB) strains with differential ability to transmit would be a major step forward in preventing transmission.
To describe a method to extend conventional proxy measures of transmissibility by adjusting for patient-related factors, thus strengthening the causal association found with bacterial factors.
Clinical, demographic and molecular fingerprinting data were obtained during routine surveillance of verified MTB cases reported in the Netherlands between 1993 and 2011, and the phylogenetic lineages of the isolates were inferred. Odds ratios for host risk factors for clustering were used to obtain a measure of each patient's and cluster's propensity to propagate (CPP). Mean and median cluster sizes across different categories of CPP were compared amongst four different phylogenetic lineages.
Both mean and median cluster size grew with increasing CPP category. On average, CPP values from Euro-American lineage strains were higher than Beijing and EAI strains. There were no significant differences between the mean and median cluster sizes among the four phylogenetic lineages within each CPP category.
Our finding that the distribution of CPP scores was unequal across four different phylogenetic lineages supports the notion that host-related factors should be controlled for to attain comparability in measuring the different phylogenetic lineages' ability to propagate. Although Euro-American strains were more likely to be in clusters in an unadjusted analysis, no significant differences among the four lineages persisted after we controlled for host factors.</abstract><cop>United States</cop><pub>Public Library of Science</pub><pmid>24849817</pmid><doi>10.1371/journal.pone.0097816</doi><oa>free_for_read</oa></addata></record> |
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| subjects | Adolescent Adult Aged Aged, 80 and over Biology and Life Sciences Chemical fingerprinting Child Child, Preschool Classification Cluster Analysis Clustering Demographics Deoxyribonucleic acid DNA Drug resistance Epidemiologic Methods Epidemiology Female Fingerprinting Genetic diversity Genetic Variation Genetics Genotype & phenotype Health sciences Homeless people Humans Identification Infant Infant, Newborn Laboratories Lineage Male Medical diagnosis Medicine and Health Sciences Methods Middle Aged Mycobacterium tuberculosis Mycobacterium tuberculosis - genetics Mycobacterium tuberculosis - physiology Patients Phylogenetics Phylogeny Public health Risk analysis Risk factors Strains (organisms) Surveillance Tuberculosis Tuberculosis - epidemiology Tuberculosis - transmission Young Adult |
| title | A novel approach - the propensity to propagate (PTP) method for controlling for host factors in studying the transmission of Mycobacterium tuberculosis |
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