Social network analysis and whole-genome sequencing to evaluate disease transmission in a large, dynamic population: A study of avian mycobacteriosis in zoo birds.

PloS One
Carmel L WitteBruce A Rideout

Abstract

This study combined a social network analysis and whole-genome sequencing (WGS) to test for general patterns of contagious spread of a mycobacterial infection for which pathways of disease acquisition are not well understood. Our population included 275 cases diagnosed with avian mycobacteriosis that were nested in a source population of 16,430 birds at San Diego Zoo Wildlife Alliance facilities from 1992 through mid-2014. Mycobacteria species were determined using conventional methods and whole genome sequencing (WGS). Mycobacterium avium avium (MAA) and Mycobacterium genavense were the most common species of mycobacteria identified and were present in different proportions across bird taxa. A social network for the birds was constructed from the source population to identify directly and indirectly connected cases during time periods relevant to disease transmission. Associations between network connectivity and genetic similarity of mycobacteria (as determined by clusters of genotypes separated by few single nucleotide polymorphisms, or SNPs) were then evaluated in observed and randomly generated network permutations. Findings showed that some genotypes clustered along pathways of bird connectivity, while others were dispers...Continue Reading

References

Apr 1, 1993·Journal of Clinical Microbiology·R K HoopM Salfinger
Feb 1, 1996·Journal of Clinical Microbiology·F PortaelsW de Meurichy
Jan 1, 1997·The Journal of Infectious Diseases·K G Mansfield, A A Lackner
Jun 25, 1999·Scandinavian Journal of Infectious Diseases·M E Hillebrand-HaverkortJ H Ten Veen
Dec 19, 2001·Emerging Infectious Diseases·E J MangioneM A Yakrus
Jan 1, 2004·American Journal of Respiratory and Critical Care Medicine·Robin M WarrenPaul D van Helden
Jan 1, 2004·The Journal of Infectious Diseases·Melissa J Tobin-D'AngeloC Robert Horsburgh
Dec 8, 2004·Journal of Clinical Microbiology·Isdore Chola ShamputaFrançoise Portaels
Mar 6, 2008·Journal of Veterinary Diagnostic Investigation : Official Publication of the American Association of Veterinary Laboratory Diagnosticians, Inc·Carmel L WitteBruce A Rideout
Mar 20, 2008·Genome Research·Daniel R Zerbino, Ewan Birney
Sep 16, 2008·Veterinary Microbiology·Giovanni ManarollaTiziana Rampin
Feb 21, 2009·Journal of Applied Microbiology·J O Falkinham
Dec 17, 2009·BMC Bioinformatics·Christiam CamachoThomas L Madden
Jan 16, 2010·Journal of the American Veterinary Medical Association·Carmel L WitteBruce A Rideout
Feb 25, 2011·The New England Journal of Medicine·Jennifer L GardyPatrick Tang
Jun 20, 2012·Statistics in Medicine·Nicholas A Christakis, James H Fowler
Aug 14, 2012·Journal of Comparative Pathology·C PalmieriH L Shivaprasad
Nov 20, 2012·The Lancet Infectious Diseases·Timothy M WalkerTim E A Peto
Mar 1, 2013·BMC Infectious Diseases·Josephine M BryantDick van Soolingen
Mar 26, 2014·Trends in Microbiology·Rowland R KaoPablo R Murcia
Feb 14, 2015·Clinics in Chest Medicine·Joseph O Falkinham
Mar 5, 2016·Clinical Infectious Diseases : an Official Publication of the Infectious Diseases Society of America·Hajime KanamoriWilliam A Rutala
Mar 30, 2016·Current Environmental Health Reports·Joseph O Falkinham
Jun 6, 2016·Infection, Genetics and Evolution : Journal of Molecular Epidemiology and Evolutionary Genetics in Infectious Diseases·Tetyana I VasylyevaGkikas Magiorkinis
Oct 16, 2016·MMWR. Morbidity and Mortality Weekly Report·Kiran M PerkinsJoseph F Perz
Dec 23, 2016·Annals of the New York Academy of Sciences·Jennifer L Guthrie, Jennifer L Gardy
Nov 7, 2017·Methods in Ecology and Evolution·Damien R Farine
Nov 22, 2017·Infectious Diseases·Maryam MahmoodJohn W Wilson
Apr 25, 2018·Veterinary Microbiology·A SchmitzM Rinder

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