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Volumn 213, Issue 6, 2016, Pages 957-965

Accurate Genetic Detection of Hepatitis C Virus Transmissions in Outbreak Settings

Author keywords

hamming distance; HCV; NGS; nucleotide diversity; outbreak; phylogenetic analysis; threshold; transmission networks

Indexed keywords

NUCLEOTIDE;

EID: 84964882924     PISSN: 00221899     EISSN: 15376613     Source Type: Journal    
DOI: 10.1093/infdis/jiv542     Document Type: Article
Times cited : (61)

References (50)
  • 1
    • 84876149257 scopus 로고    scopus 로고
    • Global epidemiology of hepatitis C virus infection: New estimates of age-specific antibody to HCV seroprevalence
    • Mohd Hanafiah K, Groeger J, Flaxman AD, Wiersma ST. Global epidemiology of hepatitis C virus infection: new estimates of age-specific antibody to HCV seroprevalence. Hepatology 2013; 57:1333-42.
    • (2013) Hepatology , vol.57 , pp. 1333-1342
    • Mohd Hanafiah, K.1    Groeger, J.2    Flaxman, A.D.3    Wiersma, S.T.4
  • 2
    • 34250679750 scopus 로고    scopus 로고
    • Epidemiology of hepatitis C virus infection
    • Alter M. Epidemiology of hepatitis C virus infection. World J Gastroenterol 2007; 13:2436-41.
    • (2007) World J Gastroenterol , vol.13 , pp. 2436-2441
    • Alter, M.1
  • 3
    • 84857144025 scopus 로고    scopus 로고
    • The increasing burden of mortality from viral hepatitis in the United States between 1999 and 2007
    • Ly KN, Xing J, Klevens RM, Jiles RB, Ward JW, Holmberg SD. The increasing burden of mortality from viral hepatitis in the United States between 1999 and 2007. Ann Intern Med 2012; 156:271-8.
    • (2012) Ann Intern Med , vol.156 , pp. 271-278
    • Ly, K.N.1    Xing, J.2    Klevens, R.M.3    Jiles, R.B.4    Ward, J.W.5    Holmberg, S.D.6
  • 4
    • 84878842612 scopus 로고    scopus 로고
    • The hidden epidemic of hepatitis c virus infection in the United States: Occult transmission and burden of disease
    • Ward JW. The hidden epidemic of hepatitis C virus infection in the United States: occult transmission and burden of disease. Top Antivi Med 2013; 21:15-9.
    • (2013) Top Antivi Med , vol.21 , pp. 15-19
    • Ward, J.W.1
  • 6
    • 37548999825 scopus 로고    scopus 로고
    • Molecular epidemiology of a hepatitis C virus outbreak in a hemodialysis unit in Italy
    • Spada E, Abbate I, Sicurezza E, et al. Molecular epidemiology of a hepatitis C virus outbreak in a hemodialysis unit in Italy. J Med Virol 2008; 80:261-7.
    • (2008) J Med Virol , vol.80 , pp. 261-267
    • Spada, E.1    Abbate, I.2    Sicurezza, E.3
  • 7
    • 4644291611 scopus 로고    scopus 로고
    • Use of the minimum spanning tree model for molecular epidemiological investigation of a nosocomial outbreak of hepatitis C virus infection
    • Spada E, Sagliocca L, Sourdis J, et al. Use of the minimum spanning tree model for molecular epidemiological investigation of a nosocomial outbreak of hepatitis C virus infection. J Clin Microbiol 2004; 42:4230-6.
    • (2004) J Clin Microbiol , vol.42 , pp. 4230-4236
    • Spada, E.1    Sagliocca, L.2    Sourdis, J.3
  • 8
    • 0026777199 scopus 로고
    • Molecular epidemiology of HIV transmission in a dental practice
    • Ou CY, Ciesielski CA, Myers G, et al. Molecular epidemiology of HIV transmission in a dental practice. Science 1992; 256:1165-71.
    • (1992) Science , vol.256 , pp. 1165-1171
    • Ou, C.Y.1    Ciesielski, C.A.2    Myers, G.3
  • 9
    • 13344281012 scopus 로고    scopus 로고
    • Transmission of hepatitis C virus by a cardiac surgeon
    • Esteban JI, Gomez J, Martell M, et al. Transmission of hepatitis C virus by a cardiac surgeon. N Engl J Med 1996; 334:555-60.
    • (1996) N Engl J Med , vol.334 , pp. 555-560
    • Esteban, J.I.1    Gomez, J.2    Martell, M.3
  • 10
    • 0033831613 scopus 로고    scopus 로고
    • Molecular analysis of human immunodeficiency virus strains associated with a case of criminal transmission of the virus
    • Birch CJ, McCaw RF, Bulach DM, et al. Molecular analysis of human immunodeficiency virus strains associated with a case of criminal transmission of the virus. J Infect Dis 2000; 182:941-4.
    • (2000) J Infect Dis , vol.182 , pp. 941-944
    • Birch, C.J.1    McCaw, R.F.2    Bulach, D.M.3
  • 13
    • 84880673210 scopus 로고    scopus 로고
    • Molecular evolution in court: Analysis of a large hepatitis C virus outbreak from an evolving source
    • Gonzalez-Candelas F, Bracho MA, Wrobel B, Moya A. Molecular evolution in court: analysis of a large hepatitis C virus outbreak from an evolving source. BMC Biol 2013; 11:76.
    • (2013) BMC Biol , vol.11 , pp. 76
    • Gonzalez-Candelas, F.1    Bracho, M.A.2    Wrobel, B.3    Moya, A.4
  • 14
    • 78149441173 scopus 로고    scopus 로고
    • The threshold bootstrap clustering: A new approach to find families or transmission clusters within molecular quasispecies
    • Prosperi MC, De Luca A, Di Giambenedetto S, et al. The threshold bootstrap clustering: a new approach to find families or transmission clusters within molecular quasispecies. PLoS One 2010; 5:e13619.
    • (2010) PLoS One , vol.5 , pp. e13619
    • Prosperi, M.C.1    De Luca, A.2    Di Giambenedetto, S.3
  • 15
    • 84899784873 scopus 로고    scopus 로고
    • A novel method to identify routes of hepatitis C virus transmission
    • Feray C, Bouscaillou J, Falissard B, et al. A novel method to identify routes of hepatitis C virus transmission. PLoS One 2014; 9:e86098.
    • (2014) PLoS One , vol.9 , pp. e86098
    • Feray, C.1    Bouscaillou, J.2    Falissard, B.3
  • 18
    • 84964905565 scopus 로고    scopus 로고
    • Outbreak of acute hepatitis C virus (HCV) infections of two different genotypes associated with an HCV-infected anesthetist
    • Philadelphia, Pennsylvania, 29 October-1 November
    • Lee K, Scoville S, Taylor R, et al. Outbreak of acute hepatitis C virus (HCV) infections of two different genotypes associated with an HCV-infected anesthetist. Presented at: 47th Annual Meeting of the Infectious Diseases Society of America, Philadelphia, Pennsylvania, 29 October-1 November 2009.
    • (2009) Presented At: 47th Annual Meeting of the Infectious Diseases Society of America
    • Lee, K.1    Scoville, S.2    Taylor, R.3
  • 19
    • 84971651447 scopus 로고    scopus 로고
    • Patient-to-patient hepatitis C virus transmissions associated with infection control breaches in a hemodialysis unit
    • Thompson N, Novak R, White-Comstock M, et al. Patient-to-patient hepatitis C virus transmissions associated with infection control breaches in a hemodialysis unit. J Nephrol Therapeutics 2012; S10:002.
    • (2012) J Nephrol Therapeutics , vol.S10 , pp. 002
    • Thompson, N.1    Novak, R.2    White-Comstock, M.3
  • 20
    • 77954704435 scopus 로고    scopus 로고
    • Hepatitis C virus infections from unsafe injection practices at an endoscopy clinic in Las Vegas, Nevada, 2007-2008
    • Fischer GE, Schaefer MK, Labus BJ, et al. Hepatitis C virus infections from unsafe injection practices at an endoscopy clinic in Las Vegas, Nevada, 2007-2008. Clin Infect Dis 2010; 51:267-73.
    • (2010) Clin Infect Dis , vol.51 , pp. 267-273
    • Fischer, G.E.1    Schaefer, M.K.2    Labus, B.J.3
  • 21
    • 79958815906 scopus 로고    scopus 로고
    • Transmission of hepatitis C virus during myocardial perfusion imaging in an outpatient clinic
    • Moore ZS, Schaefer MK, Hoffmann KK, et al. Transmission of hepatitis C virus during myocardial perfusion imaging in an outpatient clinic. Am J Cardiol 2011; 108:126-32.
    • (2011) Am J Cardiol , vol.108 , pp. 126-132
    • Moore, Z.S.1    Schaefer, M.K.2    Hoffmann, K.K.3
  • 22
    • 84925879944 scopus 로고    scopus 로고
    • Outbreak of hepatitis C virus infection associated with narcotics diversion by an hepatitis C virus-infected surgical technician
    • Warner AE, Schaefer MK, Patel PR, et al. Outbreak of hepatitis C virus infection associated with narcotics diversion by an hepatitis C virus-infected surgical technician. Am J Infect Control 2015; 43:53-8.
    • (2015) Am J Infect Control , vol.43 , pp. 53-58
    • Warner, A.E.1    Schaefer, M.K.2    Patel, P.R.3
  • 23
    • 34547447062 scopus 로고    scopus 로고
    • HIV forensics: Pitfalls and acceptable standards in the use of phylogenetic analysis as evidence in criminal investigations of HIV transmission
    • Bernard EJ, Azad Y, Vandamme AM, Weait M, Geretti AM. HIV forensics: pitfalls and acceptable standards in the use of phylogenetic analysis as evidence in criminal investigations of HIV transmission. HIV Med 2007; 8:382-7.
    • (2007) HIV Med , vol.8 , pp. 382-387
    • Bernard, E.J.1    Azad, Y.2    Vandamme, A.M.3    Weait, M.4    Geretti, A.M.5
  • 25
    • 84924294035 scopus 로고    scopus 로고
    • Transmission of hepatitis c virus associated with surgical procedures-New Jersey 2010 and Wisconsin 2011
    • Apostolou A, Bartholomew ML, Greeley R, et al. Transmission of hepatitis C virus associated with surgical procedures-New Jersey 2010 and Wisconsin 2011. MMWR Morb Mortal Wkly Rep 2015; 64:165-70.
    • (2015) MMWR Morb Mortal Wkly Rep , vol.64 , pp. 165-170
    • Apostolou, A.1    Bartholomew, M.L.2    Greeley, R.3
  • 26
    • 46749091188 scopus 로고    scopus 로고
    • Endpoint limiting-dilution real-time PCR assay for evaluation of hepatitis C virus quasispecies in serum: Performance under optimal and suboptimal conditions
    • Ramachandran S, Xia GL, Ganova-Raeva LM, Nainan OV, Khudyakov Y. Endpoint limiting-dilution real-time PCR assay for evaluation of hepatitis C virus quasispecies in serum: performance under optimal and suboptimal conditions. J Virol Methods 2008; 151:217-24.
    • (2008) J Virol Methods , vol.151 , pp. 217-224
    • Ramachandran, S.1    Xia, G.L.2    Ganova-Raeva, L.M.3    Nainan, O.V.4    Khudyakov, Y.5
  • 27
    • 84872465033 scopus 로고    scopus 로고
    • Evaluation of viral heterogeneity using next-generation sequencing, end-point limiting-dilution and mass spectrometry
    • Dimitrova Z, Campo DS, Ramachandran S, et al. Evaluation of viral heterogeneity using next-generation sequencing, end-point limiting-dilution and mass spectrometry. In Silico Biol 2011; 11:183-92.
    • (2011) Silico Biol , vol.11 , pp. 183-192
    • Dimitrova, Z.1    Campo, D.S.2    Ramachandran, S.3
  • 28
    • 84921649653 scopus 로고    scopus 로고
    • Next-generation sequencing reveals large connected networks of intra-host HCV variants
    • Campo DS, Dimitrova Z, Yamasaki L, et al. Next-generation sequencing reveals large connected networks of intra-host HCV variants. BMC Genomics 2014; 15(suppl 5):S4.
    • (2014) BMC Genomics , vol.15 , pp. S4
    • Campo, D.S.1    Dimitrova, Z.2    Yamasaki, L.3
  • 29
    • 84895926095 scopus 로고    scopus 로고
    • Intra-host diversity and evolution of hepatitis C virus endemic to Cote D'Ivoire
    • Forbi JC, Campo DS, Purdy MA, et al. Intra-host diversity and evolution of hepatitis C virus endemic to Cote D'Ivoire. J Med Virol 2014; 86:765-71.
    • (2014) J Med Virol , vol.86 , pp. 765-771
    • Forbi, J.C.1    Campo, D.S.2    Purdy, M.A.3
  • 30
    • 84862694989 scopus 로고    scopus 로고
    • Epidemic history of hepatitis C virus infection in two remote communities in Nigeria, West Africa
    • Forbi JC, Purdy MA, Campo DS, et al. Epidemic history of hepatitis C virus infection in two remote communities in Nigeria, West Africa. J Gen Virol 2012; 93:1410-21.
    • (2012) J Gen Virol , vol.93 , pp. 1410-1421
    • Forbi, J.C.1    Purdy, M.A.2    Campo, D.S.3
  • 31
    • 0033382086 scopus 로고    scopus 로고
    • Epidemiology of hepatitis c in the United States
    • Williams I. Epidemiology of hepatitis C in the United States. Am J Med 1999; 107:2-9S.
    • (1999) Am J Med , vol.107 , pp. 2-9
    • Williams, I.1
  • 32
    • 84871960812 scopus 로고    scopus 로고
    • Differences in variability of hypervariable region 1 of hepatitis C virus (HCV) between acute and chronic stages of HCV infection
    • Astrakhantseva IV, Campo DS, Araujo A, Teo CG, Khudyakov Y, Kamili S. Differences in variability of hypervariable region 1 of hepatitis C virus (HCV) between acute and chronic stages of HCV infection. In Silico Biol 2011; 11:163-73.
    • (2011) Silico Biol , vol.11 , pp. 163-173
    • Astrakhantseva, I.V.1    Campo, D.S.2    Araujo, A.3    Teo, C.G.4    Khudyakov, Y.5    Kamili, S.6
  • 33
    • 80052939676 scopus 로고    scopus 로고
    • Evaluation of intra-host variants of the entire hepatitis B virus genome
    • Ramachandran S, Zhai X, Thai H, et al. Evaluation of intra-host variants of the entire hepatitis B virus genome. PLoS One 2011; 6:e25232.
    • (2011) PLoS One , vol.6 , pp. e25232
    • Ramachandran, S.1    Zhai, X.2    Thai, H.3
  • 34
    • 84867062073 scopus 로고    scopus 로고
    • Efficient error correction for next-generation sequencing of viral amplicons
    • Skums P, Dimitrova Z, Campo DS, et al. Efficient error correction for next-generation sequencing of viral amplicons. BMC Bioinformatics 2012; 13 (suppl 10):S6.
    • (2012) BMC Bioinformatics , vol.13 , pp. S6
    • Skums, P.1    Dimitrova, Z.2    Campo, D.S.3
  • 35
    • 84875619226 scopus 로고    scopus 로고
    • MAFFT multiple sequence alignment software version 7: Improvements in performance and usability
    • Katoh K, Standley DM. MAFFT multiple sequence alignment software version 7: improvements in performance and usability. Mol Biol Evol 2013; 30:772-80.
    • (2013) Mol Biol Evol , vol.30 , pp. 772-780
    • Katoh, K.1    Standley, D.M.2
  • 37
    • 0021066244 scopus 로고
    • Evolutionary relationship of DNA sequences in finite populations
    • Tajima F. Evolutionary relationship of DNA sequences in finite populations. Genetics 1983; 105:437-60.
    • (1983) Genetics , vol.105 , pp. 437-460
    • Tajima, F.1
  • 38
    • 78049298143 scopus 로고    scopus 로고
    • Natick, MA: Matlab
    • Mathworks. Natick, MA: Matlab, 2010.
    • (2010) Mathworks
  • 39
    • 3242810318 scopus 로고    scopus 로고
    • MEGA3: Integrated software for molecular evolutionary genetics analysis and sequence alignment
    • Kumar S, Tamura K, Nei M. MEGA3: integrated software for molecular evolutionary genetics analysis and sequence alignment. Brief Bioinform 2004; 5:150-63.
    • (2004) Brief Bioinform , vol.5 , pp. 150-163
    • Kumar, S.1    Tamura, K.2    Nei, M.3
  • 42
    • 84871975148 scopus 로고    scopus 로고
    • Application of mass spectrometry to molecular surveillance of hepatitis B and C viral infections
    • Ganova-Raeva LM, Dimitrova ZE, Campo DS, Khudyakov Y. Application of mass spectrometry to molecular surveillance of hepatitis B and C viral infections. Antivir Ther 2012; 17:1477-82.
    • (2012) Antivir Ther , vol.17 , pp. 1477-1482
    • Ganova-Raeva, L.M.1    Dimitrova, Z.E.2    Campo, D.S.3    Khudyakov, Y.4
  • 44
    • 84924368850 scopus 로고    scopus 로고
    • The impact of clinical, demographic and risk factors on rates of HIV transmission: A population-based phylogenetic analysis in British Columbia, Canada
    • Poon AF, Joy JB, Woods CK, et al. The impact of clinical, demographic and risk factors on rates of HIV transmission: a population-based phylogenetic analysis in British Columbia, Canada. J Infect Dis 2015; 211:926-35.
    • (2015) J Infect Dis , vol.211 , pp. 926-935
    • Poon, A.F.1    Joy, J.B.2    Woods, C.K.3
  • 46
    • 77952709675 scopus 로고    scopus 로고
    • Hepatitis C virus transmission bottlenecks analyzed by deep sequencing
    • Wang G, Sherrill-Mix S, Chang K, Quince C, Bushman F. Hepatitis C virus transmission bottlenecks analyzed by deep sequencing. J Virol 2010; 84:6218-28.
    • (2010) J Virol , vol.84 , pp. 6218-6228
    • Wang, G.1    Sherrill-Mix, S.2    Chang, K.3    Quince, C.4    Bushman, F.5
  • 49
    • 84859739733 scopus 로고    scopus 로고
    • Hepatitis C virus antigenic convergence
    • Campo DS, Dimitrova Z, Yokosawa J, et al. Hepatitis C virus antigenic convergence. Sci Rep 2012; 2:267-77.
    • (2012) Sci Rep , vol.2 , pp. 267-277
    • Campo, D.S.1    Dimitrova, Z.2    Yokosawa, J.3


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