56
Hendriksen RS, Munk P, Njage P, van Bunnik B, McNally L, Lukjancenko O, Roder T,
Nieuwenhuijse D, Pedersen SK, Kjeldgaard J et al (2019b) Global monitoring of antimicrobial
resistance based on metagenomics analyses of urban sewage. Nat Commun 10:1124. https://
doi.org/10.1038/s41467-019-08853-3
JANIS (2000) Japan nosocomial infections surveillance. About JANIS https://janis.mhlw.go.jp/
english/about/index.html
Karp BE, Tate H, Plumblee JR, Dessai U, Whichard JM, Thacker EL, Hale KR, Wilson W,
Friedman CR, Griffin PM et al (2017) National antimicrobial resistance monitoring system:
two decades of advancing public health through integrated surveillance of antimicrobial resistance. Foodborne Pathog Dis 14:545–557. https://doi.org/10.1089/fpd.2017.2283
Lanza VF, Baquero F, Martinez JL, Ramos-Ruiz R, Gonzalez-Zorn B, Andremont A, SanchezValenzuela A, Ehrlich SD, Kennedy S, Ruppe E et al (2018) In-depth resistome analysis by
targeted metagenomics. Microbiome 6:11. https://doi.org/10.1186/s40168-017-0387-y
Leverstein-van Hall MA, Dierikx CM, Cohen Stuart J, Voets GM, van den Munckhof MP, van
Essen-Zandbergen A, Platteel T, Fluit AC, van de Sande-Bruinsma N, Scharinga J et al (2011)
Dutch patients, retail chicken meat and poultry share the same ESBL genes, plasmids and strains.
Clin Microbiol Infect 17: 873–880 DOI: https://doi.org/10.1111/j.1469-0691.2011.03497.
xS1198-743X(14)61985-6
MacVane SH (2017) Antimicrobial resistance in the intensive care unit: a focus on gram-negative bacterial infections. J Intensive Care Med 32:25–37. https://doi.org/10.1177/0885066615619895
McEwen SA, Collignon PJ (2018) Antimicrobial resistance: a one health perspective. Microbiol
Spectr 6. https://doi.org/10.1128/microbiolspec.ARBA-0009-2017
Morikane K (2012) Infection control in healthcare settings in Japan. J Epidemiol 22:86–90. https://
doi.org/10.2188/jea.je20110085
Munk P, Andersen VD, de Knegt L, Jensen MS, Knudsen BE, Lukjancenko O, Mordhorst H,
Clasen J, Agerso Y, Folkesson A et al (2017) A sampling and metagenomic sequencing-based
methodology for monitoring antimicrobial resistance in swine herds. J Antimicrob Chemother
72:385–392. https://doi.org/10.1093/jac/dkw415
Munk P, Knudsen BE, Lukjancenko O, Duarte ASR, Van Gompel L, Luiken REC, Smit LAM,
Schmitt H, Garcia AD, Hansen RB et al (2018) Abundance and diversity of the faecal resistome
in slaughter pigs and broilers in nine European countries. Nat Microbiol 3:898–908. https://doi.
org/10.1038/s41564-018-0192-9
Natale A, Stelling J, Meledandri M, Messenger LA, D’Ancona F (2017) Use of WHONETSaTScan system for simulated real-time detection of antimicrobial resistance clusters in
a hospital in Italy, 2012 to 2014. Euro Surveill 22. https://doi.org/10.2807/1560-7917.
ES.2017.22.11.30484
Nordahl Petersen T, Rasmussen S, Hasman H, Caroe C, Baelum J, Schultz AC, Bergmark L,
Svendsen CA, Lund O, Sicheritz-Ponten T et al (2015) Meta-genomic analysis of toilet waste
from long distance flights; a step towards global surveillance of infectious diseases and antimicrobial resistance. Sci Rep 5:11444. https://doi.org/10.1038/srep11444
O’Neill J (2016) Tackling drug-resistant infections globally: final report and recommendations. .
The review on antimicrobial resistance
ONEBRA (2014) Observatoire National de l’Epidémiologie de la Résistance Bactérienne aux
Antibiotiques 2013–14. Rapports ONERBA http://onerba.org/publications/rapports-onerba/
Pehrsson EC, Tsukayama P, Patel S, Mejia-Bautista M, Sosa-Soto G, Navarrete KM, Calderon
M, Cabrera L, Hoyos-Arango W, Bertoli MT et al (2016) Interconnected microbiomes and
resistomes in low-income human habitats. Nature 533:212–216. https://doi.org/10.1038/
nature17672
Perry JA, Wright GD (2014) Forces shaping the antibiotic resistome. BioEssays 36:1179–1184.
https://doi.org/10.1002/bies.201400128
PHE (2016) English surveillance programme for antimicrobial utilisation and resistance
(ESPAUR).
https://wwwgovuk/government/uploads/system/uploads/attachment_data/
file/575626/ESPAUR_Report_2016pdf
S. Kumar et al.
Hendriksen RS, Munk P, Njage P, van Bunnik B, McNally L, Lukjancenko O, Roder T,
Nieuwenhuijse D, Pedersen SK, Kjeldgaard J et al (2019b) Global monitoring of antimicrobial
resistance based on metagenomics analyses of urban sewage. Nat Commun 10:1124. https://
doi.org/10.1038/s41467-019-08853-3
JANIS (2000) Japan nosocomial infections surveillance. About JANIS https://janis.mhlw.go.jp/
english/about/index.html
Karp BE, Tate H, Plumblee JR, Dessai U, Whichard JM, Thacker EL, Hale KR, Wilson W,
Friedman CR, Griffin PM et al (2017) National antimicrobial resistance monitoring system:
two decades of advancing public health through integrated surveillance of antimicrobial resistance. Foodborne Pathog Dis 14:545–557. https://doi.org/10.1089/fpd.2017.2283
Lanza VF, Baquero F, Martinez JL, Ramos-Ruiz R, Gonzalez-Zorn B, Andremont A, SanchezValenzuela A, Ehrlich SD, Kennedy S, Ruppe E et al (2018) In-depth resistome analysis by
targeted metagenomics. Microbiome 6:11. https://doi.org/10.1186/s40168-017-0387-y
Leverstein-van Hall MA, Dierikx CM, Cohen Stuart J, Voets GM, van den Munckhof MP, van
Essen-Zandbergen A, Platteel T, Fluit AC, van de Sande-Bruinsma N, Scharinga J et al (2011)
Dutch patients, retail chicken meat and poultry share the same ESBL genes, plasmids and strains.
Clin Microbiol Infect 17: 873–880 DOI: https://doi.org/10.1111/j.1469-0691.2011.03497.
xS1198-743X(14)61985-6
MacVane SH (2017) Antimicrobial resistance in the intensive care unit: a focus on gram-negative bacterial infections. J Intensive Care Med 32:25–37. https://doi.org/10.1177/0885066615619895
McEwen SA, Collignon PJ (2018) Antimicrobial resistance: a one health perspective. Microbiol
Spectr 6. https://doi.org/10.1128/microbiolspec.ARBA-0009-2017
Morikane K (2012) Infection control in healthcare settings in Japan. J Epidemiol 22:86–90. https://
doi.org/10.2188/jea.je20110085
Munk P, Andersen VD, de Knegt L, Jensen MS, Knudsen BE, Lukjancenko O, Mordhorst H,
Clasen J, Agerso Y, Folkesson A et al (2017) A sampling and metagenomic sequencing-based
methodology for monitoring antimicrobial resistance in swine herds. J Antimicrob Chemother
72:385–392. https://doi.org/10.1093/jac/dkw415
Munk P, Knudsen BE, Lukjancenko O, Duarte ASR, Van Gompel L, Luiken REC, Smit LAM,
Schmitt H, Garcia AD, Hansen RB et al (2018) Abundance and diversity of the faecal resistome
in slaughter pigs and broilers in nine European countries. Nat Microbiol 3:898–908. https://doi.
org/10.1038/s41564-018-0192-9
Natale A, Stelling J, Meledandri M, Messenger LA, D’Ancona F (2017) Use of WHONETSaTScan system for simulated real-time detection of antimicrobial resistance clusters in
a hospital in Italy, 2012 to 2014. Euro Surveill 22. https://doi.org/10.2807/1560-7917.
ES.2017.22.11.30484
Nordahl Petersen T, Rasmussen S, Hasman H, Caroe C, Baelum J, Schultz AC, Bergmark L,
Svendsen CA, Lund O, Sicheritz-Ponten T et al (2015) Meta-genomic analysis of toilet waste
from long distance flights; a step towards global surveillance of infectious diseases and antimicrobial resistance. Sci Rep 5:11444. https://doi.org/10.1038/srep11444
O’Neill J (2016) Tackling drug-resistant infections globally: final report and recommendations. .
The review on antimicrobial resistance
ONEBRA (2014) Observatoire National de l’Epidémiologie de la Résistance Bactérienne aux
Antibiotiques 2013–14. Rapports ONERBA http://onerba.org/publications/rapports-onerba/
Pehrsson EC, Tsukayama P, Patel S, Mejia-Bautista M, Sosa-Soto G, Navarrete KM, Calderon
M, Cabrera L, Hoyos-Arango W, Bertoli MT et al (2016) Interconnected microbiomes and
resistomes in low-income human habitats. Nature 533:212–216. https://doi.org/10.1038/
nature17672
Perry JA, Wright GD (2014) Forces shaping the antibiotic resistome. BioEssays 36:1179–1184.
https://doi.org/10.1002/bies.201400128
PHE (2016) English surveillance programme for antimicrobial utilisation and resistance
(ESPAUR).
https://wwwgovuk/government/uploads/system/uploads/attachment_data/
file/575626/ESPAUR_Report_2016pdf
S. Kumar et al.