-
2
-
-
77949568092
-
Call of the wild: Antibiotic resistance genes in natural environments
-
Allen, H.K., Donato, J., Wang, H.H. et al. (2010) Call of the wild: antibiotic resistance genes in natural environments. Nat. Rev. Microbiol., 8, 251-259.
-
(2010)
Nat. Rev. Microbiol
, vol.8
, pp. 251-259
-
-
Allen, H.K.1
Donato, J.2
Wang, H.H.3
-
3
-
-
46549084570
-
Antibiotics and antibiotic resistance in water environments
-
Baquero, F., Martínez, J.L., and Cantón, R. (2008) Antibiotics and antibiotic resistance in water environments. Curr. Opin. Biotechnol., 19, 260-265.
-
(2008)
Curr. Opin. Biotechnol
, vol.19
, pp. 260-265
-
-
Baquero, F.1
Martínez, J.L.2
Cantón, R.3
-
4
-
-
47749155981
-
Antibiotics and antibiotic resistance genes in natural environments
-
Martínez, J.L. (2008) Antibiotics and antibiotic resistance genes in natural environments. Science, 321, 365-367.
-
(2008)
Science
, vol.321
, pp. 365-367
-
-
Martínez, J.L.1
-
5
-
-
23944506044
-
Mobile genetic elements: The agents of open source evolution
-
Frost, L.S., Leplae, R., Summers, A.O., and Toussaint, A. (2005) Mobile genetic elements: the agents of open source evolution. Nat. Rev. Microbiol., 3, 722-732.
-
(2005)
Nat. Rev. Microbiol
, vol.3
, pp. 722-732
-
-
Frost, L.S.1
Leplae, R.2
Summers, A.O.3
Toussaint, A.4
-
6
-
-
77957820588
-
Antibiotic resistance in the environment: A link to the clinic?
-
Wright, G.D. (2010) Antibiotic resistance in the environment: a link to the clinic?. Curr. Opin. Microbiol., 13, 589-594.
-
(2010)
Curr. Opin. Microbiol
, vol.13
, pp. 589-594
-
-
Wright, G.D.1
-
7
-
-
81255157431
-
Tackling antibiotic resistance
-
Bush, K., Courvalin, P., Dantas, G. et al. (2011) Tackling antibiotic resistance. Nat. Rev. Microbiol., 9, 894-896.
-
(2011)
Nat. Rev. Microbiol
, vol.9
, pp. 894-896
-
-
Bush, K.1
Courvalin, P.2
Dantas, G.3
-
8
-
-
0028946084
-
Phylogenetic identification and in situ detection of individual microbial cells without cultivation
-
Amann, R.I., Ludwig, W., and Schleifer, K.H. (1995) Phylogenetic identification and in situ detection of individual microbial cells without cultivation. Microbiol. Revi., 59, 143-169.
-
(1995)
Microbiol. Revi
, vol.59
, pp. 143-169
-
-
Amann, R.I.1
Ludwig, W.2
Schleifer, K.H.3
-
9
-
-
0035033323
-
Antibiotic selective pressure and development of bacterial resistance
-
Kolar, M., Urbanek, K., and Latal, T. (2001) Antibiotic selective pressure and development of bacterial resistance. Int. J. Antimicrob. Agents, 17, 357-363.
-
(2001)
Int. J. Antimicrob. Agents
, vol.17
, pp. 357-363
-
-
Kolar, M.1
Urbanek, K.2
Latal, T.3
-
10
-
-
84555190775
-
Insights into antibiotic resistance through metagenomic approaches
-
Schmieder, R., and Edwards, R. (2012) Insights into antibiotic resistance through metagenomic approaches. Future Microbiol., 7, 73-89.
-
(2012)
Future Microbiol
, vol.7
, pp. 73-89
-
-
Schmieder, R.1
Edwards, R.2
-
11
-
-
53549118607
-
The metagenomics RAST server-A public resource for the automatic phylogenetic and functional analysis of metagenomes
-
Meyer, F., Paarmann, D., D'souza, M. et al. (2008) The metagenomics RAST server-a public resource for the automatic phylogenetic and functional analysis of metagenomes. BMC Bioinformatics, 9, 386.
-
(2008)
BMC Bioinformatics
, vol.9
, pp. 386
-
-
Meyer, F.1
Paarmann, D.2
D'Souza, M.3
-
12
-
-
84895138159
-
Metagenomic frameworks for monitoring antibiotic resistance in aquatic environments
-
Port, J.A., Cullen, A.C., Wallace, J.C. et al. (2013) Metagenomic frameworks for monitoring antibiotic resistance in aquatic environments. Environ. Health Perspect, 122(3), 222-228.
-
(2013)
Environ. Health Perspect
, vol.122
, Issue.3
, pp. 222-228
-
-
Port, J.A.1
Cullen, A.C.2
Wallace, J.C.3
-
13
-
-
84897951677
-
Functional metagenomics for the investigation of antibiotic resistance
-
Mullany, P. (2014) Functional metagenomics for the investigation of antibiotic resistance. Virulence, 5, 14-13.
-
(2014)
Virulence
, vol.5
, pp. 13-14
-
-
Mullany, P.1
-
14
-
-
58149183697
-
ARDB-antibiotic resistance genes database
-
Liu, B., and Pop, M. (2009) ARDB-antibiotic resistance genes database. Nucleic Acids Res., 37, D443-D447.
-
(2009)
Nucleic Acids Res
, vol.37
, pp. D443-D447
-
-
Liu, B.1
Pop, M.2
-
15
-
-
84879017399
-
The comprehensive antibiotic resistance database
-
McArthur, A.G., Waglechner, N., Nizam, F. et al. (2013) The comprehensive antibiotic resistance database. Antimicrob. Agents Chemother., 57, 3348-3357.
-
(2013)
Antimicrob. Agents Chemother
, vol.57
, pp. 3348-3357
-
-
McArthur, A.G.1
Waglechner, N.2
Nizam, F.3
-
16
-
-
84865531061
-
The shared antibiotic resistome of soil bacteria and human pathogens
-
Forsberg, K.J., Reyes, A., Wang, B. et al. (2012) The shared antibiotic resistome of soil bacteria and human pathogens. Science, 337, 1107-1111.
-
(2012)
Science
, vol.337
, pp. 1107-1111
-
-
Forsberg, K.J.1
Reyes, A.2
Wang, B.3
-
17
-
-
38549164691
-
Gen bank
-
Benson, D.A., Karsch-Mizrachi, I., Lipman, D.J. et al. (2008) Gen Bank. Nucleic Acids Res., 36, D25-D30.
-
(2008)
Nucleic Acids Res
, vol.36
, pp. D25-D30
-
-
Benson, D.A.1
Karsch-Mizrachi, I.2
Lipman, D.J.3
-
18
-
-
9144257886
-
The Pfam protein families database
-
Bateman, A., Coin, L., Durbin, R. et al. (2004) The Pfam protein families database. Nucleic Acids Res., 32, D138-D141.
-
(2004)
Nucleic Acids Res
, vol.32
, pp. D138-D141
-
-
Bateman, A.1
Coin, L.2
Durbin, R.3
-
19
-
-
84921632491
-
Improved annotation of antibiotic resistance determinants reveals microbial resistomes cluster by ecology
-
Gibson, M.K., Forsberg, K.J., and Dantas, G. (2015) Improved annotation of antibiotic resistance determinants reveals microbial resistomes cluster by ecology. isme J., 9, 207-216.
-
(2015)
Isme J
, vol.9
, pp. 207-216
-
-
Gibson, M.K.1
Forsberg, K.J.2
Dantas, G.3
-
20
-
-
58549083738
-
Functional metagenomics reveals diverse beta-lactamases in a remote Alaskan soil
-
Allen, H.K., Moe, L.A., Rodbumrer, J. et al. (2009) Functional metagenomics reveals diverse beta-lactamases in a remote Alaskan soil. isme J., 3, 243-251.
-
(2009)
Isme J
, vol.3
, pp. 243-251
-
-
Allen, H.K.1
Moe, L.A.2
Rodbumrer, J.3
-
21
-
-
84867283741
-
Functional screening of antibiotic resistance genes from human gut microbiota reveals a novel gene fusion
-
Cheng, G., Hu, Y., Yin, Y. et al. (2012) Functional screening of antibiotic resistance genes from human gut microbiota reveals a novel gene fusion. FEMS Microbiol. Lett., 336, 11-16.
-
(2012)
FEMS Microbiol. Lett
, vol.336
, pp. 11-16
-
-
Cheng, G.1
Hu, Y.2
Yin, Y.3
-
22
-
-
0037379398
-
Novel tetracycline resistance determinant from the oral metagenome. Antimicrob
-
Diaz-Torres, M.L., McNab, R., Spratt, D.A. et al. (2003) Novel tetracycline resistance determinant from the oral metagenome. Antimicrob. Agents Chemother., 47, 1430-1432.
-
(2003)
Agents Chemother
, vol.47
, pp. 1430-1432
-
-
Diaz-Torres, M.L.1
McNab, R.2
Spratt, D.A.3
-
23
-
-
77954268851
-
Metagenomic analysis of apple orchard soil reveals antibiotic resistance genes encoding predicted bifunctional proteins
-
Donato, J.J., Moe, L.A., Converse, B.J. et al. (2010) Metagenomic analysis of apple orchard soil reveals antibiotic resistance genes encoding predicted bifunctional proteins. Appl. Environ. Microbiol., 76, 4396-4401.
-
(2010)
Appl. Environ. Microbiol
, vol.76
, pp. 4396-4401
-
-
Donato, J.J.1
Moe, L.A.2
Converse, B.J.3
-
24
-
-
84901652050
-
Bacterial phylogeny structures soil resistomes across habitats
-
Forsberg, K.J., Patel, S., Gibson, M.K. et al. (2014) Bacterial phylogeny structures soil resistomes across habitats. Nature, 509, 612-616.
-
(2014)
Nature
, vol.509
, pp. 612-616
-
-
Forsberg, K.J.1
Patel, S.2
Gibson, M.K.3
-
25
-
-
84967255063
-
Developmental dynamics of the preterm infant gut microbiota and antibiotic resistome
-
Gibson, M.K., Wang, B., Ahmadi, S. et al. (2016) Developmental dynamics of the preterm infant gut microbiota and antibiotic resistome. Nat. Microbiol., 1, 16024.
-
(2016)
Nat. Microbiol
, vol.1
, pp. 16024
-
-
Gibson, M.K.1
Wang, B.2
Ahmadi, S.3
-
26
-
-
62149109328
-
Tetracycline resistome of the organic pig gut
-
Kazimierczak, K.A., Scott, K.P., Kelly, D., and Aminov, R.I. (2009) Tetracycline resistome of the organic pig gut. Appl. Environ. Microbiol., 75, 1717-1722.
-
(2009)
Appl. Environ. Microbiol
, vol.75
, pp. 1717-1722
-
-
Kazimierczak, K.A.1
Scott, K.P.2
Kelly, D.3
Aminov, R.I.4
-
27
-
-
77955562279
-
Novel florfenicol and chloramphenicol resistance gene discovered in Alaskan soil by using functional metagenomics
-
Lang, K.S., Anderson, J.M., Schwarz, S. et al. (2010) Novel florfenicol and chloramphenicol resistance gene discovered in Alaskan soil by using functional metagenomics. Appl. Environ. Microbiol., 76, 5321-5326.
-
(2010)
Appl. Environ. Microbiol
, vol.76
, pp. 5321-5326
-
-
Lang, K.S.1
Anderson, J.M.2
Schwarz, S.3
-
28
-
-
84883529376
-
Identification and modeling of a novel chloramphenicol resistance protein detected by functional metagenomics in a wetland of Lerma
-
Lopez-Perez, M., Mirete, S., Jardon-Valadez, E., and Gonzalez-Pastor, J.E. (2013) Identification and modeling of a novel chloramphenicol resistance protein detected by functional metagenomics in a wetland of Lerma, Mexico. Int.Microbiol., 16, 103-111.
-
(2013)
Mexico. Int.Microbiol
, vol.16
, pp. 103-111
-
-
Lopez-Perez, M.1
Mirete, S.2
Jardon-Valadez, E.3
Gonzalez-Pastor, J.E.4
-
29
-
-
84891906623
-
Pediatric fecal microbiota harbor diverse and novel antibiotic resistance genes
-
Moore, A.M., Patel, S., Forsberg, K.J. et al. (2013) Pediatric fecal microbiota harbor diverse and novel antibiotic resistance genes. PloS One, 8, e78822.
-
(2013)
PloS One
, vol.8
, pp. e78822
-
-
Moore, A.M.1
Patel, S.2
Forsberg, K.J.3
-
30
-
-
55049109790
-
Metagenomic screening for bleomycin resistance genes
-
Mori, T., Mizuta, S., Suenaga, H., and Miyazaki, K. (2008) Metagenomic screening for bleomycin resistance genes. Appl. Environ. Microbiol., 74, 6803-6805.
-
(2008)
Appl. Environ. Microbiol
, vol.74
, pp. 6803-6805
-
-
Mori, T.1
Mizuta, S.2
Suenaga, H.3
Miyazaki, K.4
-
31
-
-
4344587758
-
Uncultured soil bacteria are a reservoir of new antibiotic resistance genes
-
Riesenfeld, C.S., Goodman, R.M., and Handelsman, J. (2004) Uncultured soil bacteria are a reservoir of new antibiotic resistance genes. Environ Microbiol, 6, 981-989.
-
(2004)
Environ Microbiol
, vol.6
, pp. 981-989
-
-
Riesenfeld, C.S.1
Goodman, R.M.2
Handelsman, J.3
-
32
-
-
69549086653
-
Functional characterization of the antibiotic resistance reservoir in the human microflora
-
Sommer, M.O., Dantas, G., and Church, G.M. (2009) Functional characterization of the antibiotic resistance reservoir in the human microflora. Science, 325, 1128-1131.
-
(2009)
Science
, vol.325
, pp. 1128-1131
-
-
Sommer, M.O.1
Dantas, G.2
Church, G.M.3
-
33
-
-
84891803749
-
Functional metagenomic characterization of antibiotic resistance genes in agricultural soils from China
-
Su, J.Q., Wei, B., Xu, C.Y. et al. (2014) Functional metagenomic characterization of antibiotic resistance genes in agricultural soils from China. Environ. Int., 65, 9-15.
-
(2014)
Environ. Int
, vol.65
, pp. 9-15
-
-
Su, J.Q.1
Wei, B.2
Xu, C.Y.3
-
34
-
-
79953293014
-
Characterization of novel antibiotic resistance genes identified by functional metagenomics on soil samples
-
Torres-Cortes, G., Millan, V., Ramirez-Saad, H.C. et al. (2011) Characterization of novel antibiotic resistance genes identified by functional metagenomics on soil samples. Environ. Microbiol., 13, 1101-1114.
-
(2011)
Environ. Microbiol
, vol.13
, pp. 1101-1114
-
-
Torres-Cortes, G.1
Millan, V.2
Ramirez-Saad, H.C.3
-
35
-
-
83255186881
-
Characterization and quantitation of a novel beta-lactamase gene found in a wastewater treatment facility and the surrounding coastal ecosystem
-
Uyaguari, M.I., Fichot, E.B., Scott, G.I., and Norman, R.S. (2011) Characterization and quantitation of a novel beta-lactamase gene found in a wastewater treatment facility and the surrounding coastal ecosystem. Appl. Environ. Microbiol., 77, 8226-8233.
-
(2011)
Appl. Environ. Microbiol
, vol.77
, pp. 8226-8233
-
-
Uyaguari, M.I.1
Fichot, E.B.2
Scott, G.I.3
Norman, R.S.4
-
36
-
-
84899795343
-
Diverse antibiotic resistance genes in dairy cow manure
-
Wichmann, F., Udikovic-Kolic, N., Andrew, S., and Handelsman, J. (2014) Diverse antibiotic resistance genes in dairy cow manure. mBio, 5, e01017.
-
(2014)
MBio
, vol.5
, pp. e01017
-
-
Wichmann, F.1
Udikovic-Kolic, N.2
Andrew, S.3
Handelsman, J.4
-
37
-
-
84861116189
-
Functional cloning and characterization of antibiotic resistance genes from the chicken gut microbiome
-
Zhou, W., Wang, Y., and Lin, J. (2012) Functional cloning and characterization of antibiotic resistance genes from the chicken gut microbiome. Appl. Environ. Microbiol., 78, 3028-3032.
-
(2012)
Appl. Environ. Microbiol
, vol.78
, pp. 3028-3032
-
-
Zhou, W.1
Wang, Y.2
Lin, J.3
-
38
-
-
77953057819
-
Identification of diverse antimicrobial resistance determinants carried on bacterial, plasmid, or viral metagenomes from an activated sludge microbial assemblage
-
Parsley, L.C., Consuegra, E.J., Kakirde, K.S. et al. (2010) Identification of diverse antimicrobial resistance determinants carried on bacterial, plasmid, or viral metagenomes from an activated sludge microbial assemblage. Appl. Environ. Microbiol., 76, 3753-3757.
-
(2010)
Appl. Environ. Microbiol
, vol.76
, pp. 3753-3757
-
-
Parsley, L.C.1
Consuegra, E.J.2
Kakirde, K.S.3
-
39
-
-
77955902981
-
Ab initio gene identification in metagenomic sequences
-
Zhu, W., Lomsadze, A., and Borodovsky, M. (2010) Ab initio gene identification in metagenomic sequences. Nucleic Acids Res., 38, e132.
-
(2010)
Nucleic Acids Res
, vol.38
, pp. e132
-
-
Zhu, W.1
Lomsadze, A.2
Borodovsky, M.3
-
40
-
-
0030801002
-
Gapped BLAST and PSI-BLAST: A new generation of protein database search programs
-
Altschul, S.F., Madden, T.L., Schaffer, A.A. et al. (1997) Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res., 25, 3389-3402.
-
(1997)
Nucleic Acids Res
, vol.25
, pp. 3389-3402
-
-
Altschul, S.F.1
Madden, T.L.2
Schaffer, A.A.3
-
41
-
-
80055082271
-
Accelerated profile HMM searches
-
Eddy, S.R. (2011) Accelerated Profile HMM Searches. PLoS Comput. Biol., 7, e1002195.
-
(2011)
PLoS Comput. Biol
, vol.7
, pp. e1002195
-
-
Eddy, S.R.1
-
43
-
-
34548751162
-
ViroBLAST: A stand-alone BLAST web server for flexible queries of multiple databases and user's datasets
-
Deng, W., Nickle, D.C., Learn, G.H. et al. (2007) ViroBLAST: a stand-alone BLAST web server for flexible queries of multiple databases and user's datasets. Bioinformatics, 23, 2334-2336.
-
(2007)
Bioinformatics
, vol.23
, pp. 2334-2336
-
-
Deng, W.1
Nickle, D.C.2
Learn, G.H.3
-
44
-
-
84924975673
-
A response regulator from a soil metagenome enhances resistance to the beta-lactam antibiotic carbenicillin in Escherichia coli
-
Allen, H.K., An, R., Handelsman, J., and Moe, L.A. (2015) A response regulator from a soil metagenome enhances resistance to the beta-lactam antibiotic carbenicillin in Escherichia coli. PLoS One, 10, e0120094.
-
(2015)
PLoS One
, vol.10
, pp. e0120094
-
-
Allen, H.K.1
An, R.2
Handelsman, J.3
Moe, L.A.4
-
45
-
-
84937712866
-
The tetracycline destructases: A novel family of tetracyclineinactivating enzymes
-
Forsberg, K.J., Patel, S., Wencewicz, T.A., and Dantas, G. (2015) The tetracycline destructases: a novel family of tetracyclineinactivating enzymes. Chem. Biol., 22, 888-897.
-
(2015)
Chem. Biol
, vol.22
, pp. 888-897
-
-
Forsberg, K.J.1
Patel, S.2
Wencewicz, T.A.3
Dantas, G.4
-
46
-
-
84888884475
-
Metagenomic species profiling using universal phylogenetic marker genes
-
Sunagawa, S., Mende, D.R., Zeller, G. et al. (2013) Metagenomic species profiling using universal phylogenetic marker genes. Nat. Methods, 10, 1196-1199.
-
(2013)
Nat. Methods
, vol.10
, pp. 1196-1199
-
-
Sunagawa, S.1
Mende, D.R.2
Zeller, G.3
|