Functional screening of antibiotic resistance genes from human gut microbiota reveals a novel gene fusion

FEMS Microbiology Letters

Volumn 336, Issue 1, 2012, Pages 11-16

  Cheng, Gong ^a,b   Hu, Yongfei ^a   Yin, Yeshi ^a   Yang, Xi ^a,b   Xiang, Chunsheng ^c   Wang, Baohong ^c   Chen, Yanfei ^c   Yang, Fengling ^c   Lei, Fang ^a,b   Wu, Na ^a,b   Lu, Na ^a   Li, Jing ^a   Chen, Quanze ^a   Li, Lanjuan ^c   Zhu, Baoli ^a  

^a INSTITUTE OF MICROBIOLOGY   (China)

^b UNIVERSITY OF CHINESE ACADEMY OF SCIENCES   (China)

^c ZHEJIANG UNIVERSITY   (China)

Author keywords

Antibiotic resistance; Gut microbiology; Metagenomics

Indexed keywords

ACYLTRANSFERASE; AMOXICILLIN; BETA LACTAMASE; CYCLOSERINE; DEXTRO ALANINE DEXTRO ALANINE LIGASE; KANAMYCIN;

6' AMINOGLYCOSIDE ACETYLTRANSFERASE GENE; AMINO TERMINAL SEQUENCE; ANTIBIOTIC RESISTANCE; ARTICLE; BACTERIAL GENE; BETA LACTAMASE GENE; CARBOXY TERMINAL SEQUENCE; CLOSTRIDIALES; CONCENTRATION RESPONSE; CONTROLLED STUDY; DEXTRO ALANINE DEXTRO ALANINE LIGASE GENE; DRUG EFFECT; ENTEROCOCCUS HIRAE; GENE FUNCTION; GENE FUSION; GENE LIBRARY; GENETIC CODE; GENETIC SCREENING; HUMAN; INTESTINE FLORA; METAGENOMICS; MINIMUM INHIBITORY CONCENTRATION; NONHUMAN; NORMAL HUMAN; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; RIEMERELLA ANATIPESTIFER; UNINDEXED SEQUENCE;

ANTI-BACTERIAL AGENTS; BACTERIA; BACTERIAL PROTEINS; DRUG RESISTANCE, BACTERIAL; GASTROINTESTINAL TRACT; GENE FUSION; HUMANS; METAGENOME; MICROBIAL SENSITIVITY TESTS; MOLECULAR SEQUENCE DATA; PHYLOGENY;

EID: 84867283741     PISSN: 03781097     EISSN: 15746968     Source Type: Journal    
DOI: 10.1111/j.1574-6968.2012.02647.x     Document Type: Article

References (28)

1. Bush K & Jacoby GA (2010) Updated functional classification of β-lactamases. Antimicrob Agents Chemother 54: 969-976.
2. Centron D & Roy PH (2002) Presence of a group II intron in a multiresistant Serratia marcescens strain that harbors three integrons and a novel gene fusion. Antimicrob Agents Chemother 46: 1402-1409.
3. Clinical and Laboratory Standards Institute (CLSI) (2010) Performance Standards for Antimicrobial Susceptibility Testing: Twentieth Informational Supplement M100-S20. CLSI, Wayne, PA.
4. de Vries LE, Valles Y, Agerso Y et al. (2011) The gut as reservoir of antibiotic resistance: microbial diversity of tetracycline resistance in mother and infant. PLoS ONE 6: e21644.
5. Del Campo R, Galan JC, Tenorio C, Ruiz-Garbajosa P, Zarazaga M, Torres C & Baquero F (2005) New aac(6′)-I genes in Enterococcus hirae and Enterococcus durans: effect on β-lactam/aminoglycoside synergy. J Antimicrob Chemother 55: 1053-1055.
6. Donato JJ, Moe LA, Converse BJ, Smart KD, Berklein FC, McManus PS & Handelsman J (2010) Metagenomic analysis of apple orchard soil reveals antibiotic resistance genes encoding predicted bifunctional proteins. Appl Environ Microbiol 76: 4396-4401.
7. Dubois V, Poirel L, Marie C, Arpin C, Nordmann P & Quentin C (2002) Molecular characterization of a novel class 1 integron containing bla(GES-1) and a fused product of aac3-Ib/aac6′-Ib′ gene cassettes in Pseudomonas aeruginosa. Antimicrob Agents Chemother 46: 638-645.
8. Eckburg PB, Bik EM, Bernstein CN et al. (2005) Diversity of the human intestinal microbial flora. Science 308: 1635-1638.
9. Felsenstein J (1985) Confidence-limits on phylogenies - an approach using the bootstrap. Evolution 39: 783-791.
10. Ferrer M, Beloqui A, Timmis KN & Golyshin PN (2009) Metagenomics for mining new genetic resources of microbial communities. J Mol Microbiol Biotechnol 16: 109-123.
11. Ferretti JJ, Gilmore KS & Courvalin P (1986) Nucleotide sequence analysis of the gene specifying the bifunctional 6′-aminoglycoside acetyltransferase 2″-aminoglycoside phosphotransferase enzyme in Streptococcus faecalis and identification and cloning of gene regions specifying the two activities. J Bacteriol 167: 631-638.
12. Gueimonde M, Salminen S & Isolauri E (2006) Presence of specific antibiotic (tet) resistance genes in infant faecal microbiota. FEMS Immunol Med Microbiol 48: 21-25.
13. Jernberg C, Lofmark S, Edlund C & Jansson JK (2010) Long-term impacts of antibiotic exposure on the human intestinal microbiota. Microbiology 156: 3216-3223.
14. Kazimierczak KA & Scott KP (2007) Antibiotics and resistance genes: influencing the microbial ecosystem in the gut. Adv Appl Microbiol 62: 269-292.
15. Kazimierczak KA, Rincon MT, Patterson AJ, Martin JC, Young P, Flint HJ & Scott KP (2008) A new tetracycline efflux gene, tet(40), is located in tandem with tet(O/32/O) in a human gut firmicute bacterium and in metagenomic library clones. Antimicrob Agents Chemother 52: 4001-4009.
16. Kazimierczak KA, Scott KP, Kelly D & Aminov RI (2009) Tetracycline resistome of the organic pig gut. Appl Environ Microbiol 75: 1717-1722.
17. Mendes RE, Toleman MA, Ribeiro J, Sader HS, Jones RN & Walsh TR (2004) Integron carrying a novel metallo-beta-lactamase gene, blaIMP-16, and a fused form of aminoglycoside-resistant gene aac(6′)-30/aac(6′)-Ib′: report from the SENTRY Antimicrobial Surveillance Program. Antimicrob Agents Chemother 48: 4693-4702.
18. Mulvey MR, Boyd DA, Baker L et al. (2004) Characterization of a Salmonella enterica serovar Agona strain harbouring a class 1 integron containing novel OXA-type beta-lactamase (blaOXA-53) and 6′-N-aminoglycoside acetyltransferase genes [aac(6′)-I30]. J Antimicrob Chemother 54: 354-359.
19. O'Hara AM & Shanahan F (2007) Gut microbiota: mining for therapeutic potential. Clin Gastroenterol Hepatol 5: 274-284.
20. Partridge SR, Thomas LC, Ginn AN, Wiklendt AM, Kyme P & Iredell JR (2011) A novel gene cassette, aacA43, in a plasmid-borne class 1 integron. Antimicrob Agents Chemother 55: 2979-2982.
21. Rajilic-Stojanovic M, Smidt H & de Vos WM (2007) Diversity of the human gastrointestinal tract microbiota revisited. Environ Microbiol 9: 2125-2136.
22. Riesenfeld CS, Goodman RM & Handelsman J (2004) Uncultured soil bacteria are a reservoir of new antibiotic resistance genes. Environ Microbiol 6: 981-989.
23. Salipante SJ & Hall BG (2003) Determining the limits of the evolutionary potential of an antibiotic resistance gene. Mol Biol Evol 20: 653-659.
24. Seville LA, Patterson AJ, Scott KP et al. (2009) Distribution of tetracycline and erythromycin resistance genes among human oral and fecal metagenomic DNA. Microb Drug Resist 15: 159-166.
25. Sommer MO, Dantas G & Church GM (2009) Functional characterization of the antibiotic resistance reservoir in the human microflora. Science 325: 1128-1131.
26. Tamura K, Peterson D, Peterson N, Stecher G, Nei M & Kumar S (2011) MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol Biol Evol 28: 2731-2739.
27. Yuan J, Liu W, Sun M, Song S, Cai J & Hu S (2011) Complete genome sequence of the pathogenic bacterium Riemerella anatipestifer strain RA-GD. J Bacteriol 193: 2896-2897.
28. Zhou J, Bruns MA & Tiedje JM (1996) DNA recovery from soils of diverse composition. Appl Environ Microbiol 62: 316-322.