Genomic and functional techniques to mine the microbiome for novel antimicrobials and antimicrobial resistance genes. - PubMed - NCBI

Genomic and functional techniques to mine the microbiome for novel antimicrobials and antimicrobial resistance genes. - PubMed - NCBI

Ann N Y Acad Sci. 2016 Oct 21. doi: 10.1111/nyas.13257. [Epub ahead of print]

Genomic and functional techniques to mine the microbiome for novel antimicrobials and antimicrobial resistance genes.

Adu-Oppong B1, Gasparrini AJ1, Dantas G2,3,4,5.

Author information

Abstract

Microbial communities contain diverse bacteria that play important roles in every environment. Advances in sequencing and computational methodologies over the past decades have illuminated the phylogenetic and functional diversity of microbial communities from diverse habitats. Among the activities encoded in microbiomes are the abilities to synthesize and resist small molecules, yielding antimicrobial activity. These functions are of particular interest when viewed in light of the public health emergency posed by the increase in clinical antimicrobial resistance and the dwindling antimicrobial discovery and approval pipeline, and given the intimate ecological and evolutionary relationship between antimicrobial biosynthesis and resistance. Here, we review genomic and functional methods that have been developed for accessing the antimicrobial biosynthesis and resistance capacity of microbiomes and highlight outstanding examples of their applications.

© 2016 New York Academy of Sciences.

KEYWORDS:

antimicrobial resistance; antimicrobials; metagenomics; microbiome

PMID:

 

27768825

 

DOI:

 

10.1111/nyas.13257

[PubMed - as supplied by publisher]

Public Health Genomics Knowledge Base (v1.2)

MICROBIOME

Last Updated: Nov 02, 2016

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  AK Benson, Nature Genetics, October 27, 2016
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  Genome Magazine, September 29, 2016
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  M Turpin et al, Nature Genetics, October 3, 2016
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  StatNews, September 22, 2016
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  NPR, August 29, 2016
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  AM Levin et al, Science Reports, August 2016
• Sex differences in immune responses.
  Klein Sabra L, et al. Nature reviews. Immunology 2016 8

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