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Computational discovery and functional validation of novel fluoroquinolone resistance genes in public metagenomic data sets

Overview of attention for article published in BMC Genomics, September 2017
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About this Attention Score

  • In the top 25% of all research outputs scored by Altmetric
  • Good Attention Score compared to outputs of the same age (74th percentile)
  • Good Attention Score compared to outputs of the same age and source (72nd percentile)

Mentioned by

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12 tweeters
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1 Facebook page

Citations

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8 Dimensions

Readers on

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25 Mendeley
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Title
Computational discovery and functional validation of novel fluoroquinolone resistance genes in public metagenomic data sets
Published in
BMC Genomics, September 2017
DOI 10.1186/s12864-017-4064-0
Pubmed ID
Authors

Fredrik Boulund, Fanny Berglund, Carl-Fredrik Flach, Johan Bengtsson-Palme, Nachiket P. Marathe, DG Joakim Larsson, Erik Kristiansson

Abstract

Fluoroquinolones are broad-spectrum antibiotics used to prevent and treat a wide range of bacterial infections. Plasmid-mediated qnr genes provide resistance to fluoroquinolones in many bacterial species and are increasingly encountered in clinical settings. Over the last decade, several families of qnr genes have been discovered and characterized, but their true prevalence and diversity still remain unclear. In particular, environmental and host-associated bacterial communities have been hypothesized to maintain a large and unknown collection of qnr genes that could be mobilized into pathogens. In this study we used computational methods to screen genomes and metagenomes for novel qnr genes. In contrast to previous studies, we analyzed an almost 20-fold larger dataset comprising almost 13 terabases of sequence data. In total, 362,843 potential qnr gene fragments were identified, from which 611 putative qnr genes were reconstructed. These gene sequences included all previously described plasmid-mediated qnr gene families. Fifty-two of the 611 identified qnr genes were reconstructed from metagenomes, and 20 of these were previously undescribed. All of the novel qnr genes were assembled from metagenomes associated with aquatic environments. Nine of the novel genes were selected for validation, and six of the tested genes conferred consistently decreased susceptibility to ciprofloxacin when expressed in Escherichia coli. The results presented in this study provide additional evidence for the ubiquitous presence of qnr genes in environmental microbial communities, expand the number of known qnr gene variants and further elucidate the diversity of this class of resistance genes. This study also strengthens the hypothesis that environmental bacterial communities act as sources of previously uncharacterized qnr genes.

Twitter Demographics

The data shown below were collected from the profiles of 12 tweeters who shared this research output. Click here to find out more about how the information was compiled.

Mendeley readers

The data shown below were compiled from readership statistics for 25 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
Unknown 25 100%

Demographic breakdown

Readers by professional status Count As %
Student > Ph. D. Student 7 28%
Researcher 4 16%
Other 4 16%
Student > Doctoral Student 3 12%
Student > Master 2 8%
Other 3 12%
Unknown 2 8%
Readers by discipline Count As %
Biochemistry, Genetics and Molecular Biology 11 44%
Agricultural and Biological Sciences 6 24%
Immunology and Microbiology 2 8%
Mathematics 1 4%
Computer Science 1 4%
Other 1 4%
Unknown 3 12%

Attention Score in Context

This research output has an Altmetric Attention Score of 6. This is our high-level measure of the quality and quantity of online attention that it has received. This Attention Score, as well as the ranking and number of research outputs shown below, was calculated when the research output was last mentioned on 25 September 2017.
All research outputs
#2,514,546
of 11,823,343 outputs
Outputs from BMC Genomics
#1,324
of 7,015 outputs
Outputs of similar age
#67,600
of 265,123 outputs
Outputs of similar age from BMC Genomics
#23
of 85 outputs
Altmetric has tracked 11,823,343 research outputs across all sources so far. Compared to these this one has done well and is in the 78th percentile: it's in the top 25% of all research outputs ever tracked by Altmetric.
So far Altmetric has tracked 7,015 research outputs from this source. They receive a mean Attention Score of 4.2. This one has done well, scoring higher than 80% of its peers.
Older research outputs will score higher simply because they've had more time to accumulate mentions. To account for age we can compare this Altmetric Attention Score to the 265,123 tracked outputs that were published within six weeks on either side of this one in any source. This one has gotten more attention than average, scoring higher than 74% of its contemporaries.
We're also able to compare this research output to 85 others from the same source and published within six weeks on either side of this one. This one has gotten more attention than average, scoring higher than 72% of its contemporaries.