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X Demographics
Mendeley readers
Attention Score in Context
| Title |
A Validation Approach of an End-to-End Whole Genome Sequencing Workflow for Source Tracking of Listeria monocytogenes and Salmonella enterica
|
|---|---|
| Published in |
Frontiers in Microbiology, March 2018
|
| DOI | 10.3389/fmicb.2018.00446 |
| Pubmed ID | |
| Authors |
Anne-Catherine Portmann, Coralie Fournier, Johan Gimonet, Catherine Ngom-Bru, Caroline Barretto, Leen Baert |
| Abstract |
Whole genome sequencing (WGS), using high throughput sequencing technology, reveals the complete sequence of the bacterial genome in a few days. WGS is increasingly being used for source tracking, pathogen surveillance and outbreak investigation due to its high discriminatory power. In the food industry, WGS used for source tracking is beneficial to support contamination investigations. Despite its increased use, no standards or guidelines are available today for the use of WGS in outbreak and/or trace-back investigations. Here we present a validation of our complete (end-to-end) WGS workflow forListeria monocytogenesandSalmonella entericaincluding: subculture of isolates, DNA extraction, sequencing and bioinformatics analysis. This end-to-end WGS workflow was evaluated according to the following performance criteria: stability, repeatability, reproducibility, discriminatory power, and epidemiological concordance. The current study showed that few single nucleotide polymorphism (SNPs) were observed forL. monocytogenesandS. entericawhen comparing genome sequences from five independent colonies from the first subculture and five independent colonies after the tenth subculture. Consequently, the stability of the WGS workflow forL. monocytogenesandS. entericawas demonstrated despite the few genomic variations that can occur during subculturing steps. Repeatability and reproducibility were also demonstrated. The WGS workflow was shown to have a high discriminatory power and has the ability to show genetic relatedness. Additionally, the WGS workflow was able to reproduce published outbreak investigation results, illustrating its capability of showing epidemiological concordance. The current study proposes a validation approach comprising all steps of a WGS workflow and demonstrates that the workflow can be applied toL. monocytogenesorS. enterica. |
X Demographics
Geographical breakdown
| Country | Count | As % |
|---|---|---|
| United States | 4 | 18% |
| Australia | 2 | 9% |
| United Kingdom | 2 | 9% |
| New Zealand | 1 | 5% |
| Ireland | 1 | 5% |
| Unknown | 12 | 55% |
Demographic breakdown
| Type | Count | As % |
|---|---|---|
| Scientists | 14 | 64% |
| Members of the public | 7 | 32% |
| Science communicators (journalists, bloggers, editors) | 1 | 5% |
Mendeley readers
The data shown below were compiled from readership statistics for 91 Mendeley readers of this research output. Click here to see the associated Mendeley record.
Geographical breakdown
| Country | Count | As % |
|---|---|---|
| Unknown | 91 | 100% |
Demographic breakdown
| Readers by professional status | Count | As % |
|---|---|---|
| Researcher | 17 | 19% |
| Student > Master | 15 | 16% |
| Student > Ph. D. Student | 9 | 10% |
| Other | 6 | 7% |
| Student > Doctoral Student | 5 | 5% |
| Other | 12 | 13% |
| Unknown | 27 | 30% |
| Readers by discipline | Count | As % |
|---|---|---|
| Biochemistry, Genetics and Molecular Biology | 26 | 29% |
| Agricultural and Biological Sciences | 14 | 15% |
| Immunology and Microbiology | 6 | 7% |
| Medicine and Dentistry | 3 | 3% |
| Environmental Science | 2 | 2% |
| Other | 8 | 9% |
| Unknown | 32 | 35% |
Attention Score in Context
This research output has an Altmetric Attention Score of 12. 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 26 September 2018.
All research outputs
#3,056,438
of 25,827,956 outputs
Outputs from Frontiers in Microbiology
#2,466
of 29,854 outputs
Outputs of similar age
#60,926
of 353,103 outputs
Outputs of similar age from Frontiers in Microbiology
#83
of 600 outputs
Altmetric has tracked 25,827,956 research outputs across all sources so far. Compared to these this one has done well and is in the 88th percentile: it's in the top 25% of all research outputs ever tracked by Altmetric.
So far Altmetric has tracked 29,854 research outputs from this source. They typically receive a little more attention than average, with a mean Attention Score of 6.4. This one has done particularly well, scoring higher than 91% 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 353,103 tracked outputs that were published within six weeks on either side of this one in any source. This one has done well, scoring higher than 82% of its contemporaries.
We're also able to compare this research output to 600 others from the same source and published within six weeks on either side of this one. This one has done well, scoring higher than 86% of its contemporaries.