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Whole genome capture of vector-borne pathogens from mixed DNA samples: a case study of Borrelia burgdorferi

Overview of attention for article published in BMC Genomics, June 2015
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  • Above-average Attention Score compared to outputs of the same age (51st percentile)
  • Above-average Attention Score compared to outputs of the same age and source (52nd percentile)

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Title
Whole genome capture of vector-borne pathogens from mixed DNA samples: a case study of Borrelia burgdorferi
Published in
BMC Genomics, June 2015
DOI 10.1186/s12864-015-1634-x
Pubmed ID
Authors

Giovanna Carpi, Katharine S. Walter, Stephen J. Bent, Anne Gatewood Hoen, Maria Diuk-Wasser, Adalgisa Caccone

Abstract

Rapid and accurate retrieval of whole genome sequences of human pathogens from disease vectors or animal reservoirs will enable fine-resolution studies of pathogen epidemiological and evolutionary dynamics. However, next generation sequencing technologies have not yet been fully harnessed for the study of vector-borne and zoonotic pathogens, due to the difficulty of obtaining high-quality pathogen sequence data directly from field specimens with a high ratio of host to pathogen DNA. We addressed this challenge by using custom probes for multiplexed hybrid capture to enrich for and sequence 30 Borrelia burgdorferi genomes from field samples of its arthropod vector. Hybrid capture enabled sequencing of nearly the complete genome (~99.5 %) of the Borrelia burgdorferi pathogen with 132-fold coverage, and identification of up to 12,291 single nucleotide polymorphisms per genome. The proprosed culture-independent method enables efficient whole genome capture and sequencing of pathogens directly from arthropod vectors, thus making population genomic study of vector-borne and zoonotic infectious diseases economically feasible and scalable. Furthermore, given the similarities of invertebrate field specimens to other mixed DNA templates characterized by a high ratio of host to pathogen DNA, we discuss the potential applicabilty of hybrid capture for genomic study across diverse study systems.

X Demographics

X Demographics

The data shown below were collected from the profiles of 4 X users who shared this research output. Click here to find out more about how the information was compiled.
Mendeley readers

Mendeley readers

The data shown below were compiled from readership statistics for 98 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
United States 4 4%
Sweden 1 1%
France 1 1%
Australia 1 1%
Unknown 91 93%

Demographic breakdown

Readers by professional status Count As %
Researcher 21 21%
Student > Ph. D. Student 20 20%
Student > Master 11 11%
Student > Doctoral Student 7 7%
Other 6 6%
Other 18 18%
Unknown 15 15%
Readers by discipline Count As %
Agricultural and Biological Sciences 41 42%
Biochemistry, Genetics and Molecular Biology 14 14%
Environmental Science 8 8%
Medicine and Dentistry 5 5%
Immunology and Microbiology 4 4%
Other 11 11%
Unknown 15 15%
Attention Score in Context

Attention Score in Context

This research output has an Altmetric Attention Score of 3. 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 01 July 2015.
All research outputs
#14,579,896
of 24,862,067 outputs
Outputs from BMC Genomics
#5,084
of 11,092 outputs
Outputs of similar age
#129,024
of 271,796 outputs
Outputs of similar age from BMC Genomics
#102
of 231 outputs
Altmetric has tracked 24,862,067 research outputs across all sources so far. This one is in the 40th percentile – i.e., 40% of other outputs scored the same or lower than it.
So far Altmetric has tracked 11,092 research outputs from this source. They receive a mean Attention Score of 4.8. This one has gotten more attention than average, scoring higher than 52% 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 271,796 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 51% of its contemporaries.
We're also able to compare this research output to 231 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 52% of its contemporaries.