An efficient strategy of screening for pathogens in wild-caught ticks and mosquitoes by reusing small RNA deep sequencing data.
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ABSTRACT:
SUBMITTER: Zhuang L
PROVIDER: S-EPMC3949703 | biostudies-literature | 2014
REPOSITORIES: biostudies-literature
Publications
An efficient strategy of screening for pathogens in wild-caught ticks and mosquitoes by reusing small RNA deep sequencing data.
Zhuang Lu L Zhang Zhiyi Z An Xiaoping X Fan Hang H Ma Maijuan M Anderson Benjamin D BD Jiang Jiafu J Liu Wei W Cao Wuchun W Tong Yigang Y
PloS one 20140311 3
This paper explored our hypothesis that sRNA (18 ∼ 30 bp) deep sequencing technique can be used as an efficient strategy to identify microorganisms other than viruses, such as prokaryotic and eukaryotic pathogens. In the study, the clean reads derived from the sRNA deep sequencing data of wild-caught ticks and mosquitoes were compared against the NCBI nucleotide collection (non-redundant nt database) using Blastn. The blast results were then analyzed with in-house Python scripts. An empirical fo ...[more]
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