AAI-profiler : fast proteome-wide exploratory analysis reveals taxonomic identity, misclassification and contamination

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Medlar , A J , Törönen , P & Holm , L 2018 , ' AAI-profiler : fast proteome-wide exploratory analysis reveals taxonomic identity, misclassification and contamination ' , Nucleic Acids Research , vol. 46 , no. W1 , pp. W479-W485 . https://doi.org/10.1093/nar/gky359

Title: AAI-profiler : fast proteome-wide exploratory analysis reveals taxonomic identity, misclassification and contamination
Author: Medlar, Alan J.; Törönen, Petri; Holm, Liisa
Contributor: University of Helsinki, Computational genomics
University of Helsinki, Institute of Biotechnology
University of Helsinki, Organismal and Evolutionary Biology Research Programme
Date: 2018-07-02
Language: eng
Number of pages: 7
Belongs to series: Nucleic Acids Research
ISSN: 0305-1048
URI: http://hdl.handle.net/10138/243085
Abstract: We present AAI-profiler, a web server for exploratory analysis and quality control in comparative genomics. AAI-profiler summarizes proteome-wide sequence search results to identify novel species, assess the need for taxonomic reclassification and detect multi-isolate and contaminated samples. AAI-profiler visualises results using a scatterplot that shows the Average Amino-acid Identity (AAI) from the query proteome to all similar species in the sequence database. Taxonomic groups are indicated by colour and marker styles, making outliers easy to spot. AAI-profiler uses SANSparallel to perform high-performance homology searches, making proteome-wide analysis possible. We demonstrate the efficacy of AAI-profiler in the discovery of a close relationship between two bacterial symbionts of an omnivorous pirate bug (Orius) and a thrip (Frankliniella occidentalis), an important pest in agriculture. The symbionts represent novel species within the genus Rosenbergiella so far described only in floral nectar. AAI-profiler is easy to use, the analysis presented only required two mouse clicks and was completed in a few minutes. AAI-profiler is available at http://ekhidna2.biocenter.helsinki.fi/AAI.
Subject: SPECIES DEFINITION
PROKARYOTES
GENOMICS
1182 Biochemistry, cell and molecular biology
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