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Abstract
Background: The M-CAMPTM (Microbiome Computational Analysis for Multi-omic Profiling) Cloud Platform was designed to provide users with an easy-to-use web interface to access best in class microbiome analysis tools. This interface allows bench scientists to conduct bioinformatic analysis on their samples and then download publication-ready graphics and reports.
Objective: In this study, we aim to describe the M-CAMPTM platform and demonstrate that the taxonomic classification is more accurate than previously described methods on a wide range of microbiome samples.
Methods: The core pipeline of the platform is the 16S-seq taxonomic classification algorithm which provides species-level classification of Illumina 16s sequencing. This algorithm uses a novel approach combining alignment and kmer-based taxonomic classification methodologies to produce a highly accurate and comprehensive profile. Additionally, a comprehensive proprietary database combining reference sequences from multiple sources was curated and contained 18056 unique V3-V4 sequences covering 11527 species.
Results and Discussion: The M-CAMPTM 16S taxonomic classification algorithm evaluated 52 sequencing samples from both public and in-house standard sample mixtures with known fractions. The same evaluation process was also performed on 5 well-known 16S taxonomic classification algorithms, including Qiime2, Kraken2, Mapseq, Idtaxa and Spingo, using the same dataset. Results have been discussed in terms of evaluation metrics and classified taxonomic levels.
Conclusion: Compared to current popular publicly accessible classification algorithms, M-CAMPTM 16S taxonomic classification algorithm provides the most accurate species-level classification of 16S rRNA sequencing data.
Keywords: Microbiology, 16S-seq, DNA sequencing, bioinformatics, web application, benchmarking.
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