Cochineal 16S - Preliminary Results
1 Methodology
Data was processed with version 2.10.0 of the nf-core/ampliseq pipeline (Straub et al. 2020). The pipeline uses DADA2 (Callahan et al. 2016) for Amplicon-sequence variant (ASV) inference, QIIME2 (Bolyen et al. 2019) for calculating diversity indices and PICRUSt2 (Douglas et al. 2020) for predicting the functional potential of bacteria.
2 Results
2.1 Relative Taxonomic Abundance
The full data for the calculated taxonomic abundance can be interacted with in the following page: https://dalmolingroup.github.io/cochineal_16s/qiime2_relative_abundance/. It enables analysis at every taxonomic level, showing the relative frequency of each taxa at that level.
By far the most abundant taxa is Candidatus Uzinura, which has been described previously as an endosymbiont in armored scaled insects (Sabree et al. 2013).
2.2 Alpha Diversity
The Shannon Diversity Index was calculated for each sample, here presented by the group they were assigned to in the sample name.
2.3 Functional Prediction
Below are the 30 most common pathways in all samples, as predicted by PICRUSt2. Pathway data is from the MetaCyc database (Caspi et al. 2018). Values are the log10 transformed predicted abundances from PICRUSt2.
3 Acknowledgements
We would like to thank NPAD/UFRN for computational resources expended.