Visitors   Views   Downloads

Investigation of the seasonal microbiome of Anopheles coluzzii in Mali

View preprint
Investigation of the seasonal microbiome of Anopheles coluzzii in Mali [PeerJ Preprints] https://t.co/3XrLmYOggx
Investigation of the seasonal microbiome of Anopheles coluzzii in Mali https://t.co/0EWW9A5dIn
14 days ago
Investigation of the seasonal microbiome of Anopheles coluzzii in Mali https://t.co/QSgDF5DvVl
NOT PEER-REVIEWED
"PeerJ Preprints" is a venue for early communication or feedback before peer review. Data may be preliminary.

Supplemental Information

Seasonal fungal biome of mosquitoes determined via ITS region sequencing

DOI: 10.7287/peerj.preprints.3391v1/supp-1

Comparison of Shannon diversity between samples groups

Changes between season/location (A), season (B), and field vs. lab (C) are shown. Significance determined via Kruskal-Wallis chi-square with Dunn’s multiple comparison adjustment where applicable.

DOI: 10.7287/peerj.preprints.3391v1/supp-2

Comparison of mean number of sequence variants (A) and genera (B) for each season/location

Significance determined via Kruskal-Wallis chi-square with Dunn’s multiple comparison adjustment where applicable.

DOI: 10.7287/peerj.preprints.3391v1/supp-3

High presence of sample singletons at the Genus (A) and sequence variant (B) level

DOI: 10.7287/peerj.preprints.3391v1/supp-4

Genus-level DESeq2 analysis of samples between seasons and locations

A negative log2 fold change represents a genus-agglomerated taxon that loses read prevalence from the Wet to Dry Season, and a positive log2 fold change represents a genus that increases during this transition. p-adj is the Benjamini-Hochberg adjusted p-value accounting for a false discovery rate of 0.1. Each panel compares transition from Wet (left) to Dry (right, panels A and B) or from Field (left) to Laboratory (right, panel C).

DOI: 10.7287/peerj.preprints.3391v1/supp-5

Random forest supervised learning to discriminate season and location for each sample group

Analysis is performed on all samples (pooled and individuals) for each location. The top ten variables (genera) important to the created model is shown in Panel B. Significantly different center points in the ordination via PERMANOVA are present in Panel C. Prevalence of the genera for each sample group is presented in Panel D.

DOI: 10.7287/peerj.preprints.3391v1/supp-6

Sequences variants present in 19 most abundant genera

Phylogenetic tree representing each 16S sequence variant (A) and OTU-level (B, 97% identity) for the 19 most prevalent taxa found in the Anopheles coluzzii samples.

DOI: 10.7287/peerj.preprints.3391v1/supp-7

Supplementary information on the 19 most abundant genera in the study

Presence in arthropods is from Minard et al. unless otherwise noted. Non-insect environment and presence in arthropods is not comprehensive.

DOI: 10.7287/peerj.preprints.3391v1/supp-8

No correlation of known “kitome” genera with read count in our study

Kitome genera are based on summary table from Salter et al. (Salter et al., 2014)

DOI: 10.7287/peerj.preprints.3391v1/supp-9

Additional Information

Competing Interests

The authors declare that they have no competing interests.

Author Contributions

Benjamin J Krajacich conceived and designed the experiments, performed the experiments, analyzed the data, wrote the paper, prepared figures and/or tables, reviewed drafts of the paper.

Diana L Huestis conceived and designed the experiments, performed the experiments, reviewed drafts of the paper.

Adama Dao performed the experiments, contributed reagents/materials/analysis tools, reviewed drafts of the paper.

Alpha S Yaro performed the experiments, contributed reagents/materials/analysis tools, reviewed drafts of the paper.

Moussa Diallo performed the experiments, contributed reagents/materials/analysis tools, reviewed drafts of the paper.

Asha Krishna performed the experiments, reviewed drafts of the paper.

Jiannong Xu conceived and designed the experiments, reviewed drafts of the paper.

Tovi Lehmann conceived and designed the experiments, analyzed the data, contributed reagents/materials/analysis tools, wrote the paper, reviewed drafts of the paper.

Data Deposition

The following information was supplied regarding data availability:

The unprocessed fasta/qual files, and all R/SAS script files for analysis/figure generation are available for download at: https://zenodo.org/record/1003488.

Funding

This study was supported by the Division of Intramural Research, National Institute of Allergy and Infectious Diseases, National Institutes of Health (AI001196-04 and SC1AI112786). The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.


Add your feedback

Before adding feedback, consider if it can be asked as a question instead, and if so then use the Question tab. Pointing out typos is fine, but authors are encouraged to accept only substantially helpful feedback.

Some Markdown syntax is allowed: _italic_ **bold** ^superscript^ ~subscript~ %%blockquote%% [link text](link URL)
 
By posting this you agree to PeerJ's commenting policies