DOI: 10.5061/dryad.37m5c
title: Data from: Wolbachia infection alters the relative abundance of resident bacteria in adult Aedes aegypti mosquitoes, but not larvae

description: Insect-symbiont interactions are known to play key roles in host functions
 and fitness. The common insect endosymbiont Wolbachia can reduce the
 ability of several human pathogens, including arboviruses and the malaria
 parasite, to replicate in insect hosts. Wolbachia does not naturally
 infect Aedes aegypti, the primary vector of dengue virus, but
 transinfected Ae. aegypti have anti-dengue virus properties and are
 currently being trialled as a dengue biocontrol strategy. Here, we assess
 the impact of Wolbachia infection of Ae. aegypti on the microbiome of wild
 mosquito populations (adults and larvae) collected from release sites in
 Cairns, Australia, by profiling 16S rRNA gene using next generation
 sequencing. Our data indicate that Wolbachia reduces the relative
 abundance of a large proportion of bacterial taxa in Ae. aegypti adults,
 that is in accordance with the known pathogen-blocking effects of
 Wolbachia on a variety of bacteria and viruses. In adults, several of the
 most abundant bacterial genera were found to undergo significant shifts in
 relative abundance. However, the genera showing the greatest changes in
 relative abundance in Wolbachia-infected adults represented a low
 proportion of the total microbiome. In addition, there was little effect
 of Wolbachia infection on the relative abundance of bacterial taxa in
 larvae, or on species diversity (accounting for species richness and
 evenness together) detected in adults or larvae. These results offer
 insight into the effects of Wolbachia on the Ae. aegypti microbiome in a
 native setting, an important consideration for field releases of Wolbachia
 into the population.
description: larvae_unsum_fulldata_rawcountsLarvae: Raw sequence counts assigned to OTUs (97% identity threshold) without any filtering or summarizing. Post Wolbachia sequence removal.adults_unsum_fulldata_rawcountsAdults: Raw sequence counts assigned to OTUs (97% identity threshold) without any filtering or summarizing. Post Wolbachia sequence removal.larvae_otu_table_noWol_L2Larvae: QIIME OTU table summarized at L2 (phylum). Post Wolbachia removal. No filtering for low count OTUs.otu_table_noWol_L2.txtlarvae_otu_table_noWol_L3Larvae: QIIME OTU table summarized at L3 (class). Post Wolbachia removal. No filtering for low count OTUs.otu_table_noWol_L3.txtlarvae_otu_table_noWol_L4Larvae: QIIME OTU table summarized at L4 (order). Post Wolbachia removal. No filtering for low count OTUs.otu_table_noWol_L4.txtlarvae_otu_table_noWol_L5Larvae: QIIME OTU table summarized at L5 (family). Post Wolbachia removal. No filtering for low count OTUs.otu_table_noWol_L5.txtlarvae_otu_table_noWol_L6Larvae: QIIME OTU table summarized at L6 (genus). Post Wolbachia removal. No filtering for low count OTUs.otu_table_noWol_L6.txtadults_otu_table_noWol_L2Adults: QIIME OTU table summarized at L2 (phylum). Post Wolbachia removal. No filtering for low count OTUs.otu_table_noWol_L2.txtadults_otu_table_noWol_L3Adults: QIIME OTU table summarized at L3 (class). Post Wolbachia removal. No filtering for low count OTUs.otu_table_noWol_L3.txtadults_dotu_table_noWol_L4Adults: QIIME OTU table summarized at L4 (order). Post Wolbachia removal. No filtering for low count OTUs.otu_table_noWol_L4.txtadults_otu_table_noWol_L5Adults: QIIME OTU table summarized at L5 (family). Post Wolbachia removal. No filtering for low count OTUs.otu_table_noWol_L5.txtadults_otu_table_noWol_L6Adults: QIIME OTU table summarized at L6 (genus). Post Wolbachia removal. No filtering for low count OTUs.otu_table_noWol_L6.txtLarvae_unsum_edgeR_pooled_allDifferential relative abundance calculated using phyloseq/edgeR with collection sites pooled to compare all Wolbachia-negative samples to all Wolbachia-positive samples. Input files were QIIME OTU tables (unsummarized, 97% identity threshold) that have been filtered for Wolbachia and for low-count OTUs.Larvae_unsum_edgeR_glm_allDifferential relative abundance in Wolbachia-negative samples compared to Wolbachia-positive samples, calculated using phyloseq/edgeR with a linear model to include collection site as a factor. Input files were QIIME OTU tables (unsummarized, 97% identity threshold) that have been filtered for Wolbachia and for low-count OTUs.Larvae_L6sum_edgeR_pooled_allDifferential relative abundance calculated using phyloseq/edgeR with collection sites pooled to compare all Wolbachia-negative samples to all Wolbachia-positive samples. Input files were QIIME OTU tables (summarized at L6, genus) that have been filtered for Wolbachia and for low-count OTUs.Larvae_L6sum_edgeR_glm_allDifferential relative abundance in Wolbachia-negative samples compared to Wolbachia-positive samples, calculated using phyloseq/edgeR with a linear model to include collection site as a factor. Input files were QIIME OTU tables (summarized at L6, genus) that have been filtered for Wolbachia and for low-count OTUs.Adults_unsum_edgeR_pooled_allDifferential relative abundance calculated using phyloseq/edgeR with collection sites pooled to compare all Wolbachia-negative samples to all Wolbachia-positive samples. Input files were QIIME OTU tables (unsummarized, 97% identity threshold) that have been filtered for Wolbachia and for low-count OTUs.Adults_unsum_edgeR_glm_allDifferential relative abundance in Wolbachia-negative samples compared to Wolbachia-positive samples, calculated using phyloseq/edgeR with a linear model to include collection site as a factor. Input files were QIIME OTU tables (unsummarized, 97% identity threshold) that have been filtered for Wolbachia and for low-count OTUs.Adults_L6sum_edgeR_pooled_allDifferential relative abundance calculated using phyloseq/edgeR with collection sites pooled to compare all Wolbachia-negative samples to all Wolbachia-positive samples. Input files were QIIME OTU tables (summarized at L6, genus) that have been filtered for Wolbachia and for low-count OTUs.Adults_L6sum_edgeR_glm_allDifferential relative abundance in Wolbachia-negative samples compared to Wolbachia-positive samples, calculated using phyloseq/edgeR with a linear model to include collection site as a factor. Input files were QIIME OTU tables (summarized at L6, genus) that have been filtered for Wolbachia and for low-count OTUs.READMEREADME file pertaining to all uploads.