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Surveying the endomicrobiome and ectomicrobiome of bark beetles: The case of Dendroctonus simplex.

Durand AA, Bergeron A, Constant P, Buffet JP, Déziel E, Guertin C - Sci Rep (2015)

Bottom Line: The aim of this study was to characterize the bacterial microbiome associated with the eastern larch beetle, Dendroctonus simplex, using bacterial 16S rRNA gene pyrosequencing.The index of dissimilarity indicates that the bacterial microbiome associated with each environment constitutes exclusive groups.This study reports for the first time the identification of the eastern larch beetle microbiome.

View Article: PubMed Central - PubMed

Affiliation: INRS-Institut Armand-Frappier, Laval, QC, H7V1B7, Canada.

ABSTRACT
Many bark beetles belonging to the Dendroctonus genus carry bacterial and fungal microbiota, forming a symbiotic complex that helps the insect to colonize the subcortical environment of the host tree. However, the biodiversity of those bacteria at the surface of the cuticle or inside the body parts of bark beetles is not well established. The aim of this study was to characterize the bacterial microbiome associated with the eastern larch beetle, Dendroctonus simplex, using bacterial 16S rRNA gene pyrosequencing. The ecto- and endomicrobiome and the subcortical galleries were investigated. Several bacterial genera were identified, among which Pseudomonas, Serratia and Yersinia are associated with the surface of the beetle cuticle, and genera belonging to Enterobacteriaceae and Gammaproteobacteria with the interior of the insect body. The index of dissimilarity indicates that the bacterial microbiome associated with each environment constitutes exclusive groups. These results suggest the presence of distinct bacterial microbiota on the surface of the cuticle and the interior of D. simplex body. Additionally, the bacterial diversity identified in the galleries is substantially different from the ectomicrobiome, which could indicate a selection by the insect. This study reports for the first time the identification of the eastern larch beetle microbiome.

No MeSH data available.


Related in: MedlinePlus

Phylogenetic affiliation of the abundant bacterial OTUs associated with theeastern larch beetle based on partial 16S rRNA gene sequences.Closely related sequences were identified using BLASTN against NCBI database.Sequences were aligned using the MUSCLE algorithm implemented in Geneious.Maximum phylogenetic tree was constructed with FastTree using the GTR modelwith 1,000 resampling. The colors used for the OTUs represent theenvironment they belong to (blue = ectomicrobiome,orange = microbiome of the galleries,green = endomicrobiome,* = presence in ectomicrobiome and galleries and+ = presence in endomicrobiome and galleries).
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f3: Phylogenetic affiliation of the abundant bacterial OTUs associated with theeastern larch beetle based on partial 16S rRNA gene sequences.Closely related sequences were identified using BLASTN against NCBI database.Sequences were aligned using the MUSCLE algorithm implemented in Geneious.Maximum phylogenetic tree was constructed with FastTree using the GTR modelwith 1,000 resampling. The colors used for the OTUs represent theenvironment they belong to (blue = ectomicrobiome,orange = microbiome of the galleries,green = endomicrobiome,* = presence in ectomicrobiome and galleries and+ = presence in endomicrobiome and galleries).

Mentions: To further investigate the taxonomic identification of the most abundant OTUsacross the three ecological niches, a maximum likelihood phylogenetic tree wasconstructed using FastTree based on the representative 16S sequences of each OTUand their closely related sequences identified by BLASTN (Fig.3). Phylogenetic analysis revealed taxa related to generaPseudomonas, Pantoea, Erwinia, Rahnella,Serratia and Ewingella on the surface of theinsect’s cuticle. Whereas, in the interior of the insect body, mostOTUs (56) formed a well-delineated and monophyletic cluster representingpotentially novel bacterial genera belonging to the family Enterobacteriaceae.Among the closest relatives of this cluster (85% identity) werePhotorhabdus and Xenorhabdus. Likewise, for the endobacteria,two OTUs were affiliated to Lactobacillus (Firmicutes). Finally, the mostfrequently found OTUs in galleries exhibit phylogenetic relationships withPseudoxanthomonas, Gilvibacter, Terriglobus,Lactobacillus and Raoultella. Furthermore, some OTUs highlyabundant in the endomicrobiome have also been recovered from the galleries.


Surveying the endomicrobiome and ectomicrobiome of bark beetles: The case of Dendroctonus simplex.

Durand AA, Bergeron A, Constant P, Buffet JP, Déziel E, Guertin C - Sci Rep (2015)

Phylogenetic affiliation of the abundant bacterial OTUs associated with theeastern larch beetle based on partial 16S rRNA gene sequences.Closely related sequences were identified using BLASTN against NCBI database.Sequences were aligned using the MUSCLE algorithm implemented in Geneious.Maximum phylogenetic tree was constructed with FastTree using the GTR modelwith 1,000 resampling. The colors used for the OTUs represent theenvironment they belong to (blue = ectomicrobiome,orange = microbiome of the galleries,green = endomicrobiome,* = presence in ectomicrobiome and galleries and+ = presence in endomicrobiome and galleries).
© Copyright Policy - open-access
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4660424&req=5

f3: Phylogenetic affiliation of the abundant bacterial OTUs associated with theeastern larch beetle based on partial 16S rRNA gene sequences.Closely related sequences were identified using BLASTN against NCBI database.Sequences were aligned using the MUSCLE algorithm implemented in Geneious.Maximum phylogenetic tree was constructed with FastTree using the GTR modelwith 1,000 resampling. The colors used for the OTUs represent theenvironment they belong to (blue = ectomicrobiome,orange = microbiome of the galleries,green = endomicrobiome,* = presence in ectomicrobiome and galleries and+ = presence in endomicrobiome and galleries).
Mentions: To further investigate the taxonomic identification of the most abundant OTUsacross the three ecological niches, a maximum likelihood phylogenetic tree wasconstructed using FastTree based on the representative 16S sequences of each OTUand their closely related sequences identified by BLASTN (Fig.3). Phylogenetic analysis revealed taxa related to generaPseudomonas, Pantoea, Erwinia, Rahnella,Serratia and Ewingella on the surface of theinsect’s cuticle. Whereas, in the interior of the insect body, mostOTUs (56) formed a well-delineated and monophyletic cluster representingpotentially novel bacterial genera belonging to the family Enterobacteriaceae.Among the closest relatives of this cluster (85% identity) werePhotorhabdus and Xenorhabdus. Likewise, for the endobacteria,two OTUs were affiliated to Lactobacillus (Firmicutes). Finally, the mostfrequently found OTUs in galleries exhibit phylogenetic relationships withPseudoxanthomonas, Gilvibacter, Terriglobus,Lactobacillus and Raoultella. Furthermore, some OTUs highlyabundant in the endomicrobiome have also been recovered from the galleries.

Bottom Line: The aim of this study was to characterize the bacterial microbiome associated with the eastern larch beetle, Dendroctonus simplex, using bacterial 16S rRNA gene pyrosequencing.The index of dissimilarity indicates that the bacterial microbiome associated with each environment constitutes exclusive groups.This study reports for the first time the identification of the eastern larch beetle microbiome.

View Article: PubMed Central - PubMed

Affiliation: INRS-Institut Armand-Frappier, Laval, QC, H7V1B7, Canada.

ABSTRACT
Many bark beetles belonging to the Dendroctonus genus carry bacterial and fungal microbiota, forming a symbiotic complex that helps the insect to colonize the subcortical environment of the host tree. However, the biodiversity of those bacteria at the surface of the cuticle or inside the body parts of bark beetles is not well established. The aim of this study was to characterize the bacterial microbiome associated with the eastern larch beetle, Dendroctonus simplex, using bacterial 16S rRNA gene pyrosequencing. The ecto- and endomicrobiome and the subcortical galleries were investigated. Several bacterial genera were identified, among which Pseudomonas, Serratia and Yersinia are associated with the surface of the beetle cuticle, and genera belonging to Enterobacteriaceae and Gammaproteobacteria with the interior of the insect body. The index of dissimilarity indicates that the bacterial microbiome associated with each environment constitutes exclusive groups. These results suggest the presence of distinct bacterial microbiota on the surface of the cuticle and the interior of D. simplex body. Additionally, the bacterial diversity identified in the galleries is substantially different from the ectomicrobiome, which could indicate a selection by the insect. This study reports for the first time the identification of the eastern larch beetle microbiome.

No MeSH data available.


Related in: MedlinePlus