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IB Seminar - Dr. Christopher Schadt; Oak Ridge National Laboratory
Thursday, April 28, 2016, 02:00pm - 03:00pm
This repeat is an exception to the normal repeat pattern
Contact ibfrontdesk@austin.utexas.edu
Dissecting the microbiome landscape of Populus tree species from the soil to the canopy
Christopher W. Schadt
Biosciences Division, Oak Ridge National Laboratory, Oak Ridge, TN
Dept. of Microbiology, University of Tennessee, Knoxville, TN
Populus trees are broadly distributed in nature, widely used in pulp and paper production, and a potentially important bioenergy feedstock. Over the last six years we have examined the bacterial and fungal community associations of Populus species in experiments conducted under greenhouse, plantation and natural settings.  In our most recent efforts we examined 30 different plant tissue/habitat types across contrasting plantation grown Populus deltoides and P. trichocarpa x deltoides (TxD) for microbiome composition by 16S rRNA gene (bacteria) and ITS2-rRNA (fungal) regions for community comparisons across 300 samples encompasing multiple tissue types and ages. For select habitats we also applied a differential centrifugation method to enrich the microbial cells from plant tissues prior to DNA extraction and metagenomic sequencing to avoid host DNA contamination. For each tree type, bacterial community structure from rRNA gene amplicons varied significantly across leaf, stem, roots and soil/rhizosphere tissue/habitat types. Leaf and stem habitat types had significantly lower OTU richness compared to root and stem habitats and featured decreasing abundance of Proteobacteria from leaf, to stem, to root, to soil.  The oldest woody stem tissues were also distinguishable from the younger 1st and 2nd year tissues, and featured enrichment of Firmicutes, consistent with potentially anaerobic environments. Within the leaf, stem, root, and soil habitats, bacterial community structure in P. deltoides samples could  be differentiated from TxD hybrid samples. Comparative metagenomics-based analyses and amplicon-based datasets in general show a high degree of congruence with PCR amplicon based analyses and confirm our methods reduced host DNA contamination to < 2%. The results from this and future work should greatly enhance our understanding of plant microbiomes in this important model species.
Location: NHB 1.720
SEMINAR TITLE: "Dissecting the microbiome landscape of Populus tree species from the soil to the canopy" HOST: Dr. Christine Hawkes

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