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Soil Microbiology Group

Soil Microbiology Group. Soil Microbial communities from Puerto Rico rain forest (that decompose switchgrass , sample from Feedstock-adapted consortia SG and SG+Fe ). Alinne Castro – University of Brasilia Jessica C. Bergmann – JBEI

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Soil Microbiology Group

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  1. Soil Microbiology Group Soil Microbial communities from Puerto Rico rain forest (that decompose switchgrass, sample from Feedstock-adapted consortia SG and SG+Fe) Alinne Castro – University of Brasilia Jessica C. Bergmann – JBEI VaraKensakurti Samba Si – Agriculture & Agri-Food Canada

  2. Overview • Introduction • Where this soil came from? • What is the difference between them? • Comparison of the two samples • What are the populations in the two metagenomes? • Are the two populations functionally different from each other? • Is there any Glycosyl Hydrolases (GHs) in these samples?

  3. Where this soils came from? • Environment: Soil from Puerto Rico Rain Forest (Luquillo) • Soil collected April 2010 • Sequenced in 454 GS-FLX-Titanium

  4. Samples – Gene Count

  5. What is the difference between the two soils? • SG – Switchgrass (carbon source) • SG + Fe – Switchgrass enriched with iron • Iron addition – increase diversity of feedstock – cultures limited for electron donor

  6. Overview • Introduction • Where this soil came from? • What is the difference between them? • Comparison of the two samples • What are the populations in the two metagenomes? • Are the two populations functionally different from each other? • Is there any Glycosyl Hydrolases (GHs) in these samples?

  7. What are the populations in the two metagenomes? • Compare Genomes (Metagenome X Genome) • Percent Identity – 90% - Phylum SG SG + Fe

  8. Order SG SG + Fe • Compare Genomes – Phylogenic Distribution - Radial Tree

  9. Functional Difference 54 significantPfamfunction • Analysis Cart – Profile and Alignment – View Function vs. Genome

  10. Is there any Glycosyl Hydrolases (GHs) in these samples?

  11. Is there any Glycosyl Hydrolases (GHs) in these samples? • IMG – Find Function – Save to Function Cart – Profile and Alignment Tool

  12. Thank you !

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