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2012 03-07 home microbiome - gsc13 china
 

2012 03-07 home microbiome - gsc13 china

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initial findings of the Home Microbiome Study.

initial findings of the Home Microbiome Study.

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    2012 03-07 home microbiome - gsc13 china 2012 03-07 home microbiome - gsc13 china Presentation Transcript

    • DANIEL SMITHARGONNE NATIONAL LABORATORY
    • YOUR MICROBIOTA 10bacterial cells for every human cell. Human health is dependent on microbiota
    • YOUR MICROBIOTA Science, 2009
    • YOUR MICROBIOTA Nature Reviews Microbiology, 2011
    • YOUR HOME’S MICROBIOME
    • YOUR HOME’S MICROBIOME Building-specific seasonal patterns in bacteria found on dust. In-progress research is exploring the microbial communities of several locations in houses: kitchen surfaces (including inside the refrigerator), tv screens, pillows, the water inside of water heaters, etc, etc.
    • INTERACTION OF MICROBIOMES Human shed about 1.5 millions cells per hour, along with their associated 15 million bacteria cells. Direct contact can transfer millions of cells in each event.
    • INTERACTION OF MICROBIOMES There is a lack of evidence regarding how rapidly the human skin microbiota is transferred to the surfaces of the homes in which we live. Hypotheses:  Microbes from the occupant are transferred rapidly to the home and replace existing communities.  The occupant’s microbiome is reflected by the home’s microbiome.  Bacteria on surfaces will be most similar to the bacteria on the body parts that come into contact with it.
    • WHEN BIOMES COLLIDE ? + =
    • FIELD STUDY Monitoring the home and human microbiota of relocating “citizen scientists”.
    • SAMPLING  Human:  House:  Palm of hand  Kitchen countertop  Heel of foot  Kitchen floor  Inside of nose  Kitchen light switch  Bedroom floor  Front door knob  Bathroom door knob
    • HOME METADATA Type of paint on walls Countertop material Type of flooring Light intensity HVAC system Pets in household Square footage
    • DAILY METADATA Placedfive-minute interval data loggers in the bathroom, kitchen, and bedroom to track:  Relative Humidity  Temperature  Dew Point Participants also fill out the form at right each time they collect samples.
    • DATA LOGGER DATA Temperature Rel. Humidity Dew Point 36 °C 76 RH Bathroom 28 °C 65 RH 20 °C 54 RH 12 °C 43 RH 4 °C 32 RH Bedroom20 °C 47 RH12 °C 38 RH 4 °C 28 RH Kitchen 20 °C 40 RH 12 °C 32 RH 4 °C 24 RH
    • ANALYSIS PCR-Amplify 16S rDNA V4-V5 Region ↓ Sequence 150bp x2 (paired end) ↓ QIIME Phylogenetic Assignment ↓ Principle Coordinate Analysis
    • ALPHA DIVERSITY
    • ALPHA DIVERSITY Most Diverse: Nose, hand, and hand- contact surfaces in house #1. Most Diverse House: House 1, followed by 2, then 3. Front_Door_Knob Bathroom_Floor Kitchen_Floor Kitchen_Light_Switch Bathroom_Door_Knob Hand Bedroom_Floor Nose Kitchen_Counter Foot 0 20 40 60 80 100 120 140 160 Observed Species (average)
    • HOUSE 1 RESULTS Staphylococcaceae Hand Nose Foot 50% Mycoplasmataceae 50%% Total Population Moraxellaceae (A) 40% 40% 30% Corynebacteriaceae 30% Streptophyta 20% 20% 10% Moraxellaceae (B) 10% 0% Streptococcaceae Actinomycetales 1 5 9 13 0% Pseudomonadaceae Bedroom Kitchen Kitchen Kitchen Bathroom Front Door Floor Floor Counter Light Door Knob Knob % Total Population 80% Switch 60% 40% 20% 0% Tim e
    • HOUSE 2 RESULTS Person 1 Person 2 Hand Nose Foot Hand Nose Foot100%80%60%40%20% 0% Bedroom Kitchen Kitchen Kitchen Bathroom Front Door Floor Floor Counter Light Door Knob Knob60% Switch50%40%30%20%10% 0% Staphylococcaceae 50% Mycoplasmataceae Moraxellaceae (A) Corynebacteriaceae Streptophyta Moraxellaceae (B) Streptococcaceae 0% Actinomycetales Pseudomonadaceae
    • HOUSE 3 RESULTS Person 1 Person 2 Person 3 Hand Nose Foot Hand Nose Foot Hand Nose Foot100%80%60%40%20% 0% Bedroom Kitchen Kitchen Kitchen Bathroom Front Door Floor Floor Counter Light Door Knob Knob 80% Switch 60% 40% 20% 0% Staphylococcaceae 50% Mycoplasmataceae Moraxellaceae (A) Corynebacteriaceae Streptophyta Moraxellaceae (B) Streptococcaceae 0% Actinomycetales Pseudomonadaceae
    • 3D PRINCIPLE COORDINATEPLOTS
    • HAND MICROBIAL COMMUNITIESIndividuals fromdifferent houses Individuals from the same house
    • BEDROOM FLOORS
    • KITCHEN COUNTERS
    • KITCHEN FLOORS
    • LIVE UPDATES HomeMicrobiome.com Facebook.com/HomeMicrobiome Twitter.com/HomeMicrobiome Alldata publicly available
    • ACKNOWLEDGEMENTS Jack Gilbert – P.I. Jarrad Hampton-Marcell – Sample Preps Sarah Owens – Sequencing Manager Alfred P. Sloan Foundation - Funding