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Microbial interactions between humans and the built environment (Lake Arrowhead Microbial Genomics 2016)

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Presented by Roxana Hickey (Postdoctoral Scholar, Biology and the Built Environment Center, University of Oregon) at 21st Lake Arrowhead Microbial Genomics meeting (#LAMG16) in Lake Arrowhead, CA, on September 21, 2016

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Microbial interactions between humans and the built environment (Lake Arrowhead Microbial Genomics 2016)

  1. 1. MICROBIAL INTERACTIONS BETWEEN HUMANS & THE BUILT ENVIRONMENT ROXANA HICKEY GREEN LAB & BioBE CENTER // UNIVERSITY OF OREGON LAKE ARROWHEAD MICROBIAL GENOMICS // 09.21.16 @roxana_hickey Credit: Gwenda Kacsor of Oregon Quarterly
  2. 2. © University of Oregon BioBE Center (2016) Credit: Tomasz Sienicki via Wikimedia Commons Credit: Aptem via Wikimedia CommonsCredit: BrendelSignature via Wikimedia Commons Credit: Malate269 via Wikimedia Commons
  3. 3. © University of Oregon BioBE Center (2016) BIOLOGY & THE BUILT ENVIRONMENT CENTER
  4. 4. © University of Oregon BioBE Center (2016) BIOLOGY & THE BUILT ENVIRONMENT CENTER @ UNIVERSITY OF OREGON http://biobe.uoregon.edu/
  5. 5. © University of Oregon BioBE Center (2016) BIOLOGY & THE BUILT ENVIRONMENT CENTER @ UNIVERSITY OF OREGON http://biobe.uoregon.edu/ ASHLEY BATEMAN PHD CANDIDATE CLARISSE BETANCOURT ROMÁN RESEARCH ASSISTANT GZ CHARLIE BROWN BIOBE CO-FOUNDER & ESBL DIRECTOR ASHKAAN FAHIMIPOUR POSTDOC JESSICA GREEN BIOBE CO-FOUNDER & CO-DIRECTOR ROXANA HICKEY POSTDOC JEFF KLINE RESEARCH ASSOCIATE GWYNNE MHUIREACH PHD CANDIDATE DALE NORTHCUTT SR RESEARCH ASSISTANT JASON STENSON RESEARCH ASSISTANT KEVIN VAN DEN WYMELENBERG ESBL DIRECTOR & BIOBE CO-DIRECTOR KYLA SIEMENS RESEARCH ASSISTANT HANNAH WILSON RESEARCH ASSISTANT
  6. 6. © University of Oregon BioBE Center (2016) BIOLOGY & THE BUILT ENVIRONMENT CENTER @ UNIVERSITY OF OREGON http://biobe.uoregon.edu/
  7. 7. © University of Oregon BioBE Center (2016) BIOLOGY & THE BUILT ENVIRONMENT CENTER @ UNIVERSITY OF OREGON http://biobe.uoregon.edu/
  8. 8. © University of Oregon BioBE Center (2016) HOW DOES THE DESIGN, OPERATION & OCCUPANCY OF BUILDINGS INFLUENCE THE INDOOR MICROBIOME?
  9. 9. © University of Oregon BioBE Center (2016) A BRIEF HISTORY OF BioBE RESEARCH Founded c/o Alfred P. Sloan Foundation grant 2010 Ventilation source & hospital room air Kembel et al. ISME 2012 Architecture, ventilation strategy, occupancy influence university building air & dust Meadow et al. Indoor Air 2013 Kembel et al. PLOS One 2014 Microbiome of classroom surfaces related to human contact Meadow et al. Microbiome 2014 Human bioaerosols: the microbial cloud Meadow et al. PeerJ 2015 Urban green space & outdoor air microbiome Mhuireach et al. Env Sci & Tech 2016 Antimicrobials & antibiotic resistance genes in dust Hartmann et al. ES&T 2016
  10. 10. © University of Oregon BioBE Center (2016)
  11. 11. © University of Oregon BioBE Center (2016) Kembel et al. ISME 2012 CAP 1 NMDS1 Deinococcus Achromonobacter Spiroplasma Roseomonas Rhabdochlamydia Lysobacter Lysinibaccillus Pigmentiphaga Acidisphaera Brenneria Methylobacterium Sphingomonas Streptococcus Rhizobium Mycoplana Agrobacterium Brevundimonas mechanical window p=0.005 constrained inertia=2.5% a 0.05 0.10 0.15 0.20 0.25 0.30 Deinococcusrelativeabundance air supply mechanical window p<0.001 b 0.02 0.04 0.06 0.08 0.10 0.12 0.14 Methylobacteriumrelativeabundance air supply mechanical window p<0.001 c North side: Window supply South side: Mechanical supply Kembel et al. PLOS One 2014; Meadow et al. Indoor Air 2013 Meadow et al. PeerJ 2015
  12. 12. © University of Oregon BioBE Center (2016) Kembel et al. ISME 2012 CAP 1 NMDS1 Deinococcus Achromonobacter Spiroplasma Roseomonas Rhabdochlamydia Lysobacter Lysinibaccillus Pigmentiphaga Acidisphaera Brenneria Methylobacterium Sphingomonas Streptococcus Rhizobium Mycoplana Agrobacterium Brevundimonas mechanical window p=0.005 constrained inertia=2.5% a 0.05 0.10 0.15 0.20 0.25 0.30 Deinococcusrelativeabundance air supply mechanical window p<0.001 b 0.02 0.04 0.06 0.08 0.10 0.12 0.14 Methylobacteriumrelativeabundance air supply mechanical window p<0.001 c North side: Window supply South side: Mechanical supply Kembel et al. PLOS One 2014; Meadow et al. Indoor Air 2013 Meadow et al. PeerJ 2015 ARCHITECTURAL DESIGN, VENTILATION & OCCUPANCY INFLUENCE THE MICROBIOME OF THE BUILT ENVIRONMENT
  13. 13. © University of Oregon BioBE Center (2016) CURRENT RESEARCH @ BioBE Effects of light source (UV, visible) on dust microbiome viability Home weatherization & microbiome diversity + homeowner health, behavior Multiple-occupancy & ventilation effects on microbial cloud Microbial transmission from plants & dogs to human skin via the built environment Child gut microbiome, home dust & psychological stress Antimicrobials & antibiotic resistance in athletic facilities Theoretical models of building occupancy & microbiome diversity
  14. 14. © University of Oregon BioBE Center (2016) HUMAN INTERACTIONS WITH THE BUILT ENVIRONMENT ANTIMICROBIAL CHEMICALS & THE BUILT ENVIRONMENT MICROBIOME COLONIZATION OF THE HUMAN SKIN MICROBIOME VIA THE BUILT ENVIRONMENT CLOUDS IN A CROWD: DISPERSAL OF HUMAN BIOAEROSOLS
  15. 15. © University of Oregon BioBE Center (2016) HUMAN INTERACTIONS WITH THE BUILT ENVIRONMENT ANTIMICROBIAL CHEMICALS & THE BUILT ENVIRONMENT MICROBIOME COLONIZATION OF THE HUMAN SKIN MICROBIOME VIA THE BUILT ENVIRONMENT CLOUDS IN A CROWD: DISPERSAL OF HUMAN BIOAEROSOLS
  16. 16. © University of Oregon BioBE Center (2016) ANTIMICROBIAL CHEMICALS & RESISTANCE IN THE BUILT ENVIRONMENT ERICA HARTMANN @ericamhartmann
  17. 17. © University of Oregon BioBE Center (2016) ANTIMICROBIAL CHEMICALS IN THE BUILT ENVIRONMENT STERILIZING THE BUILT ENVIRONMENT
  18. 18. © University of Oregon BioBE Center (2016) Source: Collegiate Images via Getty Images GERLINGER HALL, UNIVERSITY OF OREGON Est. 1921 HOW DOES THE CONCENTRATION OF ANTIMICROBIAL CHEMICALS CORRELATE WITH THE MICROBIOME & ANTIBIOTIC RESISTANCE GENES IN INDOOR DUST?
  19. 19. © University of Oregon BioBE Center (2016)
  20. 20. © University of Oregon BioBE Center (2016) EXPERIMENTAL DESIGN classrooms gyms offices circulation laundry lockers building support pool ANTIMICROBIALS (LC-MS/MS) triclosan triclocarban methylparaben ethylparaben propylparaben butylparaben ROLF HALDEN ARIZONA STATE CURTIS HUTTENHOWER HARVARD SPH MICROBIOME & RESISTOME SHOTGUN METAGENOMICS ShortBRED & HAllA w/ CARD database 16S rRNA UPARSE & QIIME 44 VACUUM DUST SAMPLES
  21. 21. © University of Oregon BioBE Center (2016) LOWER OVERALL LEVELS OF ANTIBIOTIC RESISTANCE GENE ABUNDANCE Hartmann, Hickey, Hsu et al. Env Sci Tech 2016
  22. 22. © University of Oregon BioBE Center (2016) SIX RESISTANCE GENES SIGNIFICANTLY ASSOCIATED WITH [CHEMICALS] Gene Description Similarity Score q erm(X) 23S rRNA transferase 0.86 0.036 tet(K) tetracycline resistance efflux pump 0.83 0.036 vga(A) streptogramin res. efflux pump 0.65 0.036 erm(33) 23S rRNA transferase 0.73 0.036 erm(C) 23S rRNA transferase 0.68 0.036 cmr chloramphenicol res. efflux pump 0.58 0.048 Hartmann, Hickey, Hsu et al. Env Sci Tech 2016 TRICLOSANMETHYLPARABEN
  23. 23. © University of Oregon BioBE Center (2016) NO MORE TRICLOSAN FOR YOU(R PERSONAL CARE PRODUCTS) http://www.fda.gov/ForConsumers/ConsumerUpdates/ucm378393.htm
  24. 24. © University of Oregon BioBE Center (2016) HUMAN INTERACTIONS WITH THE BUILT ENVIRONMENT ANTIMICROBIAL CHEMICALS & THE BUILT ENVIRONMENT MICROBIOME COLONIZATION OF THE HUMAN SKIN MICROBIOME VIA THE BUILT ENVIRONMENT CLOUDS IN A CROWD: DISPERSAL OF HUMAN BIOAEROSOLS
  25. 25. © University of Oregon BioBE Center (2016) CLOUDS IN A CROWD: DISPERSAL OF HUMAN BIOAEROSOLS JAMES MEADOW @JamesMeadow ASHKAAN FAHIMIPOUR @AshkaanF
  26. 26. © University of Oregon BioBE Center (2016) CLIMATE CHAMBER UO Energy Studies in Buildings Laboratory, Portland, OR Control surface & air temperature, humidity, air velocity
  27. 27. © University of Oregon BioBE Center (2016) SAMPLING THE HUMAN MICROBIAL CLOUD Occupied Unoccupied Air Filter (12 per treatment) 1 m 0.15 m Settling Dish (6 per treatment) Particle Counter (1 per treatment) 2.4 m 3.7m 2.4 m 2.9m Meadow et al. PeerJ 2015
  28. 28. © University of Oregon BioBE Center (2016) AN OCCUPIED ROOM IS DISTINCT FROM AN UNOCCUPIED ROOM Meadow et al. PeerJ 2015
  29. 29. © University of Oregon BioBE Center (2016) SPACES OCCUPIED BY DIFFERENT PEOPLE HAVE UNIQUE MICROBIAL PATTERNS Meadow et al. PeerJ 2015
  30. 30. © University of Oregon BioBE Center (2016) http://www.sciencefriday.com/videos/ your-very-special-microbial-cloud/
  31. 31. © University of Oregon BioBE Center (2016) CAN INDIVIDUALS BE DISTINGUISHED BY THEIR MICROBIAL CLOUD IN A ROOM OF PEOPLE?
  32. 32. © University of Oregon BioBE Center (2016) EXPERIMENTAL DESIGN: SOLO RUN 4’ 2’2’ 4’2’4’2’ 10’1’ 20” 1’ 10” Filter Cup T, RH Sensor MRT Sensor 4’ 2’2’ 9’-6”1’ 30” 1’ 40” Diagram by Jason Stenson, Energy Studies in Buildings Laboratory
  33. 33. © University of Oregon BioBE Center (2016) EXPERIMENTAL DESIGN: SOLO RUN 4’ 2’2’ 4’2’4’2’ 10’1’ 20” 1’ 10” Filter Cup T, RH Sensor MRT Sensor 4’ 2’2’ 9’-6”1’ 30” 1’ 40” Diagram by Jason Stenson, Energy Studies in Buildings Laboratory CAN WE DETECT SPECIFIC MEMBERS OF THE SKIN MICROBIOME IN BIOAEROSOLS & MEASURE THEIR DISPERSAL ACROSS THE ROOM?
  34. 34. © University of Oregon BioBE Center (2016) EXPERIMENTAL DESIGN: GROUP RUN 4’ 2’2’ 4’2’4’2’ 10’1’ 20” 1’ 10” Filter Cup T, RH Sensor MRT Sensor 4’ 2’2’ 9’-6”1’ 30” 1’ 40” Diagram by Jason Stenson, Energy Studies in Buildings Laboratory
  35. 35. © University of Oregon BioBE Center (2016) EXPERIMENTAL DESIGN: GROUP RUN 4’ 2’2’ 4’2’4’2’ 10’1’ 20” 1’ 10” Filter Cup T, RH Sensor MRT Sensor 4’ 2’2’ 9’-6”1’ 30” 1’ 40” Diagram by Jason Stenson, Energy Studies in Buildings Laboratory CAN WE PREDICT WHO WAS PRESENT IN THE ROOM BASED ON THEIR SKIN MICROBIOME & THE COMPOSITION OF BIOAEROSOLS?
  36. 36. © University of Oregon BioBE Center (2016) HUMAN INTERACTIONS WITH THE BUILT ENVIRONMENT ANTIMICROBIAL CHEMICALS & THE BUILT ENVIRONMENT MICROBIOME COLONIZATION OF THE HUMAN SKIN MICROBIOME VIA THE BUILT ENVIRONMENT CLOUDS IN A CROWD: DISPERSAL OF HUMAN BIOAEROSOLS
  37. 37. © University of Oregon BioBE Center (2016) MICROBIAL COLONIZATION OF SKIN VIA THE BUILT ENVIRONMENT ASHLEY BATEMAN @MicrobesRock
  38. 38. © University of Oregon BioBE Center (2016) SOURCES OF MICROBES IN THE BUILT ENVIRONMENT Prussin & Marr Microbiome 2015 HUMANS PETS PLUMBING SYSTEMS PLANTS VENTILATION SYSTEMS MOLD RESUSPENSION OF SETTLED DUST OUTDOOR AIR
  39. 39. © University of Oregon BioBE Center (2016) DOES MICROBIAL EXCHANGE OCCUR TO AND FROM THE BUILT ENVIRONMENT?
  40. 40. © University of Oregon BioBE Center (2016) ROUTES OF MICROBIAL TRANSMISSION TO THE HUMAN SKIN MICROBIOME SURFACE DIRECT CONTACT BE SURFACE INTERMEDIATE BIOAEROSOL INTERMEDIATE
  41. 41. © University of Oregon BioBE Center (2016) HOW ARE MICROBES EXCHANGED AMONG BUILDINGS, AIR & PEOPLE? ARE THERE ‘GENERAL LAWS’ IN BUILDING ECOLOGY? WHAT IS THE RELATIONSHIP BETWEEN THE BUILT ENVIRONMENT, HUMAN MICROBIOME & HEALTH? Source: BioBE Center with Cameron Slayden of Cosmocyte
  42. 42. © University of Oregon BioBE Center (2016) OUR TEAM Jessica Green Kevin Van Den Wymelenberg G.Z. Charlie Brown Curtis Huttenhower (Harvard) Rolf Halden (Arizona State) Alejandro Manzo Gwynne Mhuireach Max Moriyama Dale Northcutt Tim O’Connor Iman Rejaie Maria Sarao Andy Siemens Kyla Siemens Jason Stenson Paul Ward Hannah Wilson Adam Altrichter Dan Aughenbaugh Ashley Bateman Clarisse Betancourt Brendan Bohannan Ashkaan Fahimipour Mark Fretz Erica Hartmann Roxana Hickey Keith Herkert Evan Jones Ann Klein Jeff Kline @roxana_hickey @JessicaLeeGreen @Wymelenberg @ericamhartmann @AshkaanF @MicrobesRock @betancourt_cm

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