microbial interactions between humans and the built environment (lake arrowhead microbial genomics...

MICROBIAL INTERACTIONS BETWEEN HUMANS & THE BUILT ENVIRONMENTROXANA HICKEY GREEN LAB & BioBE CENTER // UNIVERSITY OF OREGON LAKE ARROWHEAD MICROBIAL GENOMICS // 09.21.16

@roxana_hickey

Credit: Gwenda Kacsor of Oregon Quarterly

© 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

© University of Oregon BioBE Center (2016)

BIOLOGY & THE BUILT ENVIRONMENT CENTER


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


HOW DOES THE DESIGN, OPERATION & OCCUPANCY OF BUILDINGS INFLUENCE

THE INDOOR MICROBIOME?


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


Kembel et al. ISME 2012

CAP 1

NM

DS

1

DeinococcusAchromonobacterSpiroplasmaRoseomonasRhabdochlamydiaLysobacterLysinibaccillusPigmentiphagaAcidisphaeraBrenneria

MethylobacteriumSphingomonasStreptococcus

RhizobiumMycoplana

AgrobacteriumBrevundimonas

mechanical window

p=0.005 constrained inertia=2.5%

a

0.05

0.10

0.15

0.20

0.25

0.30

Dei

noco

ccus

rela

tive

abun

danc

e

air supplymechanical window

p<0.001b

0.02

0.04

0.06

0.08

0.10

0.12

0.14

Met

hylo

bact

eriu

m re

lativ

e ab

unda

nce


p<0.001c

North side:Window supply

South side:Mechanical supply

Kembel et al. PLOS One 2014; Meadow et al. Indoor Air 2013



Kembel et al. ISME 2012

CAP 1

NM

DS

1

DeinococcusAchromonobacterSpiroplasmaRoseomonasRhabdochlamydiaLysobacterLysinibaccillusPigmentiphagaAcidisphaeraBrenneria

MethylobacteriumSphingomonasStreptococcus

RhizobiumMycoplana

AgrobacteriumBrevundimonas

mechanical window

p=0.005 constrained inertia=2.5%

a

0.05

0.10

0.15

0.20

0.25

0.30

Dei

noco

ccus

rela

tive

abun

danc

e


p<0.001b

0.02

0.04

0.06

0.08

0.10

0.12

0.14

Met

hylo

bact

eriu

m re

lativ

e ab

unda

nce


p<0.001c

North side:Window supply

South side:Mechanical supply

Kembel et al. PLOS One 2014; Meadow et al. Indoor Air 2013


ARCHITECTURAL DESIGN, VENTILATION & OCCUPANCY INFLUENCE THE MICROBIOME OF THE BUILT ENVIRONMENT


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


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


ANTIMICROBIAL CHEMICALS & RESISTANCE IN THE BUILT

ENVIRONMENT

ERICA HARTMANN @ericamhartmann


ANTIMICROBIAL CHEMICALS IN THE BUILT ENVIRONMENT

STERILIZING THE BUILT ENVIRONMENT

© 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?


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


LOWER OVERALL LEVELS OF ANTIBIOTIC RESISTANCE GENE ABUNDANCE

Hartmann, Hickey, Hsu et al. Env Sci Tech 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

TRIC

LOSA

NME

THYL

PARA

BEN


NO MORE TRICLOSAN FOR YOU(R PERSONAL CARE PRODUCTS)

http://www.fda.gov/ForConsumers/ConsumerUpdates/ucm378393.htm

http://www.fda.gov/ForConsumers/ConsumerUpdates/ucm378393.htm








BIOAEROSOLS



BIOAEROSOLSJAMES MEADOW

@JamesMeadowASHKAAN

FAHIMIPOUR @AshkaanF


CLIMATE CHAMBER UO Energy Studies in Buildings

Laboratory, Portland, OR

Control surface & air temperature, humidity, air velocity


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

3.7

m

2.4 m

2.9

m



AN OCCUPIED ROOM IS DISTINCT FROM AN UNOCCUPIED ROOM



SPACES OCCUPIED BY DIFFERENT PEOPLE HAVE UNIQUE MICROBIAL PATTERNS



http://www.sciencefriday.com/videos/your-very-special-microbial-cloud/

http://www.sciencefriday.com/videos/your-very-special-microbial-cloud/


CAN INDIVIDUALS BE DISTINGUISHED BY THEIR MICROBIAL CLOUD IN A ROOM OF PEOPLE?


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”

Filter Cup

T, RH Sensor

MRT Sensor

Diagram by Jason Stenson, Energy Studies in Buildings Laboratory


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”

Filter Cup

T, RH Sensor

MRT Sensor


CAN WE DETECT SPECIFIC MEMBERS OF THE SKIN MICROBIOME IN BIOAEROSOLS & MEASURE THEIR

DISPERSAL ACROSS THE ROOM?


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”

Filter Cup

T, RH Sensor

MRT Sensor



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”

Filter Cup

T, RH Sensor

MRT Sensor


CAN WE PREDICT WHO WAS PRESENT IN THE ROOM BASED ON THEIR SKIN MICROBIOME & THE

COMPOSITION OF BIOAEROSOLS?








BIOAEROSOLS


MICROBIAL COLONIZATION OF SKIN VIA THE BUILT

ENVIRONMENTASHLEY BATEMAN

@MicrobesRock


SOURCES OF MICROBES IN THE BUILT ENVIRONMENT

Prussin & Marr Microbiome 2015

HUMANS PETS

PLUMBING SYSTEMS

PLANTSVENTILATION

SYSTEMS MOLD

RESUSPENSION OF SETTLED DUST

OUTDOOR AIR


DOES MICROBIAL EXCHANGE OCCUR TO AND FROM THE BUILT ENVIRONMENT?


ROUTES OF MICROBIAL TRANSMISSION TO THE HUMAN SKIN MICROBIOME

SURFACE

DIRECT CONTACT BE SURFACE INTERMEDIATE BIOAEROSOL INTERMEDIATE


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


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

microbial interactions between humans and the built environment (lake arrowhead microbial genomics...

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