Key determinants of the fungal and bacterial microbiomes in homes

Environmental Research

Volumn 138, Issue , 2015, Pages 130-135

  Kettleson, Eric M ^a,b   Adhikari, Atin ^a,c   Vesper, Stephen ^d   Coombs, Kanistha ^a   Indugula, Reshmi ^a   Reponen, Tiina ^a  

^a UNIVERSITY OF CINCINNATI COLLEGE OF MEDICINE   (United States)

^b ZF Steering Systems NACAM Corp   (United States)

^c GEORGIA SOUTHERN UNIVERSITY   (United States)

^d U S ENVIRONMENTAL PROTECTION AGENCY   (United States)

Author keywords

Bacteria; Fungi; Indoor environment; Microbial diversity; Microbiome

Indexed keywords

BIOME; CORRELATION; FUNGUS; MICROBIAL COMMUNITY; RELATIVE HUMIDITY; SPECIES EVENNESS; SPECIES RICHNESS;

ARTICLE; BACTERIAL GENOME; CAT; DOG; ENVIRONMENTAL TEMPERATURE; FUNGAL COMMUNITY; FUNGAL GENOME; HOME; HOUSE DUST; HUMIDITY; MICROBIAL COMMUNITY; MICROBIAL DIVERSITY; MICROBIOME; MOISTURE; NONHUMAN; PET ANIMAL; PRIORITY JOURNAL; PYROSEQUENCING; ANIMAL; ASTHMA; BACTERIUM; CLASSIFICATION; COHORT ANALYSIS; ENVIRONMENTAL MONITORING; FUNGUS; GENETICS; HOUSING; ISOLATION AND PURIFICATION; MICROBIOLOGY; MICROFLORA; MOLECULAR GENETICS; RISK FACTOR; SOCIOECONOMICS; UNITED STATES;

CINCINNATI; OHIO; UNITED STATES;

BACTERIA (MICROORGANISMS); CANIS FAMILIARIS; FUNGI;

BACTERIAL DNA; FUNGAL DNA; RIBOSOMAL SPACER DNA; RNA 16S;

AIR MICROBIOLOGY; ANIMALS; ASTHMA; BACTERIA; CATS; COHORT STUDIES; DNA, BACTERIAL; DNA, FUNGAL; DNA, RIBOSOMAL SPACER; DOGS; ENVIRONMENTAL MICROBIOLOGY; ENVIRONMENTAL MONITORING; FUNGI; HOUSING; KENTUCKY; MICROBIOTA; MOLECULAR SEQUENCE DATA; OHIO; RISK FACTORS; RNA, RIBOSOMAL, 16S; SOCIOECONOMIC FACTORS;

EID: 84923009438     PISSN: 00139351     EISSN: 10960953     Source Type: Journal    
DOI: 10.1016/j.envres.2015.02.003     Document Type: Article

References (32)

1. Adams R.I., et al. The diversity and distribution of fungi on residential surfaces. PLoS One. 2013, 8:e78866. 10.1371/journal.pone.0078866.
2. Adams R.I., et al. Dispersal in microbes: fungi in indoor air are dominated by outdoor air and show dispersal limitation at short distances. ISME J. 2013, 7:1262-1273.
3. Adams R.I., et al. Airborne bacterial communities in residences: similarities and differences with fungi. PLoS One. 2014, 9:e91283. 10.1371/journal.pone.0091283.
4. Adhikari A., et al. Dustborne and airborne Gram-positive and Gram-negative bacteria in high versus low ERMI homes. Sci. Total Environ. 2014, 482-483:92-99.
5. Browning B.L., Browning S.R. Detecting identity by descent and estimating genotype error rates in sequence data. Am. J. Hum. Genet 2013, 93:840-851.
6. Callaway T.R., et al. Evaluation of the bacterial diversity in cecal contents of laying hens fed various molting diets by using bacterial tag-encoded FLX amplicon pyrosequencing. Poult. Sci. 2009, 88:298-302.
7. Callaway T.R., et al. Evaluation of bacterial diversity in the rumen and feces of cattle fed different levels of dried distillers grains plus solubles using bacterial tag-encoded FLX amplicon pyrosequencing. J. Anim. Sci. 2010, 88:3977-3983.
8. Cho S.H., et al. The effect of home characteristics on dust antigen concentrations and loads in homes. Sci. Total Environ. 2006, 371:31-43.
9. Dowd S.E., et al. Evaluation of the bacterial diversity in the feces of cattle using 16S rDNA bacterial tag-encoded FLX amplicon pyrosequencing (bTEFAP). BMC Microbiol. 2008, 8:125.
10. Fujimura K.E., et al. Man's best friend? The effect of pet ownership on house dust microbial communities. J. Allergy Clin. Immunol. 2010, 126:410-412.
11. Haugland R.A., et al. Evaluation of rapid DNA extraction methods for the quantitative detection of fungal cells using real time PCR analysis. J. Microbiol. Methods 2002, 50:319-323.
12. IOM (Institute of Medicine) Damp Indoor Spaces and Health 2004, National Academic Press: Washington, D.C.
13. Kembel S.W., et al. Architectural design influences the diversity and structure of the built environment microbiome. ISME J. 2012, 8:1469-1479.
14. Kembel.S.W., et al. Architectural design drives the biogeography of indoor bacterial communities. PLoS One. 2014, 9:e87093. 10.1371/journal.pone.0087093.
15. Kettleson E., et al. Stenotrophomonas, Mycobacterium, and Streptomyces in home dust and air: associations with moldiness and other home/family characteristics. Indoor Air 2013, 23:387-396.
16. Lax S., et al. Longitudinal analysis of microbial interaction between humans and the indoor environment. Science 2014, 345(6200):1048-1052.
17. LeMasters G.K., et al. High prevalence of aeroallergen sensitization among infants of atopic parents. J. Pediatr. 2006, 149:505-511.
18. Mendell M.J., et al. Respiratory and allergic health effects of dampness, mold, and dampness-related agents: a review of the epidemiologic evidence. Environ. Health Perspect. 2011, 19(6):748-756.
19. Nonnenmann M., et al. Utilizing pyrosequencing and quantitative PCR to characterize fungal populations in house dust samples. J. Environ. Monit. 2012, 14:2038-2043.
20. Nucleotide,2011. The National Institutes of Health. (Accessed 12.10. 2013).
21. Parker W., et al. Evolutionary biology and anthropology suggest biome reconstitution as a necessary approach toward dealing with immune disorders. Evol. Med. Public Health 2013, 13:89-103.
22. Pitkäranta M., et al. Molecular profiling of fungal communities in moisture damaged buildings before and after remediation-a comparison of culture-dependent and culture-independent methods.B.M.C. Microbiology 2011, 11:235. 10.1186/1471-2180-11-235.
23. Qian J., et al. Size-resolved emission rates of airborne bacteria and fungi in an occupied classroom. Indoor Air 2012, 22:339-351.
24. Reponen T., et al. High Environmental Relative Moldiness Index during infancy as predictor of age seven asthma. Ann. Allergy Asthma Immunol. 2011, 107:120-126.
25. Reponen T., et al. Infant origins of childhood asthma associated with specific molds. J. Allergy Clin. Immunol. 2012, 130:639-644.
26. Reponen T., et al. Family and home characteristics correlate with mold in homes. Environ. Res. 2013, 124:67-70.
27. Rintala H., et al. Detection of streptomycetes in house dust-comparison of culture and PCR methods. Indoor Air 2004, 14:112-119.
28. Segata N., et al. Metagenomic biomarker discovery and explanation. Genome Biol. 2011, 12:R60. 10.1186/gb-2011-12-6-r60.
29. Vesper S.J., et al. Development of an environmental relative moldiness index for homes in the U.S. J. Occup. Environ. Med. 2007, 49:829-833.
30. Wood D.E., Salzberg S.L. Kraken: ultrafast metagenomic sequence classification using exact alignments. Genome Biol. 2014, 3. (15(3):R46). 10.1186/gb-2014-15-3-r46.
31. WHO (World Health Organization) Europe, 2009. WHO Guidelines for Indoor Air Quality: Dampness and Mould. Copenhagen, Denmark.
32. Yang C.S., et al. Ecology of fungi in the indoor environment. Sampling and Analysis of Indoor Microorganisms 2007, 191-214. John Wiley and Sons, Inc., Hoboken, NJ. C.S. Yang, P. Heinsohn (Eds.).