Urbanization reduces transfer of diverse environmental microbiota indoors

Anirudra Parajuli, Mira Grönroos, Nathan Siter, Riikka Puhakka, Heli K. Vari, Marja Roslund, Ari Jumpponen, Noora Nurminen, Olli H. Laitinen, Heikki Hyöty, Juho Rajaniemi, Aki Tapio Sinkkonen

Tutkimustuotos: ArtikkelijulkaisuArtikkeliTieteellinenvertaisarvioitu

Kuvaus

Expanding urbanization is a major factor behind rapidly declining biodiversity. It has been proposed that in urbanized societies, the rarity of contact with diverse environmental microbiota negatively impacts immune function and ultimately increases the risk for allergies and other immune-mediated disorders. Surprisingly, the basic assumption that urbanization reduces exposure to environmental microbiota and its transfer indoors has rarely been examined. We investigated if the land use type around Finnish homes affects the diversity, richness, and abundance of bacterial communities indoors. Debris deposited on standardized doormats was collected in 30 rural and 26 urban households in and near the city of Lahti, Finland, in August 2015. Debris was weighed, bacterial community composition determined by high throughput sequencing of bacterial 16S ribosomal RNA (rRNA) gene on the Illumina MiSeq platform, and the percentage of four different land use types (i.e., built area, forest, transitional, and open area) within 200 m and 2000 m radiuses from each household was characterized. The quantity of doormat debris was inversely correlated with coverage of built area. The diversity of total bacterial, Proteobacterial, Actinobacterial, Bacteroidetes, and Firmicutes communities decreased as the percentage of built area increased. Their richness followed the same pattern except for Firmicutes for which no association was observed. The relative abundance of Proteobacteria and particularly Gammaproteobacteria increased, whereas that of Actinobacteria decreased with increasing built area. Neither Phylum Firmicutes nor Bacteroidetes varied with coverage of built area. Additionally, the relative abundance of potentially pathogenic bacterial families and genera increased as the percentage of built area increased. Interestingly, having domestic animals (including pets) only altered the association between the richness of Gammaproteobacteria and diversity of Firmicutes with the built area coverage suggesting that animal ownership minimally affects transfer of environmental microbiota indoors from the living environment. These results support the hypothesis that people living in densely built areas are less exposed to diverse environmental microbiota than people living in more sparsely built areas.
Alkuperäiskielienglanti
Artikkeli84
LehtiFrontiers in Microbiology
Vuosikerta9
Sivumäärä13
ISSN1664-302X
DOI - pysyväislinkit
TilaJulkaistu - 5 helmikuuta 2018
OKM-julkaisutyyppiA1 Alkuperäisartikkeli tieteellisessä aikakauslehdessä, vertaisarvioitu

Tieteenalat

  • 1183 Kasvibiologia, mikrobiologia, virologia
  • urbanization
  • urban microbiome
  • indoor microbiome
  • built environment microbiome
  • environmental microbiome
  • soil microbiome
  • land-use
  • SP-NOV.
  • CHILDHOOD ASTHMA
  • RUSSIAN KARELIA
  • SEQUENCE DATA
  • HOUSE-DUST
  • GRASS SOIL
  • ALLERGY
  • URBAN
  • BIODIVERSITY
  • BACTERIA

Lainaa tätä

Parajuli, Anirudra ; Grönroos, Mira ; Siter, Nathan ; Puhakka, Riikka ; Vari, Heli K. ; Roslund, Marja ; Jumpponen, Ari ; Nurminen, Noora ; Laitinen, Olli H. ; Hyöty, Heikki ; Rajaniemi, Juho ; Sinkkonen, Aki Tapio. / Urbanization reduces transfer of diverse environmental microbiota indoors. Julkaisussa: Frontiers in Microbiology. 2018 ; Vuosikerta 9.
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title = "Urbanization reduces transfer of diverse environmental microbiota indoors",
abstract = "Expanding urbanization is a major factor behind rapidly declining biodiversity. It has been proposed that in urbanized societies, the rarity of contact with diverse environmental microbiota negatively impacts immune function and ultimately increases the risk for allergies and other immune-mediated disorders. Surprisingly, the basic assumption that urbanization reduces exposure to environmental microbiota and its transfer indoors has rarely been examined. We investigated if the land use type around Finnish homes affects the diversity, richness, and abundance of bacterial communities indoors. Debris deposited on standardized doormats was collected in 30 rural and 26 urban households in and near the city of Lahti, Finland, in August 2015. Debris was weighed, bacterial community composition determined by high throughput sequencing of bacterial 16S ribosomal RNA (rRNA) gene on the Illumina MiSeq platform, and the percentage of four different land use types (i.e., built area, forest, transitional, and open area) within 200 m and 2000 m radiuses from each household was characterized. The quantity of doormat debris was inversely correlated with coverage of built area. The diversity of total bacterial, Proteobacterial, Actinobacterial, Bacteroidetes, and Firmicutes communities decreased as the percentage of built area increased. Their richness followed the same pattern except for Firmicutes for which no association was observed. The relative abundance of Proteobacteria and particularly Gammaproteobacteria increased, whereas that of Actinobacteria decreased with increasing built area. Neither Phylum Firmicutes nor Bacteroidetes varied with coverage of built area. Additionally, the relative abundance of potentially pathogenic bacterial families and genera increased as the percentage of built area increased. Interestingly, having domestic animals (including pets) only altered the association between the richness of Gammaproteobacteria and diversity of Firmicutes with the built area coverage suggesting that animal ownership minimally affects transfer of environmental microbiota indoors from the living environment. These results support the hypothesis that people living in densely built areas are less exposed to diverse environmental microbiota than people living in more sparsely built areas.",
keywords = "1183 Plant biology, microbiology, virology, urbanization, urban microbiome, indoor microbiome, built environment microbiome, environmental microbiome, soil microbiome, land-use, SP-NOV., CHILDHOOD ASTHMA, RUSSIAN KARELIA, SEQUENCE DATA, HOUSE-DUST, GRASS SOIL, ALLERGY, URBAN, BIODIVERSITY, BACTERIA, urbanization, urban microbiome, indoor microbiome, built environment microbiome, environmental microbiome, soil microbiome, land-use, SP-NOV., CHILDHOOD ASTHMA, RUSSIAN KARELIA, SEQUENCE DATA, HOUSE-DUST, GRASS SOIL, ALLERGY, URBAN, BIODIVERSITY, BACTERIA",
author = "Anirudra Parajuli and Mira Gr{\"o}nroos and Nathan Siter and Riikka Puhakka and Vari, {Heli K.} and Marja Roslund and Ari Jumpponen and Noora Nurminen and Laitinen, {Olli H.} and Heikki Hy{\"o}ty and Juho Rajaniemi and Sinkkonen, {Aki Tapio}",
year = "2018",
month = "2",
day = "5",
doi = "10.3389/fmicb.2018.00084",
language = "English",
volume = "9",
journal = "Frontiers in Microbiology",
issn = "1664-302X",
publisher = "Frontiers Media",

}

Urbanization reduces transfer of diverse environmental microbiota indoors. / Parajuli, Anirudra; Grönroos, Mira ; Siter, Nathan; Puhakka, Riikka; Vari, Heli K.; Roslund, Marja; Jumpponen, Ari; Nurminen, Noora; Laitinen, Olli H.; Hyöty, Heikki; Rajaniemi, Juho; Sinkkonen, Aki Tapio.

julkaisussa: Frontiers in Microbiology, Vuosikerta 9, 84, 05.02.2018.

Tutkimustuotos: ArtikkelijulkaisuArtikkeliTieteellinenvertaisarvioitu

TY - JOUR

T1 - Urbanization reduces transfer of diverse environmental microbiota indoors

AU - Parajuli, Anirudra

AU - Grönroos, Mira

AU - Siter, Nathan

AU - Puhakka, Riikka

AU - Vari, Heli K.

AU - Roslund, Marja

AU - Jumpponen, Ari

AU - Nurminen, Noora

AU - Laitinen, Olli H.

AU - Hyöty, Heikki

AU - Rajaniemi, Juho

AU - Sinkkonen, Aki Tapio

PY - 2018/2/5

Y1 - 2018/2/5

N2 - Expanding urbanization is a major factor behind rapidly declining biodiversity. It has been proposed that in urbanized societies, the rarity of contact with diverse environmental microbiota negatively impacts immune function and ultimately increases the risk for allergies and other immune-mediated disorders. Surprisingly, the basic assumption that urbanization reduces exposure to environmental microbiota and its transfer indoors has rarely been examined. We investigated if the land use type around Finnish homes affects the diversity, richness, and abundance of bacterial communities indoors. Debris deposited on standardized doormats was collected in 30 rural and 26 urban households in and near the city of Lahti, Finland, in August 2015. Debris was weighed, bacterial community composition determined by high throughput sequencing of bacterial 16S ribosomal RNA (rRNA) gene on the Illumina MiSeq platform, and the percentage of four different land use types (i.e., built area, forest, transitional, and open area) within 200 m and 2000 m radiuses from each household was characterized. The quantity of doormat debris was inversely correlated with coverage of built area. The diversity of total bacterial, Proteobacterial, Actinobacterial, Bacteroidetes, and Firmicutes communities decreased as the percentage of built area increased. Their richness followed the same pattern except for Firmicutes for which no association was observed. The relative abundance of Proteobacteria and particularly Gammaproteobacteria increased, whereas that of Actinobacteria decreased with increasing built area. Neither Phylum Firmicutes nor Bacteroidetes varied with coverage of built area. Additionally, the relative abundance of potentially pathogenic bacterial families and genera increased as the percentage of built area increased. Interestingly, having domestic animals (including pets) only altered the association between the richness of Gammaproteobacteria and diversity of Firmicutes with the built area coverage suggesting that animal ownership minimally affects transfer of environmental microbiota indoors from the living environment. These results support the hypothesis that people living in densely built areas are less exposed to diverse environmental microbiota than people living in more sparsely built areas.

AB - Expanding urbanization is a major factor behind rapidly declining biodiversity. It has been proposed that in urbanized societies, the rarity of contact with diverse environmental microbiota negatively impacts immune function and ultimately increases the risk for allergies and other immune-mediated disorders. Surprisingly, the basic assumption that urbanization reduces exposure to environmental microbiota and its transfer indoors has rarely been examined. We investigated if the land use type around Finnish homes affects the diversity, richness, and abundance of bacterial communities indoors. Debris deposited on standardized doormats was collected in 30 rural and 26 urban households in and near the city of Lahti, Finland, in August 2015. Debris was weighed, bacterial community composition determined by high throughput sequencing of bacterial 16S ribosomal RNA (rRNA) gene on the Illumina MiSeq platform, and the percentage of four different land use types (i.e., built area, forest, transitional, and open area) within 200 m and 2000 m radiuses from each household was characterized. The quantity of doormat debris was inversely correlated with coverage of built area. The diversity of total bacterial, Proteobacterial, Actinobacterial, Bacteroidetes, and Firmicutes communities decreased as the percentage of built area increased. Their richness followed the same pattern except for Firmicutes for which no association was observed. The relative abundance of Proteobacteria and particularly Gammaproteobacteria increased, whereas that of Actinobacteria decreased with increasing built area. Neither Phylum Firmicutes nor Bacteroidetes varied with coverage of built area. Additionally, the relative abundance of potentially pathogenic bacterial families and genera increased as the percentage of built area increased. Interestingly, having domestic animals (including pets) only altered the association between the richness of Gammaproteobacteria and diversity of Firmicutes with the built area coverage suggesting that animal ownership minimally affects transfer of environmental microbiota indoors from the living environment. These results support the hypothesis that people living in densely built areas are less exposed to diverse environmental microbiota than people living in more sparsely built areas.

KW - 1183 Plant biology, microbiology, virology

KW - urbanization

KW - urban microbiome

KW - indoor microbiome

KW - built environment microbiome

KW - environmental microbiome

KW - soil microbiome

KW - land-use

KW - SP-NOV.

KW - CHILDHOOD ASTHMA

KW - RUSSIAN KARELIA

KW - SEQUENCE DATA

KW - HOUSE-DUST

KW - GRASS SOIL

KW - ALLERGY

KW - URBAN

KW - BIODIVERSITY

KW - BACTERIA

KW - urbanization

KW - urban microbiome

KW - indoor microbiome

KW - built environment microbiome

KW - environmental microbiome

KW - soil microbiome

KW - land-use

KW - SP-NOV.

KW - CHILDHOOD ASTHMA

KW - RUSSIAN KARELIA

KW - SEQUENCE DATA

KW - HOUSE-DUST

KW - GRASS SOIL

KW - ALLERGY

KW - URBAN

KW - BIODIVERSITY

KW - BACTERIA

U2 - 10.3389/fmicb.2018.00084

DO - 10.3389/fmicb.2018.00084

M3 - Article

VL - 9

JO - Frontiers in Microbiology

JF - Frontiers in Microbiology

SN - 1664-302X

M1 - 84

ER -