Taxonomic composition and seasonal dynamics of the air microbiome in West Siberia

Gusareva, Elena S.; Gaultier, Nicolas Paul Eugène; Premkrishnan, Balakrishnan N. V.; Kee, Carmon; Lim, Seng Koon; Heinle, Cassie E.; Purbojati, Rikky W.; Nee, Ang Poh; Lohar, Sachin R.; Koh, Yanqing; Kharkov, V. N.; Drautz–Moses, Daniela I.; Stepanov, Vadim; Schuster, Stephan C.

doi:10.1038/s41598-020-78604-8

Cited by 14 publications

(7 citation statements)

References 30 publications

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“…Our previous air microbiome studies ( 13–16 ) revealed the temporal and spatial dynamics of atmospheric microbial communities, particularly in a tropical setting ( 14 ). In addition, the recently observed phenomenon of the microbial community composition oscillating between day and night (diel cycle) has now been confirmed to also occur in temperate climates ( 15 , 16 ). In particular, the vertical stratification of airborne microorganisms in the lower troposphere was demonstrated above and below the planetary boundary layer ( 16 ).…”

Section: Introductionmentioning

confidence: 72%

Short-range contributions of local sources to ambient air

et al. 2022

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Recent developments in aerobiology have enabled the investigation of airborne biomass with high temporal and taxonomic resolution. In this study, we assess the contributions of local sources to ambient air within a 160,000 m2 tropical avian park. We sequenced and analyzed 120 air samples from seven locations situated 160-400 m apart, representing distinct microhabitats. Each microhabitat contained a characteristic air microbiome, defined by the abundance and richness of its airborne microbial community members, supported by both, PCoA and Random Forest analysis. Each outdoor microhabitat contained 1–18.6% location-specific taxa, while a core microbiome of 27.1% of the total taxa was shared. To identify and assess local sources, we compared the avian park dataset with a reference dataset from a location 2 km away, collected during a year-round sampling campaign. Intersection of data from the two sites demonstrated 61.6% of airborne species originated from local sources of the avian park, 34.5% from ambient air background, and only 3.9% of species were specific to the urban site. In-depth taxonomic analysis demonstrated association of bacteria-dominated air microbiomes with indoor spaces, while fungi-dominated airborne microbial biomass was predominant in outdoor settings with ample vegetation. The approach presented here demonstrates an ability to identify local source contributions against an ambient air background, despite the prevailing mixing of air masses caused by atmospheric turbulences.

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Section: Introductionmentioning

confidence: 72%

Short-range contributions of local sources to ambient air

et al. 2022

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“…We would like to emphasize that studies of this type are a fundamental basis for identifying aspects of human–nature interactions, and in particular those related to the routes of disease transmission and potential impact on human health [ 57 ]. Nevertheless, only sporadic results of the metagenomic analysis of bioaerosols have been reported in Russia [ 58 ].…”

Section: Metagenomic Sequencingmentioning

confidence: 99%

“…Подчеркнем, что исследования такого типа являются фундаментальной основой для выявления аспектов взаимодействия человека с природой, в частности, касающихся способов передачи заболеваний и потенциального воздействия на здоровье человека [57]. Тем не менее, опубликованы только единичные результаты метагеномного анализа биоаэрозолей в России [58].…”

Section: метагеномное секвенированиеunclassified

About the Biodiversity of the Air Microbiome

Naumova

Kabilov

2023

Acta Naturae

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This brief review focuses on the properties of bioaerosols, presenting some recent results of metagenomic studies of the air microbiome performed using next-generation sequencing. The taxonomic composition and structure of the bioaerosol microbiome may display diurnal and seasonal dynamics and be dependent on meteorological events such as dust storms, showers, fogs, etc., as well as air pollution. The Proteobacteria and Ascomycota members are common dominants in bioaerosols in different troposphere layers. The microbiological composition of the lower troposphere air affects the composition and diversity of the indoor bioaerosol microbiome, and information about the latter is very important, especially during exacerbated epidemiological situations. Few studies focusing on the bioaerosol microbiome of the air above Russia urge intensification of such research.

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“…A method frequently used to assess the airborne inoculum is the use of qPCRs (Clark et al, 2023), which can provide estimates of spore concentrations relatively quickly. The aerosol microbiome is known to have a complex relationship with temperature, relative humidity and rainfall (de Groot et al, 2021; Gusareva et al, 2020). Variation in airborne spores likely impacts the phyllosphere microbiome, as we would expect microbes present in the air to land on and colonize exposed plant tissues, potentially affecting disease risk.…”

Section: Introductionmentioning

confidence: 99%

Investigating the inoculum dynamics of Cladosporium on the surface of raspberry fruits and in the air

Farwell,

Papp‐Rupar,

Deakin

et al. 2024

Environmental Microbiology

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Raspberry production is under threat from the emerging fungal pathogenic genus Cladosporium. We used amplicon‐sequencing, coupled with qPCR, to investigate how fruit age, fruit location within a polytunnel, polytunnel location and sampling date affected the fruit epiphytic microbiome. Fruit age was the most important factor impacting the fungal microbiome, followed by sampling date and polytunnel location. In contrast, polytunnel location and fruit age were important factors impacting the bacterial microbiome composition, followed by the sampling date. The within‐tunnel location had a small significant effect on the fungal microbiome and no effect on the bacterial microbiome. As fruit ripened, fungal diversity increased and the bacterial diversity decreased. Cladosporium was the most abundant fungus of the fruit epiphytic microbiome, accounting for nearly 44% of all fungal sequences. Rotorod air samplers were used to study how the concentration of airborne Cladosporium inoculum (quantified by qPCR) varied between location (inside and outside the polytunnel) and time (daytime vs. nighttime). Quantified Cladosporium DNA was significantly higher during the day than the night and inside the polytunnel than the outside. This study demonstrated the dynamic nature of epiphytic raspberry fruit microbiomes and airborne Cladosporium inoculum within polytunnels, which will impact disease risks on raspberry fruit.

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Taxonomic composition and seasonal dynamics of the air microbiome in West Siberia

Cited by 14 publications

References 30 publications

Short-range contributions of local sources to ambient air

Short-range contributions of local sources to ambient air

About the Biodiversity of the Air Microbiome

Investigating the inoculum dynamics of Cladosporium on the surface of raspberry fruits and in the air

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