Macrobial airborne environmental DNA analysis: A review of progress, challenges, and recommendations for an emerging application DOI Creative Commons
Mark D. Johnson, Matthew A. Barnes

Molecular Ecology Resources, Journal Year: 2024, Volume and Issue: 24(7)

Published: Aug. 8, 2024

In the context of looming global biodiversity loss, effective species detection represents a critical concern for ecological research and management. Environmental DNA (eDNA) analysis, which refers to collection taxonomic identification genetic fragments that are shed from an organism into its surroundings, emerged approximately 15 years ago as sensitive tool detection. Today, one frontiers eDNA concerns analysis material in dust other airborne materials, termed analysis. As study matures, it is appropriate time review foundational emerging studies make up current literature, use reviewed literature summarize, synthesize, forecast major challenges opportunities this advancing front. Specifically, we "ecology eDNA" framework organize our findings across origin, state, transport, fate materials environment, summarize what so far known their interactions with surrounding abiotic biotic factors, including population community ecologies ecosystem processes. Within work identify key challenges, opportunities, future directions associated application development. Lastly, discuss development applications, partnerships, messaging promote growth field. Together, broad potential rate at accelerating field suggest sky's limit science.

Language: Английский

Interplay of xenobiotic-degrading and antibiotic-resistant microorganisms among the microbiome found in the air, handrail, and floor of the subway station DOI
Piyanun Harnpicharnchai, Paopit Siriarchawatana,

Sermsiri Mayteeworakoon

et al.

Environmental Research, Journal Year: 2024, Volume and Issue: 247, P. 118269 - 118269

Published: Jan. 19, 2024

Language: Английский

Citations

6
Fungal communities as dual indicators of river biodiversity and water quality assessment DOI Creative Commons
Paopit Siriarchawatana, Piyanun Harnpicharnchai, Chitwadee Phithakrotchanakoon

et al.

Water Research, Journal Year: 2024, Volume and Issue: 253, P. 121252 - 121252

Published: Feb. 3, 2024

Given their ecological importance, bioindicators are used for the assessment of health river ecosystems. This study explored fungal compositions and potential taxa as indicating water quality Mekong River, use indicators River was not previously well characterized. The exhibited dynamic variations in both physicochemical/hydrochemical properties communities according to seasons locations. results revealed dominance alkaline earth metal ions weak acids water. magnesium-bicarbonate type found dry season, but became chloride-calcium or mixed rainy season at downstream sites. Fungal composition analysis Chytridiomycota intermediate periods, Ascomycota Basidiomycota season. were influenced by stochastic deterministic assembly processes, mainly homogenous selection, heterogeneous dispersal limitation. extent environmental filtering implied that some affected conditions, suggesting possibility identifying certain suitable being quality. Subsequently, RFE with Random Forest SVM model identified specific bins mostly consisting Agaricomycetes (mainly Polyporales, Agaricales, Auriculariales), Rozellomycota could predict ambient irrigation high selectivity sensitivity. These thus promote assess river.

Language: Английский

Citations

5
Spatial and Temporal Patterns of Public Transit Aerobiomes DOI Creative Commons
Russell J. S. Orr, Ola Brynildsrud, Kari Oline Bøifot

et al.

bioRxiv (Cold Spring Harbor Laboratory), Journal Year: 2025, Volume and Issue: unknown

Published: April 21, 2025

Abstract Background Aerobiome diversity is extensive, however community structure at the species level remains elusive. Likewise, microbiomes of public transit systems are interest due to their importance for health, though few studies have focused on these ecosystems whilst utilising shotgun metagenomics. Aerosol predominantly individual cities, with limited between-city comparisons suggesting specific structures. Longitudinal show aerobiome as dynamic, fluctuating during seasonal and daily cycles, an annual cycle be considered. Further, a bacterial bias has fungal studies, considering both fractions collectively. As such, objective this study was examine spatial temporal patterns in aerobiomes, emphasis bacteria fungi. Results Air samples taken over three-year period (2017-2019) from six global cities were subjected metagenomic sequencing. Improved classification databases, notably fungi, applying stringent parameters trimming, exogenous contamination removal yielded high species-level resolution. Microbial varied substantially among while human environmental factors, recorded parallel, secondary significance. Bacteria dominated increased presence higher population densities. All aerobiomes had complex compositions, consisting hundreds thousands species. Annual variation significance structure. Conclusions Cities most important factor contributing structure, demonstrating signatures. correlation between geographical distance genetic signatures suggested. abundant constituent no single globally dominant, conversely indicating large inter-city The ubiquitous core rejected, sub-core confirmed. For first time, local cores presented each city related ecological niches. robust bioinformatics analysis pipeline identify remove contaminants studying low biomass highlighted. Lastly, definition contaminant taxon tables, facilitate future presented.

Language: Английский

Citations

0
Estimation of microbial inhalation exposure and prediction of microbial concentrations in rail transportation facilities during the COVID-19 pandemic DOI
Bong Gu Lee,

Yea Joon Kim,

Joo Eun Shim

et al.

Aerosol Science and Technology, Journal Year: 2024, Volume and Issue: 58(3), P. 309 - 322

Published: Feb. 7, 2024

Transportation facilities are characterized by high population density and significant passenger turnover. These environments provide optimal conditions for the transmission of airborne microorganisms. We collected microbial samples in transportation Republic Korea characterize bacterial fungal communities, respiratory disease-associated viruses using qPCR, derived regression equations. inhalation exposure levels were estimated based on air concentration microbiomes average weight rate Koreans. Microbial copy numbers compared differences facility type season. The concentrations bacteria (p < 0.001) influenza A virus 0.01) differed depending facility, whereas fungi showed variations season 0.001). Significant noted, particularly relation to human rhinovirus, both terms seasonal patterns 0.05) between different 0.05). found that adenovirus positively influenced particulate matter, while rhinovirus was negatively affected temperature Bacteria CO2 matter 0.01), relative humidity level among male children exceeded adult males Additionally, microbes higher trains than train stations, which attributed usage times.

Language: Английский

Citations

3
Macrobial airborne environmental DNA analysis: A review of progress, challenges, and recommendations for an emerging application DOI Creative Commons
Mark D. Johnson, Matthew A. Barnes

Molecular Ecology Resources, Journal Year: 2024, Volume and Issue: 24(7)

Published: Aug. 8, 2024

In the context of looming global biodiversity loss, effective species detection represents a critical concern for ecological research and management. Environmental DNA (eDNA) analysis, which refers to collection taxonomic identification genetic fragments that are shed from an organism into its surroundings, emerged approximately 15 years ago as sensitive tool detection. Today, one frontiers eDNA concerns analysis material in dust other airborne materials, termed analysis. As study matures, it is appropriate time review foundational emerging studies make up current literature, use reviewed literature summarize, synthesize, forecast major challenges opportunities this advancing front. Specifically, we "ecology eDNA" framework organize our findings across origin, state, transport, fate materials environment, summarize what so far known their interactions with surrounding abiotic biotic factors, including population community ecologies ecosystem processes. Within work identify key challenges, opportunities, future directions associated application development. Lastly, discuss development applications, partnerships, messaging promote growth field. Together, broad potential rate at accelerating field suggest sky's limit science.

Language: Английский

Citations

1