Exploring the utility of bioaerosol metagenomics compared to PCRs for swine pathogen surveillance DOI Creative Commons
Adrian Muwonge, Priscilla F. Gerber, Bryan A. Wee

et al.

Frontiers in Microbiomes, Journal Year: 2024, Volume and Issue: 3

Published: Oct. 4, 2024

Introduction Pathogen introduction and transmission at the farm, regional, or national level are associated with reduced animal welfare negative impacts on herd economics. Ongoing infectious disease surveillance, active passive, is therefore of high importance. For optimal resolution, each pig sampled individually, for example by collecting blood nasal swabs. In recent years, oral fluids have become very useful population surveillance pen level. Another alternative sampling air to capture pathogens circulating across entire barn via bioaerosols. Objective This study aimed examine potential utility bioaerosol metagenomics pathogen detection farms. Methods Bioaerosols automated sampler, fluid pen-based ropes, were collected from two Scottish indoor All samples subjected conventional routine bacterial isolation. Total genomic nucleic acids extracted PCR screening three DNA viruses, Mycoplasma species an RNA virus. Illumina shotgun metagenomic sequencing was also conducted. Results Oral contained more compared samples. integrity exhibited limited impact sequence yield. While Streptococcus suis could be cultured a single sample, reads mapped S. detectable in all Other pathogens, including hyorhinis , M. hyopneumoniae hyosynoviae detected aerosols metagenomics. One farms PRRSV positive, virus but not Antimicrobial resistance (AMR) gene profiles had less variation between bioaerosols fluids. Some identified AMR genes strikingly similar abundance overall. Conclusion Overall, these findings indicate that there farms; however, research needed technical cost optimization allow livestock

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
Navigating the Aerosolized Frontier: A Comprehensive Review of Bioaerosol Research Post-COVID-19 DOI Creative Commons
Chengchen Zhang, Xiaorong Dai,

Tedros Gebrezgiabhier

et al.

Atmosphere, Journal Year: 2024, Volume and Issue: 15(4), P. 404 - 404

Published: March 25, 2024

In the wake of COVID-19 pandemic, scientific community has been galvanized to unravel enigmatic role bioaerosols in transmission infectious agents. This literature review, anchored extensive Web Science Core Collection database covering period from 1990 2023, utilizes a bibliometric approach chart dynamic landscape bioaerosol research. It meticulously documents paradigm shifts and burgeoning areas inquiry that have emerged aftermath pandemic. review maps out sources detection strategies pathogens variety ecosystems. clearly shows impaction filtration sampling methods, followed by colony counting PCR-based techniques, were predominantly used works within previous three decades. synthesizes progress limitations inherent range models for predicting aerosol-mediated pathogen spread provides comparative analysis eDNA technology traditional analytical techniques bioaerosols. The accuracy these methods forecasting is paramount early recognition risks, which, turn, paves way prompt effective disease mitigation strategies. By providing thorough historical progression current state research, this illuminates path ahead, identifying critical research needs will drive field’s advancement years come.

Language: Английский

Citations

6
Continuous daily sampling of airborne eDNA detects all vertebrate species identified by camera traps DOI Creative Commons
Marcel Polling,

Ralph Buij,

Ivo Laros

et al.

Environmental DNA, Journal Year: 2024, Volume and Issue: 6(4)

Published: July 1, 2024

Abstract Ongoing pressures on global biodiversity require conservation action that is not possible without effective biomonitoring. Terrestrial vertebrate surveys are commonly performed using camera traps, a time‐intensive method known to miss many small or arboreal species and birds. Recent advances have shown airborne eDNA be potentially suitable technique more effectively monitor communities in time‐ cost‐effective manner. Here, we test whether commercially available air samplers collect particles 24/7 during 1‐week period can used detect the presence of vertebrates through eDNA. The results compared trap records at three locations with differing habitats Netherlands. Simultaneous sampling different for 3 weeks resulted detection 154 taxa, which majority were birds mammals (113 33 species, respectively), along four fish amphibian species. All observed traps also retrieved via eDNA, although every day sampling. Burkard spore trap, routinely pollen monitoring, showed highest number only samples when mammal was detected it remained undetected We unique indicative habitat they living. However, could account for. multitude found indicate sensitivity method; however, subsequent studies should prioritize validation these findings alternative biomonitoring approaches.

Language: Английский

Citations

4
Efficiency of the Coriolis µ Air Sampling Device for Fungal Contamination Analysis of Indoor Air: A Case Study DOI Creative Commons
Mohamad Al Hallak, Thomas Verdier, Alexandra Bertron

et al.

Pathogens, Journal Year: 2025, Volume and Issue: 14(4), P. 345 - 345

Published: April 3, 2025

Molds are frequent indoor contaminants, where they can colonize many materials. The subsequent aerosolization of fungal spores from moldy surfaces strongly impact air quality and the health occupants. investigation contamination habitations is a key point in evaluating sanitary risks understanding relationship that may exist between presence on contamination. However, to date there no “gold standard” sampling for such investigations. Among various methods, impingement be used capturing spores, as it enables real-time preserves analytical follow-up. Its efficiency varies depending several factors, spore hydrophobicity, conditions, etc. Sampling devices also results, with recovery rates sometimes lower than filtration-based methods. Coriolis µ sampler, an impingement-based device, utilizes centrifugal force concentrate airborne particles into liquid medium, offering flexibility molecular analysis. Several studies have this device sampling, demonstrating its application detecting pollen, bacteria, viruses, but most often laboratory conditions. present case study, conducted house, aims investigate DNA analysis environments. results obtained suggest use requires optimized methodology enhance reliability bioaerosol research.

Language: Английский

Citations

0
Temporal dynamics in diversity and composition of the air mycobiome and dominant allergenic fungi in the subway environment DOI Creative Commons
Piyanun Harnpicharnchai, Paopit Siriarchawatana, Panyapon Pumkaeo

et al.

Environmental DNA, Journal Year: 2023, Volume and Issue: 5(6), P. 1265 - 1288

Published: July 15, 2023

Abstract Analyzing and monitoring air microbiomes in the subway environment has a great impact on public health, especially urban cities. In this study, temporal distribution profile of mycobiome at Bangkok's Sukhumvit station (MRT‐SKV) was explored over 12 samplings during December 2021–November 2022 by environmental DNA‐metabarcoding approach. The top 5 most abundant fungal genera identified were Yarrowia , Cladosporium Hortaea Cutaneotrichosporon Leptobacillum . Among 496 found, 24 could be considered “core mycobiome” MRT‐SKV air, as they consistently found ≥85% samples. Many members core constituted human commensal genera, but several them can elicit allergic reactions humans thus pose potential health risk. allergenic fungi MRT‐SKV, which is contrast to Malassezia Ustilago or Aspergillus being environments other countries. compositions differed temporally, abundances highest samples obtained first seventh (done 2021–June 2022). These compositional variations likely influenced quality variables, including particulate matter (PM), temperature, relative humidity, showed seasonal variations. Finally, certain shown co‐occur together co‐occurrence network. formed networks more prominently rush hour than traffic hours. network suggested associations among such association between – Nigrospora Alternaria bioaerosols. implied these are worth further investigation since may point toward their (as opportunistic human). Our results facilitate understanding ecological impacts components environment.

Language: Английский

Citations

5
Genomic characterisation of bioaerosols within livestock facilities: A systematic review DOI Creative Commons

Connor T. Farrell,

Elena Hunter,

Philippe B. Wilson

et al.

The Science of The Total Environment, Journal Year: 2024, Volume and Issue: 918, P. 170722 - 170722

Published: Feb. 6, 2024

Livestock facilities are widely regarded as reservoirs of infectious disease, owing to their abundance in particulate matter (PM) and microbial bioaerosols. Over the past decade, bioaerosol studies have increasingly utilised high throughput sequencing (HTS) achieve superior throughput, taxonomic resolution, detection unculturable organisms. However, prevailing focus on amplicon has limited identification viruses taxa at species-level. Herein, a literature search was conducted identify methods capable overcoming aforementioned limitations. Screening 1531 international publications resulted 29 eligible for review. Metagenomics providing rich insights were identified only three instances. Notably, long-read not metagenomics. This review also that sample collection lack uniform approach, highlighted by differences sampling equipment, flow rates durations. Further heterogeneity introduced unique conditions, which makes it challenging ground new findings within established literature. For instance, winter associated with increased antimicrobial resistance, yet less alpha diversity. Researchers implementing metagenomics into livestock environment should consider season, microclimate, growth stage influential upon findings. Considering increasing accessibility sequencing, future research explore its viability novel testing protocol emissions.

Language: Английский

Citations

1
Bioaerosol Sampling Devices and Pretreatment for Bacterial Characterization: Theoretical Differences and a Field Experience in a Wastewater Treatment Plant DOI Creative Commons
Anastasia Serena Gaetano, Sabrina Semeraro, Samuele Greco

et al.

Microorganisms, Journal Year: 2024, Volume and Issue: 12(5), P. 965 - 965

Published: May 10, 2024

Studies on bioaerosol bacterial biodiversity have relevance in both ecological and health contexts, molecular methods, such as 16S rRNA gene-based barcoded sequencing, provide efficient tools for the analysis of airborne communities. Standardized methods sampling DNA are lacking, thus hampering comparison results from studies implementing different devices procedures. Three samplers that use gelatin filtration, swirling aerosol collection, condensation growth tubes collecting at an aeration tank a wastewater treatment plant Trieste (Italy) were used to determine biodiversity. Wastewater samples collected directly untreated sewage obtain true representation microbiological community present plant. Different collection media indication grades biodiversity, with DNA/RNA shield

Language: Английский

Citations

1
Molecular genetic analysis as a method of detecting microorganisms in industrial poultry farming DOI Creative Commons

Ksenia Kalitkina,

Vitaly Morozov,

Georgy Laptev

et al.

BIO Web of Conferences, Journal Year: 2024, Volume and Issue: 108, P. 01031 - 01031

Published: Jan. 1, 2024

Methods of molecular genetic analysis are widely used to study the air microbiota. These methods make it possible all groups microorganisms without need for their cultivation. The purpose was analyze microbiota poultry house environment by qPCR method and identify presence representatives normophlora, opportunistic pathogenic microflora. research plan included sampling from a three-tier cage battery rearing 42 days. data obtained revealed an increase in during entire experiment, largest number them detected on 42nd day cultivation lower tier. results emphasize importance timely detection assessment prevent spread diseases impact health productivity birds.

Language: Английский

Citations

0
Microbial Metagenomics Developments for Environmental and Public Health Monitoring DOI
Susanta Sinha Roy, Smrita Singh,

Ashutosh Singh Chauhan

et al.

Published: Jan. 1, 2024

Language: Английский

Citations

0
Spatio-temporal variability of airborne viruses over sub-Antarctic South Georgia: Effects of sampling device and proximity of the ocean DOI Creative Commons
Ritam Das, Lucie Malard, David A. Pearce

et al.

bioRxiv (Cold Spring Harbor Laboratory), Journal Year: 2024, Volume and Issue: unknown

Published: Aug. 23, 2024

Abstract Studying airborne viral diversity in pristine, remote environments like the sub-Antarctic island South Georgia provides crucial insights into ecology and their role sustaining unique ecosystems. Viruses influence microbial dynamics nutrient cycles, which are vital for ecological balance long-term ecosystem sustainability. We explored community composition of operational taxonomic units (vOTUs) two sites Georgia, using various sampling devices metagenomics. The Coriolis µ device (wet collection) was most effective, yielding 30 scaffolds. Two-thirds scaffolds were from sea-level samples, indicating that location impacts diversity. Protein-based clustering 39 vOTUs revealed similarities 15 with known marine viruses, suggesting oceanic on island’s community. Genes related to UV damage protection photosynthesis widely distributed major oceans, emphasizing potential resilience changing climates. Host predictions indicated associations bacterial genera Rickettsia , Myroides Bacteroidota. Some matched viruses extremophiles, adaptations harsh environments. This study a baseline understanding complexity sustainability communities ecosystems, underscoring need continued monitoring face environmental change. Sustainability Statement Antarctic microbes have potentially extreme cold conditions. infect these may play pivotal shaping thus virus-host interactions is preserving biodiversity Antarctica. Moreover, investigating aerosolization around Antarctica important global dispersal distant Monitoring essential tracking changes over time. Since often considered one last pristine Earth, relevant developing conservation strategies protect this anthropogenic impacts, including unintentional introduction foreign microorganisms viruses. Our research aligns Sustainable Development Goals Life below water (SDG14) land (SDG15).

Language: Английский

Citations

0