Towards a UK Airborne Bioaerosol Climatology

Lead Research Organisation: University of Manchester
Department Name: Earth Atmospheric and Env Sciences

Abstract

Primary biological aerosols (PBA), or bioaerosols, are a poorly understood component of organic carbonaceous aerosols (OC), contributing a significant fraction to airborne particulate matter (PM) and comprising mixtures of many thousands of organic compounds. PBA include live or dead cells and cell fragments, fungal spores and pollens, and plant, insect and animal fragments. They have a major influence on the physico-chemical, biological, health and even climate related behaviour of atmospheric aerosols and chemical processes. The detection, characterization and classification of these aerosols and their descriptions in atmospheric transport models has remained a major challenge to the science community. Indeed the US national Academies of Science concluded that "The overall understanding of their impacts on atmospheric composition, climate, and human health remains weak." (NAS, 2016).
Global and regional bioaerosol (PBA) emission and transport modelling studies have demonstrated very large uncertainties and thus provide limited understanding of these important atmospheric constituents. This is primarily due to a lack lack of observational data on their fluxes and airborne concentrations for many different ecosystems. Important, as yet unanswered, questions raised recently include: the relative importance of continuous versus intermittent emission and transport of PBA to ambient concentrations and subsequent impacts; whether PBA significantly influence cloud and precipitation processes via the "bioprecipitation" hypothesis; the degree to which they can reproduce via atmospheric ecosystem niches from the tropics to the poles; and whether they can influence chemical processes through degradation of organic compounds.
All recent studies and reviews have similarly concluded that in order to start to address the many and growing challenges associated with PBA we need to acquire a better knowledge of their atmospheric concentrations and distributions and in particular knowledge of their vertical concentration profiles. The most recent in depth review of PBA, Fröhlich-Nowoisky et al. (2016), concluded that "major challenges include the quantitative characterization of exchange between surface, planetary boundary layer, and free troposphere. For this purpose, ground based measurements have to be combined with tall tower and aircraft measurements... to obtain information on the vertical and horizontal distribution of bioparticles." We aim to do just this, delivering new data sets to enable emissions modelling for the UK environment.
We will use existing measurement facilities on the NERC FAAM aircraft together with surface measurements to deliver vertical and horizontal PBA concentration profiles over UK regions including urban, rural-cropland, grassland, forest & coastal. We will use aircraft bioaerosol sampling methodologies recently developed in the US together with real-time bioaerosol instruments. These data will provide the first such information on UK boundary layer concentration profiles of bioaerosol for over 50 years. High quality UK airborne data sets suitable for constraining & testing UK bio-emissions models for the first time.
Our new vertically & horizontally resolved PBA-climate database will support a raft of scientific research and policy applications well beyond the timescale of the project. In situ PBA concentrations will be correlated with airborne meteorological, trace gas and other aerosol composition data, for air mass classification, using tools developed for the FAAM aircraft over many years for source tracking & identification. This will allow us to deliver quality controlled, assimilation-ready case studies able to constrain a wide range of potential PBA emissions models.
We will also conduct laboratory experiments to deliver UK specific bioaerosol reference data sets designed to improve interpretation of current and future PBA field data collected using real-time UVLIF bioaerosol instruments.

Planned Impact

Airborne bioparticles are an important component of our Earth-Atmosphere system that continues to evolve and as we experience and attempt to adapt to our changing climate. There is now an urgent need to improve models to include these particles to understand and anticipate their likely future impacts due to changing emission patterns of these particles and pathogens. These particles impact areas as wide ranging as food security, disease spread and climate feedback. In a recent comprehensive review, the US National Academies of Science (NAS 2016) concluded, "The understanding of the sources and impacts of bioparticles has increased in recent years but the overall understanding of their impacts on atmospheric composition, climate, and human health remains weak. The first attempts to model emissions and transport of fungal spores, bacteria, and pollen are now starting to be tested against new observational constraints from fluorescence measurements." BIOARC is designed to directly address this science gap with specific focus on the UK. It therefore has potential for significant impact on many UK economic and ecosystem applications within a discovery science framework.

Who will benefit & how?
Scientific community. Quantifying bioparticle emissions and long-range transport of biological containing materials as warming alters emission patterns and distributions is key to understanding the influence these particles will have on human health and ecosystem management. Whilst there have been many detailed studies of the biological characterisation of these particles, few if any have been quantitative with respect to actual atmospheric bioparticle concentrations or fluxes that can be assimilated routinely by dispersion and climate models as non-biological particles currently are. This work will be of scientific interest in the UK and Northern/Arctic Europe, which will likely be more sensitive to climate warming. Better understanding of these particles as highlighted by the NAS review is an important goal in its own right; this work will have added benefit as it will help to understand the response internationally to such problems. Thus the work will improve our knowledge across the whole hemisphere. Results from this project will be an important step forward for the scientific community in the UK especially. It adds to the capability of the FAAM aircraft encouraging its use by the biomolecular community. Better bioparticle emission data will improve models currently under development now including bioparticles, to inform future UK societal needs. Results will be reported in publications and conferences. The project is cross-disciplinary, relevant to biologists, ecologists health scientists, and regional and global climate modellers.

Policymakers. Policymakers in government and scientific bodies (such as IPCC) will be users of the project outcomes. DEFRA and EPA are among those interested in monitoring changing bioparticle emissions for human, plant and animal health. Development of better methodologies to assess emissions and forecast incursions will have much relevance in the UK and EU and will in turn advise on new technologies for surface monitoring of bioparticles being considered for pollution networks.

Business. Health impacts, both plant, animal and human are significant economic drivers and better model forecasts will contribute to mitigation. Instrument companies are collaborating with us in the development of UVLIF technologies (some developed in the UK). The proposed laboratory experiments will generate "training" data sets available to many in the community now using new UVLIF instruments for monitoring and passing UK PBA emissions.

General public/media. Partnerships with instrument manufacturers in the proposed work will improve sensors for bioparticle detection. There is increasing public and media interest in recent years on the impacts of bioparticle/pathogens and this is forecast to increase.
 
Description New technique for real-time single particle UVLIF spectral analysis highlighting new approaches. Paper in preparation.
Surrogate projects were conducted in light of lack of full access to the FAAM facility including invited participation in the OSCA experiment at the Manchester supersite to provide mapping of airborne biogenic aerosols using several new real-time bioaerosol detection techniques. The project is ongoing and will finish at the end of February. A no-cost extension has been requested to fully work up the data and to submit publications. In parallel filter samples were collected for biological analysis by the postdoctoral assistant. These have been analysed e.g. using qPCR to provide a biodiversity spectrum for the Manchester urban environment combined with analysis of long range transport of external bioaerosol sources. A publication is in preparation. The delays to the original field campaign schedule meant that the long term bioaeroosl data were successfully collected at AMOF sites (Weybourne and Chilbolton) through 2021 and completed in January 2022. This data is currently being analysed using AI techniques using training data produced at the Dstl ACS laboratory facility (this experiment was also delayed until late 2021). It is hoped that the no-cost extension and collaboration with other bio-emission projects such as OSCA will provide sufficient staff time to complete the analysis and produce publications.
Exploitation Route The data is being used to plan a new bio-climatology survey using aircraft (FAAM) and ground based (NARC Facilities) measurements with state of the art bioaerosol detectors in collaboration with several universities, UK Met Office, NCAS and Dstl.
As a result of this work we have been invited to participate in a proposed NERC AQUIO network on Bioaerosols in collaboration with several other UK Universities and Government research Institutes
Collaboration implemented with ICL, Dstl and Manchester to analyse and interpret long-term bioparticle concentrations and classes using a new UVLIF single particle spectrometer. Two publications produced, a final monitoring paper in progress, two submissions to a UK Bioaerosol Focus Meeting (Bristol April 2020). As a result of this work we were
1. invited to participate in the EU Genoa Chambre Experimental Facility to which we have applied for funds.
2. invited to contribute to a seminal review on bioparticle detection methods, Real-time sensing of bioaerosols: Review and current perspectives. / Huffman, J. Alex; Perring, Anne E.; Savage, Nicole J.; Clot, Bernard; Crouzy, Benoit; Tummon, Fiona; Shoshanim, Ofir; Damit, Brian; Schneider, Johannes; Sivaprakasam, Vasanthi; Zawadowicz, Maria A.; Crawford, Ian; Gallagher, Martin; Topping, David; Doughty, David C.; Hill, Steven C.; Pan, Yongle., In: Aerosol Science and Technology, 27.09.2019, p. 1-56.
3. obtained a new CDT studentship with a bioaerosol instrument manufacturer (DMT USA).
Sectors Agriculture, Food and Drink,Digital/Communication/Information Technologies (including Software),Environment,Healthcare,Manufacturing, including Industrial Biotechology,Security and Diplomacy

URL https://www.atmos-chem-phys.net/19/1665/2019/acp-19-1665-2019.html
 
Description The findings have been used to assist development of new real-time bioaerosol detection methods currently implemented in the Manchester Urban Supersite by two major instrument manufacturers, PLAIR and Swisens. This work also initiated meetings with the UK Met Office pollen dispersion group for future use of real-time pollen data products from the Manchester urban supersite. In addition the work has supported a CDT PhD student project partnered by US instrument manufacturer Droplet Measurement Technology
First Year Of Impact 2022
Sector Aerospace, Defence and Marine,Agriculture, Food and Drink,Communities and Social Services/Policy,Creative Economy,Digital/Communication/Information Technologies (including Software),Education,Electronics,Environment,Healthcare,Manufacturing, including Industrial Biotechology,Security and Diplomacy
Impact Types Societal,Economic,Policy & public services

 
Description Aerosol-Cloud Coupling And Climate Interactions in the Arctic
Amount £661,198 (GBP)
Funding ID NE/I028696/1 
Organisation Natural Environment Research Council 
Sector Public
Country United Kingdom
Start 03/2012 
End 10/2017
 
Description COntrails Spreading Into Cirrus (COSIC)
Amount £135,369 (GBP)
Funding ID NE/G00479X/1 
Organisation Natural Environment Research Council 
Sector Public
Country United Kingdom
Start 07/2009 
End 06/2012
 
Description Characterisation and Modelling of Climatically Relevant Primary Biogenic Ice Nuclei in the BEACHON Southern Rocky Mountain Project
Amount £244,499 (GBP)
Funding ID NE/H019049/1 
Organisation Natural Environment Research Council 
Sector Public
Country United Kingdom
Start 03/2011 
End 09/2013
 
Description UK ICE-D
Amount £432,624 (GBP)
Funding ID NE/M001954/1 
Organisation Natural Environment Research Council 
Sector Public
Country United Kingdom
Start 05/2015 
End 12/2018
 
Title Machine Learning Methods for Bioaerosol Detection 
Description New urban pollution infrastructure is being acquired as part of the Manchester MERI and Urban Observatory to monitor bioaerosol pollution. This technology will monitor and identify pollen in real-time using machine learning application to digital holographic imager, fungal spores using machine learning algorithms developed as part of NERC-Dstl-France PhD and NERC funded projects. A new holographic spectrometer instrument has been developed funded by NERC for the FAAM aircraft and the analysis tools for this will be applied to the bioaerosol databases to validate these. Training data sets provided by the ACS facility via the NERC funded BIOARC project and the Dstl-Saclay BIODETECT project is being used to develop real-time analysis of fungal spore and bacteria-containing particle concentrations. 
Type Of Material Improvements to research infrastructure 
Year Produced 2019 
Provided To Others? Yes  
Impact Publications citing the analysis tools for real-time bioaerosol discrimination have increased substantially. The techniques used formed part of a seminal review of bioaerosol detection techniques and analysis tools, Huffman et al. (2019) 
URL https://doi.org/10.5194/amt-10-695-2017
 
Title ClearfLo (Clean Air for London) Data 
Description Data from the ClearfLo (Clean Air for London) Project. ClearfLo is a collaborative scientific project involving several academic institutions in the UK, to set up air pollution monitoring sites alongside meteorological measurements to investigate boundary layer pollution across London. The ambition of ClearfLo is to provide long-term integrated measurements of the meteorology, composition and particulate loading of London's urban atmosphere, made at street level and at elevated sites, complemented by modelling to improve predictive capability for air quality. ClearfLo is funded by the Natural Environment Research Council (NERC) for three years from Jan 2010, and is coordinated by the National Centre for Atmospheric Science (NCAS). 
Type Of Material Database/Collection of data 
Year Produced 2015 
Provided To Others? Yes  
Impact Two PhD students were awarded PhD's based on use of the databases. Databases are archived at: Keywords: NE/S002049/1 http://catalogue.ceda.ac.uk/search/?search_term=ClearFlo&return_obj=ob&search_obj=ob Full BIOARC database now available at CEDA wards a UK Airborne Bioaerosol Climatology (BIOARC) project. Data was collected at the following ground sites: Cardington Meteorological Research Unit: MBS-M, 11/04/2019 - 09/06/2019 Chilbolton Observatory: WIBS-4D, 14/05/2019 - 14/06/2019 Weybourne Atmospheric Observatory: WIBS-4M, 03/06/2019 - 01/08/2019 Chilbolton Observatory: WIBS-4M, 10/09/2020 - 21/06/2021 Weybourne Atmospheric Observatory: MBS-M, 15/09/2020 - 03/11/2019 Weybourne Atmospheric Observatory: MBS-M, 15/04/2021 - 16/07/2021 NERC reference NE/S002049/1 Citable as: Crawford, I. (2022): BIOARC: ground site real-time bioaerosol spectrometer datasets (2019-2021). NERC EDS Centre for Environmental Data Analysis, date of citation. https://catalogue.ceda.ac.uk/uuid/14dfd0ba5212422c9c72b5184cbf5330 
URL http://catalogue.ceda.ac.uk/search/?search_term=ClearFlo&return_obj=ob&search_obj=ob
 
Description Dstl Partnership to assess instruments for detecting and discriminating different bioparticles in real-time for health monitoring applications 
Organisation Defence Science & Technology Laboratory (DSTL)
Country United Kingdom 
Sector Public 
PI Contribution We will be designing new chamber experiments and providing new UVLIF instruments to deliver new bioparticle training data sets to challenge machine learning and deep learning algorithms to identify airborne bioparticle types in real-time for health/advertant releases suitable for bio-PM health monitoring applications.
Collaborator Contribution Two publications have been published. The first paper presented improved methods for discriminating and quantifying airborne biological aerosol particles by applying hierarchical agglomerative cluster analysis to multi-parameter ultraviolet-light-induced fluorescence (UV-LIF) spectrometer data. The methods employed in this study were evaluated for accuracy against prescribed reference particle populations, biological and non-biological. The HCA method was examined and potential for false positives identified and methods to reduce the potential for misattribution found in subsampling and comparative attribution methods used in previous approaches. This improved capacity to discriminate and quantify PBAP meta-classes.The performance of various hierarchical agglomerative cluster analysis linkages and data normalisation methods using laboratory samples of known particle types and an ambient data set. We provided the algorithm development specific to various UVLIF aerosol spectrometers, collected the field data and conducted the laboratory experiments for this study. In a second study, much larger training bioparticle data sets from a new UVLIF particle spectrometer, provided by partner's Dstl, were evaluated using new Machine Learning Algorithms and compared with the previous hierarchical Agglomerative CLuster Approaches. In this study we provided the algorithm development, analysed the data sets and produced the publication. We also collected additional field data sets of ambient particles. This work builds on existing collaboration with Dstl originally started as part of the NERC BIOGENICE funded project. http://www.cas.manchester.ac.uk/resprojects/biogenice/
Impact A new PhD case studentship was provided with "Paratools-Daresbury" to sue supercomputing facilities to analyse and interpret large bioparticle data sets using deep learning machine algorithms. We have been provided with year long bioparticle data sets recorded in London to evaluate these algorithms. We have received a NERC-Dstl case studentship in collaboration with CEA France to conduct field experiments at European sites. We have received infrastructure support from NCAS via a new high resolution, field deployable UVLIF particle spectrometer which will be used by the case studentships to further evaluate applications for health monitoring and for delivering datasets for improving emissions parameterisations of bioparticles in regional scale and global models. We have received in-kind support from manufacturers of UVLIF instruments through shared data sets to evaluate new instrument performance and, as part of the Dstl proposed laboratory biochamber experiments, they are supplying new instruments and training for instrument intercomparison exercises.
Start Year 2015
 
Description Dstl Partnership to assess instruments for detecting and discriminating different bioparticles in real-time for health monitoring applications 
Organisation Laboratory of Climate Sciences and the Environment (LSCE)
Country France 
Sector Academic/University 
PI Contribution We will be designing new chamber experiments and providing new UVLIF instruments to deliver new bioparticle training data sets to challenge machine learning and deep learning algorithms to identify airborne bioparticle types in real-time for health/advertant releases suitable for bio-PM health monitoring applications.
Collaborator Contribution Two publications have been published. The first paper presented improved methods for discriminating and quantifying airborne biological aerosol particles by applying hierarchical agglomerative cluster analysis to multi-parameter ultraviolet-light-induced fluorescence (UV-LIF) spectrometer data. The methods employed in this study were evaluated for accuracy against prescribed reference particle populations, biological and non-biological. The HCA method was examined and potential for false positives identified and methods to reduce the potential for misattribution found in subsampling and comparative attribution methods used in previous approaches. This improved capacity to discriminate and quantify PBAP meta-classes.The performance of various hierarchical agglomerative cluster analysis linkages and data normalisation methods using laboratory samples of known particle types and an ambient data set. We provided the algorithm development specific to various UVLIF aerosol spectrometers, collected the field data and conducted the laboratory experiments for this study. In a second study, much larger training bioparticle data sets from a new UVLIF particle spectrometer, provided by partner's Dstl, were evaluated using new Machine Learning Algorithms and compared with the previous hierarchical Agglomerative CLuster Approaches. In this study we provided the algorithm development, analysed the data sets and produced the publication. We also collected additional field data sets of ambient particles. This work builds on existing collaboration with Dstl originally started as part of the NERC BIOGENICE funded project. http://www.cas.manchester.ac.uk/resprojects/biogenice/
Impact A new PhD case studentship was provided with "Paratools-Daresbury" to sue supercomputing facilities to analyse and interpret large bioparticle data sets using deep learning machine algorithms. We have been provided with year long bioparticle data sets recorded in London to evaluate these algorithms. We have received a NERC-Dstl case studentship in collaboration with CEA France to conduct field experiments at European sites. We have received infrastructure support from NCAS via a new high resolution, field deployable UVLIF particle spectrometer which will be used by the case studentships to further evaluate applications for health monitoring and for delivering datasets for improving emissions parameterisations of bioparticles in regional scale and global models. We have received in-kind support from manufacturers of UVLIF instruments through shared data sets to evaluate new instrument performance and, as part of the Dstl proposed laboratory biochamber experiments, they are supplying new instruments and training for instrument intercomparison exercises.
Start Year 2015
 
Description University collaboration 
Organisation Cranfield University
Department Cranfield Soil and Agrifood Institute
Country United Kingdom 
Sector Academic/University 
PI Contribution Exchange of instrumentation and expertise in software development
Collaborator Contribution Contribution delayed due to COVID. Upon restart instrumentation will be provided to support the project.
Impact Delayed due to COVID.
Start Year 2020
 
Company Name Droplet Measurement Technologies LLC 
Description Droplet Measurement Technologies is a major manufacturer, developer of instruments for monitoring black carbon, bioaerosols, cloud droplets, or other aerosols. 
Year Established 2004 
Impact As a result of work with University Hertfordshire DMT funded a Tier 3 Aerosol CDT PhD studentship at Manchester
Website http://www.dropletmeasurement.com/
 
Description Development of Integrated Optoelectronic Spectrometers for Real-World Biogenic Aerosol Emission Studies: Examples of Field Applications 
Form Of Engagement Activity A talk or presentation
Part Of Official Scheme? No
Geographic Reach Regional
Primary Audience Postgraduate students
Results and Impact An invited talk at the University of Aarhus, February 2023. Approximately 30 attendees from Danish universities including research scientists and postgraduate students. Extended debate and Q&A activities. Observational results presented from several projects including DCMEX with a focus on cloud microphysics and biogenic aerosol detection/applications. Activity lead to r quests for further information, copies of presentation and potential collaborative activities that I passed on to colleagues.
Year(s) Of Engagement Activity 2023
 
Description Future of Airborne Bioaerosol Detection using Aircraft Platforms - Talk to the Uk Aerosol Working Group (Met Office-FAAM) 
Form Of Engagement Activity A talk or presentation
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Study participants or study members
Results and Impact An academic review of bioaerosol studies for ecosystem health and human health monitoring using novel aircraft instruments for the realtime detection of biological aerosols. Talk was to scientists, engineers and postgraduate students to inform and deliver policy decisions for future UK aircraft activities and capabilities based on new sensor development breakthroughs in the field of real-time bio particle detection.
Year(s) Of Engagement Activity 2021