Antarctic daily mesoscale air temperature dataset derived from MODIS land and ice surface temperature.

Knowledge about local air temperature variations and extremes in Antarctica is of large interest to many polar disciplines such as climatology, glaciology, hydrology, and ecology and it is a key variable to understand climate change. Due to the remote and harsh conditions of Antarctica's environment, the distribution of air temperature observations from Automatic Weather Stations is notably sparse across the region. Previous studies have shown that satellite-derived land and ice surface temperatures can be used as a suitable proxy for air temperature. Here, we developed a daily near-surface air temperature dataset, AntAir ICE for terrestrial Antarctica and the surrounding ice shelves by modelling air temperature from MODIS skin temperature for the period 2003 to 2021 using a linear model. AntAir ICE has a daily temporal resolution and a gridded spatial resolution of 1 km2. AntAir ICE has a higher accuracy in reproducing in-situ measured air temperature when compared with the well-established climate re-analysis model ERA5 and a higher spatial resolution which highlights its potential for monitoring temperature patterns in Antarctica.

Atmospheric Transport of Polycyclic Aromatic Hydrocarbons into Three Alpine Valleys: Influence of Local-Scale Wind Patterns and Chemical Partitioning.

Current understanding of atmospheric transport of polycyclic aromatic hydrocarbons (PAHs) is limited in alpine areas due to complex meteorology and topography. To better understand atmospheric transport in these areas, we measured 16 PAHs in lichens, biomonitors of atmospheric PAHs, along three transects extending from a highway into otherwise remote alpine valleys. While the valleys neighbored one another and were morphologically similar, they differed in their orientation relative to regional winds. In the valley characterized by regional winds oriented up-valley, PAH concentrations in lichens remained consistent across the transect. In the other two valleys, where regional winds were oriented down or across the valley, 3-6 ring PAHs declined rapidly with increasing distance from the highway, and PAH concentrations in the lichens declined more rapidly for higher molecular weight PAHs than lower molecular weight PAHs. We hypothesize that this trend was driven by differences in gas-particle partitioning and vegetative scavenging between PAH congeners. These results illustrate the importance of both physical transport and chemical partitioning in alpine areas where small differences in topography can lead to significant differences in chemical transport.

Unveiling Crucivirus Diversity by Mining Metagenomic Data.

The discovery of cruciviruses revealed the most explicit example of a common protein homologue between DNA and RNA viruses to date. Cruciviruses are a novel group of circular Rep-encoding single-stranded DNA (ssDNA) (CRESS-DNA) viruses that encode capsid proteins that are most closely related to those encoded by RNA viruses in the family Tombusviridae The apparent chimeric nature of the two core proteins encoded by crucivirus genomes suggests horizontal gene transfer of capsid genes between DNA and RNA viruses. Here, we identified and characterized 451 new crucivirus genomes and 10 capsid-encoding circular genetic elements through de novo assembly and mining of metagenomic data. These genomes are highly diverse, as demonstrated by sequence comparisons and phylogenetic analysis of subsets of the protein sequences they encode. Most of the variation is reflected in the replication-associated protein (Rep) sequences, and much of the sequence diversity appears to be due to recombination. Our results suggest that recombination tends to occur more frequently among groups of cruciviruses with relatively similar capsid proteins and that the exchange of Rep protein domains between cruciviruses is rarer than intergenic recombination. Additionally, we suggest members of the stramenopiles/alveolates/Rhizaria supergroup as possible crucivirus hosts. Altogether, we provide a comprehensive and descriptive characterization of cruciviruses.IMPORTANCE Viruses are the most abundant biological entities on Earth. In addition to their impact on animal and plant health, viruses have important roles in ecosystem dynamics as well as in the evolution of the biosphere. Circular Rep-encoding single-stranded (CRESS) DNA viruses are ubiquitous in nature, many are agriculturally important, and they appear to have multiple origins from prokaryotic plasmids. A subset of CRESS-DNA viruses, the cruciviruses, have homologues of capsid proteins encoded by RNA viruses. The genetic structure of cruciviruses attests to the transfer of capsid genes between disparate groups of viruses. However, the evolutionary history of cruciviruses is still unclear. By collecting and analyzing cruciviral sequence data, we provide a deeper insight into the evolutionary intricacies of cruciviruses. Our results reveal an unexpected diversity of this virus group, with frequent recombination as an important determinant of variability.

Biotic interactions are an unexpected yet critical control on the complexity of an abiotically driven polar ecosystem.

Abiotic and biotic factors control ecosystem biodiversity, but their relative contributions remain unclear. The ultraoligotrophic ecosystem of the Antarctic Dry Valleys, a simple yet highly heterogeneous ecosystem, is a natural laboratory well-suited for resolving the abiotic and biotic controls of community structure. We undertook a multidisciplinary investigation to capture ecologically relevant biotic and abiotic attributes of more than 500 sites in the Dry Valleys, encompassing observed landscape heterogeneities across more than 200 km2. Using richness of autotrophic and heterotrophic taxa as a proxy for functional complexity, we linked measured variables in a parsimonious yet comprehensive structural equation model that explained significant variations in biological complexity and identified landscape-scale and fine-scale abiotic factors as the primary drivers of diversity. However, the inclusion of linkages among functional groups was essential for constructing the best-fitting model. Our findings support the notion that biotic interactions make crucial contributions even in an extremely simple ecosystem.

Forward-Looking Infrared Cameras for Micrometeorological Applications within Vineyards.

We apply the principles of atmospheric surface layer dynamics within a vineyard canopy to demonstrate the use of forward-looking infrared cameras measuring surface brightness temperature (spectrum bandwidth of 7.5 to 14 µm) at a relatively high temporal rate of 10 s. The temporal surface brightness signal over a few hours of the stable nighttime boundary layer, intermittently interrupted by periods of turbulent heat flux surges, was shown to be related to the observed meteorological measurements by an in situ eddy-covariance system, and reflected the above-canopy wind variability. The infrared raster images were collected and the resultant self-organized spatial cluster provided the meteorological context when compared to in situ data. The spatial brightness temperature pattern was explained in terms of the presence or absence of nighttime cloud cover and down-welling of long-wave radiation and the canopy turbulent heat flux. Time sequential thermography as demonstrated in this research provides positive evidence behind the application of thermal infrared cameras in the domain of micrometeorology, and to enhance our spatial understanding of turbulent eddy interactions with the surface.

Diverse small circular DNA viruses circulating amongst estuarine molluscs.

Our understanding of the diversity and abundance of circular replication associated protein (Rep) - encoding single stranded (CRESS) DNA viruses has increased considerably over the last few years due to a combination of modern sequencing technologies and new molecular tools. Studies have used these to identify and recover CRESS DNA viruses from a range of different marine organisms, including copepods, shrimp and molluscs. In our study we identified 79 novel CRESS DNA viruses from three mollusc species (Austrovenus stutchburyi, Paphies subtriangulata and Amphibola crenata) and benthic sediments from the Avon-Heathcote estuary in Christchurch, New Zealand. The genomes recovered have varying genome architectures, with all encoding at least two major ORFs that have either unidirectional or bidirectional organisation. Analysis of the Reps of the viral genomes showed they are all highly diverse, with only one Rep sequence sharing 65% amino acid identity with the Rep of gastropod-associated circular DNA virus (GaCSV). Our study adds significantly to the wealth of CRESS DNA viruses recovered from freshwater and marine environments and extends our knowledge of the distribution of these viruses.

Identifying hydro-meteorological events from precipitation extremes indices and other sources over northern Namibia, Cuvelai Basin.

Worldwide, more than 40% of all natural hazards and about half of all deaths are the result of flood disasters. In northern Namibia flood disasters have increased dramatically over the past half-century, along with associated economic losses and fatalities. There is a growing concern to identify these extreme precipitation events that result in many hydro-meteorological disasters. This study presents an up to date and broad analysis of the trends of hydro-meteorological events using extreme daily precipitation indices, daily precipitation data from the Grootfontein rainfall station (1917-present), regionally averaged climatologies from the gauged gridded Climate Research Unit (CRU) product, archived disasters by global disaster databases, published disaster events in literature as well as events listed by Mendelsohn, Jarvis and Robertson (2013) for the data-sparse Cuvelai river basin (CRB). The listed events that have many missing data gaps were used to reference and validate results obtained from other sources in this study. A suite of ten climate change extreme precipitation indices derived from daily precipitation data (Grootfontein rainfall station), were calculated and analysed. The results in this study highlighted years that had major hydro-meteorological events during periods where no data are available. Furthermore, the results underlined decrease in both the annual precipitation as well as the annual total wet days of precipitation, whilst it found increases in the longest annual dry spell indicating more extreme dry seasons. These findings can help to improve flood risk management policies by providing timely information on historic hydro-meteorological hazard events that are essential for early warning and forecasting.

Juvenile Osprey Navigation during Trans-Oceanic Migration.

To compensate for drift, an animal migrating through air or sea must be able to navigate. Although some species of bird, fish, insect, mammal, and reptile are capable of drift compensation, our understanding of the spatial reference frame, and associated coordinate space, in which these navigational behaviors occur remains limited. Using high resolution satellite-monitored GPS track data, we show that juvenile ospreys (Pandion haliaetus) are capable of non-stop constant course movements over open ocean spanning distances in excess of 1500 km despite the perturbing effects of winds and the lack of obvious landmarks. These results are best explained by extreme navigational precision in an exogenous spatio-temporal reference frame, such as positional orientation relative to Earth's magnetic field and pacing relative to an exogenous mechanism of keeping time. Given the age (<1 year-old) of these birds and knowledge of their hatching site locations, we were able to transform Enhanced Magnetic Model coordinate locations such that the origin of the magnetic coordinate space corresponded with each bird's nest. Our analyses show that trans-oceanic juvenile osprey movements are consistent with bicoordinate positional orientation in transformed magnetic coordinate or geographic space. Through integration of movement and meteorological data, we propose a new theoretical framework, chord and clock navigation, capable of explaining the precise spatial orientation and temporal pacing performed by juvenile ospreys during their long-distance migrations over open ocean.

Diverse small circular single-stranded DNA viruses identified in a freshwater pond on the McMurdo Ice Shelf (Antarctica).

Antarctica has some of the harshest environmental conditions for existence of life on Earth. In this pilot study we recovered eight diverse circular single-stranded DNA (ssDNA) viral genome sequences (1904-3120 nts) from benthic mats dominated by filamentous cyanobacteria in a freshwater pond on the McMurdo Ice Shelf sampled in 1988. All genomes contain two to three major open reading frames (ORFs) that are uni- or bi-directionally transcribed and all have an ORF encoding a replication-associated protein (Rep). In one genome, the second ORF has similarity to a capsid protein (CP) of Nepavirus which is most closely related to geminiviruses. Additionally, all genomes have two intergenic regions that contain putative stem loop structures, six genomes have NANTATTAC as the nonanucleotide motif, while one has CCTTATTAC, and another has a non-canonical stem loop. In the large intergenic region, we identified iterative sequences flanking the putative stem-loop elements which are a hallmark of most circular ssDNA viruses encoding rolling circle replication (RCR) initiators of the HUH endonuclease superfamily. The Reps encoded by ssDNA viral genomes recovered in this study shared <38% pairwise identity to all other Reps of known ssDNA viruses. A previous study on Lake Limnopolar (Livingston Island, South Shetland Islands), using next-generation sequencing identified circular ssDNA viruses and their putative Reps share <35% pairwise identity to those from the viral genomes removed in this study. It is evident from our pilot study that the global diversity of ssDNA viruses is grossly underestimated and there is limited knowledge on ssDNA viruses in Antarctica.

Accuracy assessment of land surface temperature retrievals from Landsat 7 ETM + in the Dry Valleys of Antarctica using iButton temperature loggers and weather station data.

The McMurdo Dry Valleys of Antarctica are the largest snow/ice-free regions on this vast continent, comprising 1% of the land mass. Due to harsh environmental conditions, the valleys are bereft of any vegetation. Land surface temperature is a key determinate of microclimate and a driver for sensible and latent heat fluxes of the surface. The Dry Valleys have been the focus of ecological studies as they arguably provide the simplest trophic structure suitable for modelling. In this paper, we employ a validation method for land surface temperatures obtained from Landsat 7 ETM + imagery and compared with in situ land surface temperature data collected from four transects totalling 45 iButtons. A single meteorological station was used to obtain a better understanding of daily and seasonal cycles in land surface temperatures. Results show a good agreement between the iButton and the Landsat 7 ETM + product for clear sky cases. We conclude that Landsat 7 ETM + derived land surface temperatures can be used at broad spatial scales for ecological and meteorological research.

Airborne bacterial populations above desert soils of the McMurdo Dry Valleys, Antarctica.

Bacteria are assumed to disperse widely via aerosolized transport due to their small size and resilience. The question of microbial endemicity in isolated populations is directly related to the level of airborne exogenous inputs, yet this has proven hard to identify. The ice-free terrestrial ecosystem of Antarctica, a geographically and climatically isolated continent, was used to interrogate microbial bio-aerosols in relation to the surrounding ecology and climate. High-throughput sequencing of bacterial ribosomal RNA (rRNA) genes was combined with analyses of climate patterns during an austral summer. In general terms, the aerosols were dominated by Firmicutes, whereas surrounding soils supported Actinobacteria-dominated communities. The most abundant taxa were also common to aerosols from other continents, suggesting that a distinct bio-aerosol community is widely dispersed. No evidence for significant marine input to bioaerosols was found at this maritime valley site, instead local influence was largely from nearby volcanic sources. Back trajectory analysis revealed transport of incoming regional air masses across the Antarctic Plateau, and this is envisaged as a strong selective force. It is postulated that local soil microbial dispersal occurs largely via stochastic mobilization of mineral soil particulates.

Discovery of Sclerotinia sclerotiorum Hypovirulence-Associated Virus-1 in Urban River Sediments of Heathcote and Styx Rivers in Christchurch City, New Zealand.

In samples of benthic and bank river sediments of two urban rivers in Christchurch city (New Zealand), we identified and recovered isolates of Sclerotinia sclerotiorum hypovirulence-associated virus-1 (SsHADV-1), a fungus-infecting circular single-stranded DNA virus. This is the first report of SsHADV-1 outside of China and in environmental samples.

Identification of Starling Circovirus in an Estuarine Mollusc (Amphibola crenata) in New Zealand Using Metagenomic Approaches.

Two complete genomes of starling circovirus (StCV) were recovered from Amphibola crenata, an estuarine New Zealand mollusc. This is the first report of StCV outside Europe. The viral genomes were recovered from rolling circle-amplified enriched circular DNA followed by back-to-back primers and specific primer PCR amplification.

Novel ssDNA virus recovered from estuarine Mollusc (Amphibola crenata) whose replication associated protein (Rep) shares similarities with Rep-like sequences of bacterial origin.

Over the past couple of years highly diverse novel ssDNA viruses have been discovered. Here, we present the first ssDNA virus, Gastropod-associated circular ssDNA virus (GaCSV), recovered from a mollusc Amphibola crenata Martyn 1784, which is a deposit feeder that grazes micro-organisms and organic detritus on the surface of tidal mudflats. The GaCSV (2351 nt) genome contains two large bidirectionally transcribed ORFs. The smaller ORF (874 nt) has similarities to viral replication-associated protein (Rep) sequences of some bacteria and circoviruses, whereas the larger ORF (955 nt) does not relate to any sequences in public databases and we presume it potentially encodes the capsid protein. Phylogenetic analysis shows that the GaCSV Rep clusters with Rep-like sequences of bacterial origin, highlighting the role of ssDNA viruses in horizontal gene transfer. The occurrence of previously unknown viruses in organisms associated with human pollution is a relatively unexplored field.

Selecting optimal monitoring site locations for peak ambient particulate material concentrations using the MM5-CAMx4 numerical modelling system.

Installation of temporary or long term monitoring sites is expensive, so it is important to rationally identify potential locations that will achieve the requirements of regional air quality management strategies. A simple, but effective, numerical approach to selecting ambient particulate matter (PM) monitoring site locations has therefore been developed using the MM5-CAMx4 air pollution dispersion modelling system. A new method, 'site efficiency,' was developed to assess the ability of any monitoring site to provide peak ambient air pollution concentrations that are representative of the urban area. 'Site efficiency' varies from 0 to 100%, with the latter representing the most representative site location for monitoring peak PM concentrations. Four heavy pollution episodes in Christchurch (New Zealand) during winter 2005, representing 4 different aerosol dispersion patterns, were used to develop and test this site assessment technique. Evaluation of the efficiency of monitoring sites was undertaken for night and morning aerosol peaks for 4 different particulate material (PM) spatial patterns. The results demonstrate that the existing long term monitoring site at Coles Place is quite well located, with a site efficiency value of 57.8%. A temporary ambient PM monitoring site (operating during winter 2006) showed a lower ability to capture night and morning peak aerosol concentrations. Evaluation of multiple site locations used during an extensive field campaign in Christchurch (New Zealand) in 2000 indicated that the maximum efficiency achieved by any site in the city would be 60-65%, while the efficiency of a virtual background site is calculated to be about 7%. This method of assessing the appropriateness of any potential monitoring site can be used to optimize monitoring site locations for any air pollution measurement programme.

Improvement of predicted fine and total particulate matter (PM) composition by applying several different chemical scenarios: a winter 2005 case study.

A new method using several different chemical scenarios is developed to predict chemical composition of fine (PM2.5) and total (PM10) aerosol. This method improves the accuracy of predicted PM concentrations. The Mesoscale Model version 5 (MM5) and a 3-dimensional Eulerian chemical model (CAMx4.2) are used to predict PM2.5 and PM10 concentrations using gridded input emissions (from the "Total" group) over a 48-72 h time period for Christchurch (New Zealand) for winter 2005. The aerosol concentrations are obtained for four different chemical compositions (chemical scenarios) of the input aerosol emissions. PM2.5 chemical compositions are based on previous Christchurch winter studies and from observations in other countries with similar winter pollution problems, and used in CAMx4.2 to model seven winter 2005 heavy pollution episodes. The error between observed and modelled PM2.5 concentrations is based on predictions of fine aerosol that are derived from linear regression with PM10. It is used to find the minimum difference between modelled and observed PM2.5 for an observation site located in the Christchurch residential area. Combination of the chemical scenarios with analysis of the minimum error is used to create a new complex chemical scenario. The new complex scenario is used to re-calculate all pollution episodes to obtain new values of PM with minimum error compared with observed aerosol concentrations. Mean Absolute Error of the calculated PM2.5 (for all pollution episodes) decreased from 21-24 microg m(-3) to 14-16 microg m(-3) compared with observations. The chemical composition of the modelled PM2.5 is also discussed.

Evaluation of a year-long dispersion modelling of PM10 using the mesoscale model TAPM for Christchurch, New Zealand.

This paper examines the utility of The Air Pollution Model (TAPM; version 2) in simulating meteorology and dispersion of PM(10) for 1999 over the coastal city of Christchurch, New Zealand. Christchurch usually experiences severe degradation in air quality during austral winter. The formation of a nocturnal inversion layer and the emissions of particulate matter (PM(10)) mainly from solid fuel home heating appliances lead to severe smog episodes on an average of 30 nights during winter. The complex local topography surrounding the city in combination with influences from the urban areas can produce complicated boundary layer winds during quiescent weather. Simulated PM(10) data are used for construction of annual exposure maps for the urban areas in order to assess the health impact of air pollutants due to chronic exposure (presented in an accompanying paper). Meteorology and PM(10) dispersion results are statistically compared with the only permanent air pollution monitoring station available in order to evaluate the model's performance. Statistical measures such as the Index of Agreement (IOA) between modelled and measured data indicate that the model performs well. IOA is greater than 0.6 for meteorological variables, and various calculated skill scores place confidence in the model's performance. However, TAPM has a tendency to overestimate surface wind speed over urban areas during stagnant nocturnal conditions, resulting in quick flushing of pollutants.