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Article Reference QWIP: A Quantitative Metric for Quality Control of Aquatic Reflectance Spectral Shape Using the Apparent Visible Wavelength
The colors of the ocean and inland waters span clear blue to turbid brown, and the corresponding spectral shapes of the water-leaving signal are diverse depending on the various types and concentrations of phytoplankton, sediment, detritus and colored dissolved organic matter. Here we present a simple metric developed from a global dataset spanning blue, green and brown water types to assess the quality of a measured or derived aquatic spectrum. The Quality Water Index Polynomial (QWIP) is founded on the Apparent Visible Wavelength (AVW), a one-dimensional geophysical metric of color that is inherently correlated to spectral shape calculated as a weighted harmonic mean across visible wavelengths. The QWIP represents a polynomial relationship between the hyperspectral AVW and a Normalized Difference Index (NDI) using red and green wavelengths. The QWIP score represents the difference between a spectrum’s AVW and NDI and the QWIP polynomial. The approach is tested extensively with both raw and quality controlled field data to identify spectra that fall outside the general trends observed in aquatic optics. For example, QWIP scores less than or greater than 0.2 would fail an initial screening and be subject to additional quality control. Common outliers tend to have spectral features related to: 1) incorrect removal of surface reflected skylight or 2) optically shallow water. The approach was applied to hyperspectral imagery from the Hyperspectral Imager for the Coastal Ocean (HICO), as well as to multispectral imagery from the Visual Infrared Imaging Radiometer Suite (VIIRS) using sensor-specific extrapolations to approximate AVW. This simple approach can be rapidly implemented in ocean color processing chains to provide a level of uncertainty about a measured or retrieved spectrum and flag questionable or unusual spectra for further analysis.
Located in Library / RBINS Staff Publications 2022
Article Reference Assessment of PRISMA water reflectance using autonomous hyperspectral radiometry
Hyperspectral remote sensing reflectance (Rrs) derived from PRISMA in the visible and infrared range was evaluated for two inland and coastal water sites using above-water in situ reflectance measurements from autonomous hyper- and multispectral radiometer systems. We compared the Level 2D (L2D) surface reflectance, a standard product distributed by the Italian Space Agency (ASI), as well as outputs from ACOLITE/DSF, now adapted for processing of PRISMA imagery. Near-coincident Sentinel-3 OLCI (S3/OLCI) observations were also compared as it is a frequent data source for inland and coastal water remote sensing applications, with a strong calibration and validation record. In situ measurements from two optically diverse sites in Italy, equipped with fixed autonomous hyperspectral radiometer systems, were used: the REmote Sensing for Trasimeno lake Observatory (RESTO), positioned in a shallow and turbid lake in Central Italy, and the Acqua Alta Oceanographic Tower (AAOT), located 15 km offshore from the lagoon of Venice in the Adriatic Sea, which is characterised by clear to moderately turbid waters. 20 PRISMA images were available for the match-up analysis across both sites. Good performance of L2D was found for RESTO, with the lowest relative (Mean Absolute Percentage Difference, MAPD  25\%) and absolute errors (Bias  0.002) in the bands between 500 and 680 nm, with similar performance for ACOLITE. The lowest median and interquartile ranges of spectral angle (SA  8°) denoted a more similar shape to the RESTO in situ data, indicating pigment absorption retrievals should be possible. ACOLITE showed better statistical performance at AAOT compared to L2D, providing R2  0.5, Bias  0.0015 and MAPD  35\%, in the range between 470 and 580 nm, i.e. in the spectral range with highest reflectances. The addition of a SWIR based sun-glint correction to the default atmospheric correction implemented in ACOLITE further improved performance at AAOT, with lower uncertainties and closer spectral similarity to the in situ measurements, suggesting that ACOLITE with glint correction was able to best reproduce the spectral shape of in situ data at AAOT. We found good results for PRISMA Rrs retrieval in our study sites, and hence demonstrated the use of PRISMA for aquatic ecosystem mapping. Further studies are needed to analyse performance in other water bodies, over a wider range of optical properties.
Located in Library / RBINS Staff Publications 2022
Inbook Reference Irish-type deposits in Tunisia: a new perspective to assign the Pb-Zn deposits of the Nefza District
Located in Library / RBINS Staff Publications 2023
Article Reference Mise au jour d’une nouvelle partie de la collection de François Beaufays (dit « l’Horloger ») contenant des vestiges humains de Spy (Prov. de Namur, BE)
Located in Library / RBINS Staff Publications 2023 OA
Article Reference First report in the fossil record of a shark tooth embedded in a pinniped bone
Located in Library / RBINS Staff Publications 2023
Article Reference A new monachine seal (Monachinae, Phocidae, Mammalia) from the Miocene of Cerro La Bruja (Ica department, Peru)
Located in Library / RBINS Staff Publications 2023
Article Reference The 10,000-year biocultural history of fallow deer and its implications for conservation policy
Over the last 10,000 y, humans have manipulated fallow deer populations with varying outcomes. Persian fallow deer (Dama mesopotamica) are now endangered. European fallow deer (Dama dama) are globally widespread and are simultaneously considered wild, domestic, endangered, invasive and are even the national animal of Barbuda and Antigua. Despite their close association with people, there is no consensus regarding their natural ranges or the timing and circumstances of their human-mediated translocations and extirpations. Our mitochondrial analyses of modern and archaeological specimens revealed two distinct clades of European fallow deer present in Anatolia and the Balkans. Zooarchaeological evidence suggests these regions were their sole glacial refugia. By combining biomolecular analyses with archaeological and textual evidence, we chart the declining distribution of Persian fallow deer and demonstrate that humans repeatedly translocated European fallow deer, sourced from the most geographically distant populations. Deer taken to Neolithic Chios and Rhodes derived not from nearby Anatolia, but from the Balkans. Though fallow deer were translocated throughout the Mediterranean as part of their association with the Greco-Roman goddesses Artemis and Diana, deer taken to Roman Mallorca were not locally available Dama dama, but Dama mesopotamica. Romans also initially introduced fallow deer to Northern Europe but the species became extinct and was reintroduced in the medieval period, this time from Anatolia. European colonial powers then transported deer populations across the globe. The biocultural histories of fallow deer challenge preconceptions about the divisions between wild and domestic species and provide information that should underpin modern management strategies.
Located in Library / RBINS Staff Publications 2023
Article Reference Ancient and modern DNA track temporal and spatial population dynamics in the European fallow deer since the Eeemian interglacial
Anthropogenic factors have impacted the diversity and evolutionary trajectory of various species. This can be through factors such as pressure on population size or range, habitat fragmentation, or extensive manipulation and translocation. Here we use time-calibrated data to better understand the pattern and processes of evolution in the heavily manipulated European fallow deer (Dama dama). During the Pleistocene, fallow deer had a broad distribution across Europe and were found as far north as Britain during the Eemian interglacial. The last glacial period saw fallow deer retreat to southern refugia and they did not disperse north afterwards. Their recolonisation was mediated by people and, from northern Europe and the British Isles, fallow deer were transported around the world. We use ancient and modern mitochondrial DNA (mtDNA) and mitogenomic data from Eemian Britain to assess the pattern of change in distribution and lineage structure across Europe over time. We find founder effects and mixed lineages in the northern populations, and stability over time for populations in southern Europe. The Eemian sample was most similar to a lineage currently in Italy, suggesting an early establishment of the relevant refuge. We consider the implications for the integration of anthropogenic and natural processes towards a better understanding of the evolution of fallow deer in Europe.
Located in Library / RBINS Staff Publications 2023
Article Reference Microbiomes of aquatic animals
Located in Library / RBINS Staff Publications 2023
Article Reference Sedimentary evidence of the Late Holocene tsunami in the Shetland Islands (UK) at Loch Flugarth, northern Mainland
Tsunami deposits around the North Sea basin are needed to assess the long-term hazard of tsunamis. Here, we present sedimentary evidence of the youngest tsunami on the Shetland Islands from Loch Flugarth, a coastal lake on northern Mainland. Three gravity cores show organic-rich background sedimentation with many sub-centimetre-scale sand layers, reflecting recurring storm overwash and a sediment source limited to the active beach and uppermost subtidal zone. A basal 13-cm-thick sand layer, dated to 426–787 cal. a CE based on 14C, 137Cs and Bayesian age–depth modelling, was found in all cores. High-resolution grain-size analysis identified four normally graded or massive sublayers with inversely graded traction carpets at the base of two sublayers. A thin organic-rich ‘mud’ drape and a ‘mud’ cap cover the two uppermost sublayers, which also contain small rip-up clasts. Grain-size distributions show a difference between the basal sand layer and the coarser and better sorted storm layers above. Multivariate statistical analysis of X-ray fluorescence core scanning data also distinguishes both sand units: Zr, Fe and Ti dominate the thick basal sand, while the thin storm layers are high in K and Si. Enriched Zr and Ti in the basal sand layer, in combination with increased magnetic susceptibility, may be related to higher heavy mineral content reflecting an additional marine sediment source below the storm-wave base that is activated by a tsunami. Based on reinterpretation of chronological data from two different published sites and the chronostratigraphy of the present study, the tsunami seems to date to c. 1400 cal. a BP. Although the source of the tsunami remains unclear, the lack of evidence for this event outside of the Shetland Islands suggests that it had a local source and was smaller than the older Storegga tsunami (8.15 cal. ka BP), which affected most of the North Sea basin.
Located in Library / RBINS Staff Publications 2023