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Novel Virus Discovery and Genome Reconstruction from Field RNA Samples Reveals Highly Divergent Viruses in Dipteran Hosts
Get PDFTimes Cited: 0 0 Import from WoS only - CL not assigned grouping, NHM authors etc.We investigated whether small RNA (sRNA) sequenced from field-collected mosquitoes and chironomids (Diptera) can be used as a proxy signature of viral prevalence within a range of species and viral groups, using sRNAs sequenced from wild-caught specimens, to inform total RNA deep sequencing of samples of particular interest. Using this strategy, we sequenced from adult Anopheles maculipennis s.l. mosquitoes the apparently nearly complete genome of one previously undescribed virus related to chronic bee paralysis virus, and, from a pool of Ochlerotatus caspius and Oc. detritus mosquitoes, a nearly complete entomobirnavirus genome. We also reconstructed long sequences (1503-6557 nt) related to at least nine other viruses. Crucially, several of the sequences detected were reconstructed from host organisms highly divergent from those in which related viruses have been previously isolated or discovered. It is clear that viral transmission and maintenance cycles in nature are likely to be significantly more complex and taxonomically diverse than previously expected.© 2013 Cook et al. This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.NHM Repositor
Plastics in regurgitated Flesh-footed Shearwater (Ardenna carneipes) boluses as a monitoring tool
Get PDFPlastic production and pollution of the environment with plastic items is rising rapidly and outpacing current mitigation measures. Success of mitigation actions can only be determined if progress can be measured reliably through incorporation of specific, measurable targets. Here we evaluate temporal changes in the amount and composition of plastic in boluses from Flesh-footed Shearwaters during 2002-2020 and assess their suitability for measuring progress against national and international commitments to reduce plastic pollution. Plastic in the shearwater boluses showed a generally decreasing pattern from 2002 to 2015 and increasing again to 2020. The colour and type of plastics in boluses was comparable to items recovered from live and necropsied birds, but a much smaller sample size (~35 boluses/year) was required to detect changes in plastic number and mass over time. We therefore suggest shearwater boluses are a low-effort, high-statistical power monitoring tool for quantifying progress against environmental policies in Australia.Copyright © 2021, The Authors. This document is the author’s final accepted version of the journal article. You are advised to consult the published version if you wish to cite from it.NHM Repositor
Prediction of shoreline–shelf depositional process regime guided by palaeotidal modelling
Get PDFAncient shoreline–shelf depositional systems are influenced by an unusually wide array of geological, biological and hydrodynamic processes, with sediment transport and deposition primarily determined by the interaction of river, wave (including storm) and tidal processes, and changes in relative sea level. Understanding the impact of these processes on shoreline–shelf morphodynamics and stratigraphic preservation remains challenging. Numerical modelling integrated with traditional facies analysis provides an increasingly viable approach, with the potential to quantify, and thereby improve understanding of, the impact of these complex coastal sedimentary processes. An integrated approach is presented here that focuses on palaeotidal modelling to investigate the controls on ancient tides and their influence on sedimentary deposition and preservation – one of the three cornerstones of the ternary process classification scheme of shoreline-shelf systems. Numerical tidal modelling methodology is reviewed and illustrated in three palaeotidal model case studies of different scales and focus. The results are synthesised in the context of shoreline–shelf processes, including a critique and modification of the process-based classification scheme.
The emphasis on tidal processes reflects their global importance throughout Earth’s history. Ancient palaeotidal models are able to highlight and quantify the following four controls on tidal processes: (1) the physiography (shape and depth) of oceans (1000s km scale) determines the degree of tidal resonance; (2) the physiography of ocean connections to partly enclosed water bodies (100–1000s km scale) determines the regional-scale flux of tidal energy (inflow versus outflow); (3) the physiography of continental shelves influences shelf tidal resonance potential; and (4) tides in relatively local-scale embayments (typically 1–10s km scale) are influenced by the balance of tidal amplification due to funnelling, shoaling and resonance effects versus frictional damping. In deep time, palaeogeographic and palaeobathymetric uncertainty can be accounted for in palaeotidal models by performing sensitivity analyses to different scenarios, across this range of spatial scales.
These tidal process controls are incorporated into an updated predictive decision tree for determining shoreline–shelf process regime in terms of the relative interaction of wave, fluvial and tidal processes. The predictive decision tree considers the effects of basin physiography, shelf width and shoreline morphology on wave, fluvial and tidal processes separately. Uncertainty and ambiguity in applying the widely used three-tier process classification scheme are reduced by using the decision tree in conjunction with a proposed two-tier classification of process regime that is limited to primary and secondary processes. This two-tier classification scheme is illustrated in the three case studies, showing how integration of numerical modelling with facies analysis of the preserved stratigraphic record improves confidence in prediction of tide-influenced shoreline-shelf process regimes. Wider application of this approach will further improve process-based classifications and predictions of modern and ancient shoreline–shelf systems.Copyright © 2021, Collins, D et al. This document is the author’s accepted version of the journal article. You are advised to consult the published version if you wish to cite from it.NHM Repositor
Formation binning: a new method for increased temporal resolution in regional studies, applied to the Late Cretaceous dinosaur fossil record of North America
No full textThe advent of palaeontological occurrence databases has allowed for detailed reconstruction and analyses of species richness through deep time. While a substantial literature has evolved ensuring that taxa are fairly counted within and between different time periods, how time itself is divided has received less attention. Stage-level or equal-interval age bins have frequently been used for regional and global studies in vertebrate palaeontology. However, when assessing diversity at a regional scale, these resolutions can prove inappropriate with the available data. Herein, we propose a new method of binning geological time for regional studies that intrinsically incorporates the chronostratigraphic heterogeneity of different rock formations to generate unique stratigraphic bins. We use this method to investigate the diversity dynamics of dinosaurs from the Late Cretaceous of the Western Interior of North America prior to the Cretaceous–Palaeogene mass extinction. Increased resolution through formation binning pinpoints the Maastrichtian diversity decline to between 68 and 66 Ma, coinciding with the retreat of the Western Interior Seaway. Diversity curves are shown to exhibit volatile patterns using different binning methods, supporting claims that heterogeneous biases in this time-frame affect the pre-extinction palaeobiological record. We also show that the apparent high endemicity of dinosaurs in the Campanian is a result of non-contemporaneous geological units within large time bins. This study helps to illustrate the utility of high-resolution, regional studies to supplement our understanding of factors governing global diversity in deep time and ultimately how geology is inherently tied to our understanding of past changes in species richness.This is an open access article, available to all readers online, published under a creative commons licensing (https://creativecommons.org/licenses/by/4.0/).NHM Repositor
Aquatic Habits and Niche Partitioning in the Extraordinarily Long-Necked Triassic Reptile Tanystropheus
Get PDFTanystropheus longobardicus is one of the most remarkable and iconic Triassic reptiles. Mainly known from the Middle Triassic conservation Lagerstätte of Monte San Giorgio on the Swiss-Italian border, it is characterized by an extraordinarily long and stiffened neck that is almost three times the length of the trunk, despite being composed of only 13 hyper-elongate cervical vertebrae [1-8]. Its paleobiology remains contentious, with both aquatic and terrestrial lifestyles having been proposed [1, 9-12]. Among the Tanystropheus specimens, a small morphotype bearing tricuspid teeth and a large morphotype bearing single-cusped teeth can be recognized, historically considered as juveniles and adults of the same species [4]. Using high-resolution synchrotron radiation microtomography (SRμCT), we three-dimensionally reconstruct a virtually complete but disarticulated skull of the large morphotype, including its endocast and inner ear, to reveal its morphology for the first time. The skull is specialized toward hunting in an aquatic environment, indicated by the placement of the nares on the top of the snout and a "fish-trap"-type dentition. The SRμCT data and limb bone paleohistology reveal that the large morphotype represents a separate species (Tanystropheus hydroides sp. nov.). Skeletochronology of the small morphotype specimens indicates that they are skeletally mature despite their small size, thus representing adult individuals of Tanystropheus longobardicus. The co-occurrence of these two species of disparate size ranges and dentitions provides strong evidence for niche partitioning, highlighting the surprising versatility of the Tanystropheus bauplan and the complexity of Middle Triassic nearshore ecosystems.© 2020 Elsevier Inc. The attached document is the author(’s’) final accepted/submitted version of the journal article. You are advised to consult the publisher’s version if you wish to cite from it.NHM Repositor
Clarifying collection details of specimens from Champion Bay, Western Australia, held in the Natural History Museum, Tring
Get PDFSix bird specimens from Champion Bay (now Geraldton), Western
Australia, were purchased by the British Museum from the dealer E. T. Higgins
and registered in 1867. They included the first known specimen of Painted Finch
Emblema pictum to have been collected after the holotype. All six specimens are of
interest because their species are either rare or otherwise unknown in the Geraldton
area. Widespread drought in the 1860s probably contributed to at least some of the
unusual occurrences but cannot explain them all. Possible alternative locations
for the specimens’ origins are investigated. Biographical details of the probable
collectors of the specimens, A. H. du Boulay and F. H. du Boulay, are explored.© British Ornithologists’ Club 2016 This is an open access article, available to all readers online. The attached file is the published version of the article.NHM Repositor
Flying too close to the Sun – The viability of perihelion-induced aqueous alteration on periodic comets
Get PDFComets are typically considered to be pristine remnants of the early solar system. However, by definition they evolve significantly over their lifetimes through evaporation, sublimation, degassing and dust release. This occurs once they enter the inner solar system and are heated by the Sun. Some comets (e.g. 1P/Halley, 9P/Tempel and Hale-Bopp) as well as chondritic porous cosmic dust – released from comets – show evidence of minor aqueous alteration resulting in the formation of phyllosilicates, carbonates or other secondary phases (e.g. Cu-sulphides, amphibole and magnetite). These observations suggest that (at least some) comets experienced limited interaction with liquid water under conditions distinct from the alteration histories of hydrated chondritic asteroids (e.g. the CM and CR chondrites).
This synthesis paper explores the viability of perihelion-induced heating as a mechanism for the generation of highly localised subsurface liquid water and thus mild aqueous alteration in periodic comets. We draw constraints from experimental laboratory studies, numerical modelling, spacecraft observations and microanalysis studies of cometary micrometeorites. Both temperature and pressure conditions necessary for the generation and short-term (hour-long) survival of liquid water are plausible within the immediate subsurface (<0.5m depth) of periodic comets with small perihelia (<1.5 A.U.), low surface permeabilities and favourable rotational states (e.g. high obliquities and/or slow rotational periods). We estimate that solar radiant heating may generate liquid water and perform aqueous alteration reactions in 3-9% of periodic comets. An example of an ideal candidate is 2P/Encke which has a small perihelion (0.33 A.U.), a high obliquity and a short orbital period. This comet should therefore be considered a high priority candidate in future spectroscopic studies of comet surfaces. Small quantities of phyllosilicate generated by aqueous alteration may be important in cementing together grains in the subsurface of older dormant comets, thereby explaining observations of unexpectedly high tensile strength in some bodies.
Most periodic comets which currently pass close to the Sun are dormant, having experienced surface heating, significant cometary activity and dust release in the past. These bodies may be responsible for the partially hydrated cometary micrometeorites we find at the Earth’s surface and their aqueous alteration histories may have been produced by perihelion-induced subsurface heating. This is in contrast to radiogenic and impact heating that operated during the early solar system on asteroids. This study has implications for the alteration history of the active asteroid Phaethon, the target of JAXA’s DESTINY+ mission.Copyright: © 2020 Suttle et al. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. The attached document is the authors’ final accepted/submitted version of the journal article. You are advised to consult the publisher’s version if you wish to cite from it.’NHM Repositor
Hydrothermal activity on the CV parent body: New perspectives from the giant Transantarctic Mountains minimeteorite TAM 5.29
Get PDFdoi: 10.1111/maps.13429Abstract TAM5.29 is an extraterrestrial dust grain, collected on the Transantarctic Mountains (TAM). Its mineralogy is dominated by an Fe-rich matrix composed of platy fayalitic olivines and clasts of andradite surrounded by diopside-jarosite mantles; chondrules are absent. TAM5.29 records a complex geological history with evidence of extensive thermal metamorphism in the presence of fluids at T < 300 °C. Alteration was terminated by an impact, resulting in shock melt veins and compaction-orientated foliation of olivine. A second episode of alteration at lower temperatures (<100 °C) occurred postimpact and is either parent body or terrestrial in origin and resulted in the formation of iddingsite. The lack of chondrules is explained by random subsampling of the parent body, with TAM5.29 representing a matrix-only fragment. On the basis of bulk chemical composition, mineralogy, and geological history TAM5.29 demonstrates affinities to the CVox group with a mineralogical assemblage in between the Allende-like and Bali-like subgroups (CVoxA and TAM5.29 are rich in andradite, magnetite, and FeNiS, but CVoxA lacks hydrated minerals, common in TAM5.29; conversely, CVoxB are rich in hydrated phyllosilicates but contain almost pure fayalite, not found in TAM5.29). In addition, TAM5.29 has a slightly different metasomatic history, in between the oxidized and reduced CV metamorphic grades while also recording higher oxidizing conditions as compared to the known CV chondrites. This study represents the third CV-like cosmic dust particle, containing a unique composition, mineralogy, and fabric, demonstrating variation in the thermal metamorphic history of the CV parent body(-ies).Copyright © 2020, Nava, J. et al. This document is the authors' final accepted version of the journal article. You are advised to consult the published version if you wish to cite from it.NHM Repositor
Morphological evolution in Hyles Hübner, 1819 hawkmoths (Lepidoptera, Sphingidae): reconstructing the ancestral Hyles habitus
No full textMolecular phylogenetic studies suggest that similar wing and body patterns in the hawkmoth genus Hyles Hübner, [1819] do not necessarily reflect a close phylogenetic relationship. To improve our understanding of morphological evolution in these organisms, 75 characters derived from the external adult morphology are explicitly coded and analysed in a maximum parsimony cladistic framework. The results corroborate the hypothesis that wing and body patterns have indeed reappeared in different parts of the phylogeny but the underlying genetic mechanism remains to be determined. By reconstructing the suite of ancestral states of the morphological characters using Bayesian inference, we derived an approximation of the appearance of the proto-Hyles species. The overall habitus of this moth does not display a combination of characters found in any extant Hyles species. Rather, the forewings are most like those of members of the Hyles euphorbiae - complex but with better developed antemedial and postmedial lines, the hindwings are typical Hyles, and the abdominal pattern most closely resembles that of Hyles euphorbiarum (Guérin-Méneville & Percheron, 1835), but with one fewer pairs of black subdorsal patches. Within the context of the subtribe Choerocampina and Sphingidae more generally, the proto-Hyles reconstruction does not resemble any other species apart from Rhodafra opheltes (Cramer, 1780), but this appears to be another instance of convergent pattern expression.This is an open access article, available to all readers online, published under a creative commons licensing (https://creativecommons.org/licenses/by/4.0/). The attached file is the published version of the article.NHM Repositor
iCollections methodology: workflow, results and lessons learned
No full textThe Natural History Museum, London (NHMUK) has embarked on an ambitious programme to digitise its collections. The first phase of this programme was to undertake a series of pilot projects to develop the workflows and infrastructure needed to support mass digitisation of very large scientific collections. This paper presents the results of one of the pilot projects – iCollections. This project digitised all the lepidopteran specimens usually considered as butterflies, 181,545 specimens representing 89 species from the British Isles and Ireland. The data digitised includes, species name, georeferenced location, collector and collection date - the what, where, who and when of specimen data. In addition, a digital image of each specimen was taken. A previous paper explained the way the data were obtained and the background to the collections that made up the project. The present paper describes the technical, logistical, and economic aspects of managing the project.This is an open access article, available to all readers online, published under a creative commons licensing (https://creativecommons.org/licenses/by/4.0/). The attached file is the published version of the article.NHM Repositor