Population genetic history of the British roe deer (Capreolus capreolus) and its implications for diversity and fitness

The first part of this study examined post glacial recolonisation by UK roe. Previous studies established three main roe deer lineages exist across Europe: a western (Iberian Peninsula), an eastern (Balkan region) and a central lineage (which spans across central Europe). It was unknown which group British roe deer populations belonged. Using a 419 bp region of the mt-DNA d-loop (HVR1) amplified from ancient and modern UK samples a direct comparison was made with previously published European data. Results showed that UK populations belong to the central lineage, indicating a post glacial re-colonisation that is likely to have occurred via an eastern route. The estimation of a substitution rate, which was applied to coalescent based methods, detected a signal for divergence of UK roe from continental roe at 5,600 YBP (HPD 3,500 - 11, 200 YBP), not long after the proposed date for the land bridge split (7,500 YBP). Since post glacial re-colonisation, roe were known to have undergone severe fluctuations in population size. Perhaps the most significant fluctuation began during the medieval period, when roe suffered severe declines (bottlenecking) due to over hunting and deforestation. These declines were so severe that, by the 16th century, roe were believed to have been extirpated (locally extinct) from all southern areas of UK and considered scarce in northern areas. However, by the 19th century roe began to recover. Recovery in the south may have resulted solely from re-introductions (involving both native and non-native stocks) whilst, in the north, recovery resulted from natural re-colonisation from remnant native stocks. The second part of this study investigated the impacts of this more recent history. This was first investigated using a 750 bp of the mt-DNA d loop region (HVR), 16 microsatellite loci and 18 skull traits from modern roe from across the UK to examine structure and diversity. Results based on both DNA and morphology revealed strong differentiation. Northern roe appeared least impacted by recent events; maintaining patterns of isolation by distance (IBD) and high genetic diversity (compared to southern populations). In contrast, southern roe appeared more strongly impacted by recent events; in particular, IBD was non-significant (although this may have been due to a sample size effect) and genetic diversity was lower (compared to northern populations). The roe re-introduction records indicated that the south western population was native in origin (Perthshire). Genetic data showed that this population was, however, highly differentiated from its proposed source; which could reflect the powerful impact of genetic drift resulting from small founder populations. Alternatively, it may be that the ancestry of the south western population is more complex than previously assumed. For the other southern population (Norfolk), re-introduction records indicate a non-native (German) origin. In line with this, both genetic and morphological data implied that these roe were highly distinct. The impacts of bottlenecks (including medieval declines and founder events) on roe populations were also examined. Bottleneck analyses examined ‘signatures’ in modern populations based on 16 microsatellites. The strongest evidence of bottlenecking was detected in the Norfolk population, consistent with the small founder group size introduced into this location relatively recently. For the other populations bottleneck signatures tended to be weak and non-significant. Direct comparisons of ancient (pre-bottleneck) and modern (post –bottleneck) populations were made based on 419 bp of mt-DNA d –loop (HVR1). Results showed considerable losses in genetic diversity between time frames consistent with medieval declines. Northern populations were also found to harbour the highest number of ‘native’ haplotypes and southern populations the lowest. The southern population of Norfolk exhibited only one ‘novel’ haplotype confirming its non-native origin. The impacts of bottlenecks on populations are of concern because they have been shown to reduce population fitness and increase the risk of extinction. Therefore, fitness of roe was examined using fluctuating asymmetry (FA) of 10 skull traits as an indicator of developmental stability. Correlations of FA and genetic diversity indices were examined at the level of individuals within populations, across all populations and among populations. All correlations existed in expected directions; however, correlations tended to be weak and non-significant. Furthermore, among population level FA did not vary significantly across populations providing no indication as to whether fitness has been impacted by past population history

Wild to domestic and back again: the dynamics of fallow deer management in medieval England (c.11th-16th century AD)

This paper presents the results of the first comprehensive scientific study of the fallow deer, a non-native species whose medieval-period introduction to Britain transformed the cultural landscape. It brings together data from traditional zooarchaeological analyses with those derived from new ageing techniques as well as the results of a programme of radiocarbon dating, multi-element isotope studies and genetic analyses. These new data are here integrated with historical and landscape evidence to examine changing patterns of fallow deer translocation and management in medieval England between the 11th and 16th century AD

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

From icon of empire to national emblem: new evidence for the fallow deer of Barbuda

Barbuda and Antigua's national animal is the fallow deer, Dama dama dama, a species native to the eastern Mediterranean that has been transported around the world by people during the last 8,000 years. The timing and circumstances by which fallow deer came to be established on Barbuda are currently uncertain but, by examining documentary, osteological and genetic evidence, this paper will consider the validity of existing theories. It will review the dynamics of human-Dama relationships from the 1500s AD to the present day and consider how the meaning attached to this species has changed through time: from a symbol of colonial authority and dominance, to a 'walking larder' after the slave emancipation of 1834, and now an important part of the island's economy and cultural heritage that requires careful management

Identification of Early Requirements for Preplacodal Ectoderm and Sensory Organ Development

Preplacodal ectoderm arises near the end of gastrulation as a narrow band of cells surrounding the anterior neural plate. This domain later resolves into discrete cranial placodes that, together with neural crest, produce paired sensory structures of the head. Unlike the better-characterized neural crest, little is known about early regulation of preplacodal development. Classical models of ectodermal patterning posit that preplacodal identity is specified by readout of a discrete level of Bmp signaling along a DV gradient. More recent studies indicate that Bmp-antagonists are critical for promoting preplacodal development. However, it is unclear whether Bmp-antagonists establish the proper level of Bmp signaling within a morphogen gradient or, alternatively, block Bmp altogether. To begin addressing these issues, we treated zebrafish embryos with a pharmacological inhibitor of Bmp, sometimes combined with heat shock-induction of Chordin and dominant-negative Bmp receptor, to fully block Bmp signaling at various developmental stages. We find that preplacodal development occurs in two phases with opposing Bmp requirements. Initially, Bmp is required before gastrulation to co-induce four transcription factors, Tfap2a, Tfap2c, Foxi1, and Gata3, which establish preplacodal competence throughout the nonneural ectoderm. Subsequently, Bmp must be fully blocked in late gastrulation by dorsally expressed Bmp-antagonists, together with dorsally expressed Fgf and Pdgf, to specify preplacodal identity within competent cells abutting the neural plate. Localized ventral misexpression of Fgf8 and Chordin can activate ectopic preplacodal development anywhere within the zone of competence, whereas dorsal misexpression of one or more competence factors can activate ectopic preplacodal development in the neural plate. Conversely, morpholino-knockdown of competence factors specifically ablates preplacodal development. Our work supports a relatively simple two-step model that traces regulation of preplacodal development to late blastula stage, resolves two distinct phases of Bmp dependence, and identifies the main factors required for preplacodal competence and specification

The 10,000-year biocultural history of fallow deer and its implications for conservation policy

Over the last 10,000 years, 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 Chios and Rhodes in the Neolithic 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. We argue that these biocultural histories of fallow deer should underpin modern management strategie

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

Surviving in isolation: genetic variation, bottlenecks and reproductive strategies in the Canarian endemic Limonium macrophyllum (Plumbaginaceae)

Oceanic archipelagos are typically rich in endemic taxa, because they offer ideal conditions for diversification and speciation in isolation. One of the most remarkable evolutionary radiations on the Canary Islands comprises the 16 species included in Limonium subsection Nobiles, all of which are subject to diverse threats, and legally protected. Since many of them are single-island endemics limited to one or a few populations, there exists a risk that a loss of genetic variation might limit their longterm survival. In this study, we used eight newly developed microsatellite markers to characterize the levels of genetic variation and inbreeding in L. macrophyllum, a species endemic to the North-east of Tenerife that belongs to Limonium subsection Nobiles. We detected generally low levels of genetic variation over all populations (HT = 0.363), and substantial differentiation among populations (FST = 0.188;RST = 0.186) coupled with a negligible degree of inbreeding (F = 0.042). Obligate outcrossing may have maintained L. macrophyllum relatively unaffected by inbreeding despite the species’ limited dispersal ability and the genetic bottlenecks likely caused by a prolonged history of grazing. Although several factors still constitute a risk for the conservation of L. macrophyllum, the lack of inbreeding and the recent positive demographic trends observed in the populations of this species are factors that favour its future persistence

Single-dose BNT162b2 vaccine protects against asymptomatic SARS-CoV-2 infection

The BNT162b2 mRNA COVID-19 vaccine (Pfizer-BioNTech) is being utilised internationally for mass COVID-19 vaccination. Evidence of single-dose protection against symptomatic disease has encouraged some countries to opt for delayed booster doses of BNT162b2, but the effect of this strategy on rates of asymptomatic SARS-CoV-2 infection remains unknown. We previously demonstrated frequent pauci- and asymptomatic SARS-CoV-2 infection amongst healthcare workers (HCWs) during the UK’s first wave of the COVID-19 pandemic, using a comprehensive PCR-based HCW screening programme (Rivett et al., 2020; Jones et al., 2020). Here, we evaluate the effect of first-dose BNT162b2 vaccination on test positivity rates and find a fourfold reduction in asymptomatic infection amongst HCWs ≥12 days post-vaccination. These data provide real-world evidence of short-term protection against asymptomatic SARS-CoV-2 infection following a single dose of BNT162b2 vaccine, suggesting that mass first-dose vaccination will reduce SARS-CoV-2 transmission, as well as the burden of COVID-19 disease