Publications

Parkinson's disease (PD) is the second most common neurodegenerative disorder, afflicting over 1% of the population of age 60 y and above. The loss of dopaminergic (DA) neurons in the substantia nigra pars compacta (SNpc) is the primary cause of its characteristic motor symptoms. Studies using and other model systems have provided much insight into the pathogenesis of PD. However, little is known why certain cell types are selectively susceptible to degeneration in PD. Here, we describe an approach to identify vulnerable subpopulations of neurons in the genetic background linked to PD in , using the split-GAL4 drivers that enable genetic manipulation of a small number of defined cell populations. We identify split-GAL4 lines that target neurons selectively vulnerable in a model of ()-linked familial PD, demonstrating the utility of this approach. We also show an unexpected caveat of the split-GAL4 system in ageing-related research: an age-dependent increase in the number of GAL4-labelled cells.

The extant Amiiformes are represented by a single living freshwater genus Amia (bowfin) with recent phylogenomic analysis indicating the presence of multiple species. However, they have a more extensive fossil record first appearing in the Early Jurassic and are recorded as occurring on all continents, except Antarctica and Australia. Here, we describe fossil amiid fishes Calamopleurini? (Halecomorphi, Amiiformes) from the Cretaceous (Albian—Cenomanian) Griman Creek Formation, Lightning Ridge, New South Wales, Australia, representing the first record, extinct or extant, of the amiids in Australia. The material comprises jaw elements that have been replaced by opal. This new record from Australia adds to previously documented Cretaceous Western Gondwanan occurrences from South America and Africa and further supports a distinct southern “Gondwanan” fish population in the seas surrounding the fragmenting Gondwanan landmasses during the ‘mid’ — Late Cretaceous.

Social bees harbor conserved gut microbiotas that may have been acquired in a common ancestor of social bees and subsequently codiversified with their hosts. However, most of this knowledge is based on studies on the gut microbiotas of honey bees and bumblebees. Much less is known about the gut microbiotas of the third and most diverse group of social bees, the stingless bees. Specifically, the absence of genomic data from their microbiotas presents an important knowledge gap in understanding the evolution and functional diversity of the social bee microbiota. Here, we combined community profiling with culturing and genome sequencing of gut bacteria from six neotropical stingless bee species from Brazil. Phylogenomic analyses show that most stingless bee gut isolates form deep-branching sister clades of core members of the honey bee and bumblebee gut microbiota with conserved functional capabilities, confirming the common ancestry and ecology of their microbiota. However, our bacterial phylogenies were not congruent with those of the host, indicating that the evolution of the social bee gut microbiota was not driven by strict codiversification but included host switches and independent symbiont gain and losses. Finally, as reported for the honey bee and bumblebee microbiotas, we found substantial genomic divergence among strains of stingless bee gut bacteria, suggesting adaptation to different host species and glycan niches. Our study offers first insights into the genomic diversity of the stingless bee microbiota and highlights the need for broader samplings to understand the evolution of the social bee gut microbiota. Stingless bees are the most diverse group of the corbiculate bees and represent important pollinator species throughout the tropics and subtropics. They harbor specialized microbial communities in their gut that are related to those found in honey bees and bumblebees and that are likely important for bee health. Few bacteria have been cultured from the gut of stingless bees, which has prevented characterization of their genomic diversity and functional potential. Here, we established cultures of major members of the gut microbiotas of six stingless bee species and sequenced their genomes. We found that most stingless bee isolates belong to novel bacterial species distantly related to those found in honey bees and bumblebees and encoding similar functional capabilities. Our study offers a new perspective on the evolution of the social bee gut microbiota and presents a basis for characterizing the symbiotic relationships between gut bacteria and stingless bees.

The Sinamiidae are a family of halecomorph fishes (Holostei) stratigraphically limited to the Lower Cretaceous and confined to East Asia. The first species of sinamiids were discovered in China, and then new occurrences were recorded in Thailand and Japan. The three recognized genera, Sinamia, Siamamia and Ikechaoamia, are notably characterized by an unpaired parietal. Here, we describe a new genus and species of sinamiid based on material from the Aptian Khok Kruat Formation of Ban Krok Duean Ha, Nakhon Ratchasima, Thailand. The new taxon known from preserved specimens in 3D is characterized by four pairs of extrascapular and tall cylindrical teeth with a conical enamel stalk topped by an arrowhead-shaped acrodine cap, among other characters. A phylogenetic analysis of the halecomorph fishes shows that the new taxon is the sister of the other Thai species, Siamamia naga, and that the two are grouped with two Chinese genera in a strongly supported clade, the Sinamiinae. This subfamily is here grouped with the Amiinae that contained the extant Amia. This new discovery is a clue that Southeast Asia may have been a center of diversification for this fish clade, and the phylogenetic analysis reveals that amiines may have originated somewhere in Asia during the Cretaceous before they spread throughout the northern hemisphere.

The consolidation and recall of episodic memories rely on distributed cortical activity. The claustrum, a subcortical structure reciprocally connected to most of the cortex, may facilitate inter-areal communication necessary for these processes. We report here that the functional inhibition of claustral projection neurons affects directional interactions and the coordination of oscillatory neuronal patterns in the fronto-parietal network. Moreover, the inhibition of these neurons has a detrimental effect on concurrent oscillatory events relevant to the consolidation of contextual fear memory. Last, we demonstrate that biasing the directional flow of information between the latter two cortical areas enhances the retrieval of a remote contextual memory. We propose that the claustrum orchestrates inter-areal cortical interactions relevant to contextual memory processes by affecting the latency of neuronal responses.

Mawsoniidae is a family of coelacanths restricted to the Mesozoic. During the Cretaceous, mawsoniids were mainly represented by the Mawsonia/Axelrodichthy complex, long known to be from western Gondwana only (South America and Africa). This apparent biogeographical distribution then faded following the discovery of representatives in the Late Cretaceous of Laurasia (Europe and North America). We report here the presence, in the Lower Cretaceous site of Kham Phok, NE Thailand, of an angular bone referred to the Mawsonia/Axelrodichthys complex. A comparison with angulars referring to both genera found in various regions of the world between the Late Jurassic and the Late Cretaceous indicated that the distinctions between these genera, and even more so between their constituent species, are unclear. This discovery is further confirmation of the very slow morphological evolution within this lineage, which may explain why their evolutionary history appears to be disconnected, at least in part, from their geographical distribution over time.

The analysis of ancient mitochondrial DNA from osteological remains has challenged previous conclusions drawn from the analysis of mitochondrial DNA from present populations, notably by revealing an absence of genetic continuity between the Neolithic and modern populations in Central Europe. Our study investigates how to reconcile these contradictions at the mitochondrial level using a modeling approach.

Age profiling of archaeological bone assemblages can inform on past animal management practices, but is limited by the fragmentary nature of the fossil record and the lack of universal skeletal markers for age. DNA methylation clocks offer new, albeit challenging, alternatives for estimating the age-at-death of ancient individuals. Here, we take advantage of the availability of a DNA methylation clock based on 31,836 CpG sites and dental age markers in horses to assess age predictions in 84 ancient remains. We evaluate our approach using whole-genome sequencing data and develop a capture assay providing reliable estimates for only a fraction of the cost. We also leverage DNA methylation patterns to assess castration practice in the past. Our work opens for a deeper characterization of past husbandry and ritual practices and holds the potential to reveal age mortality profiles in ancient societies, once extended to human remains.

Shape transformations of epithelial tissues in three dimensions, which are crucial for embryonic development or in vitro organoid growth, can result from active forces generated within the cytoskeleton of the epithelial cells. How the interplay of local differential tensions with tissue geometry and with external forces results in tissue-scale morphogenesis remains an open question. Here, we describe epithelial sheets as active viscoelastic surfaces and study their deformation under patterned internal tensions and bending moments. In addition to isotropic effects, we take into account nematic alignment in the plane of the tissue, which gives rise to shape-dependent, anisotropic active tensions and bending moments. We present phase diagrams of the mechanical equilibrium shapes of pre-patterned closed shells and explore their dynamical deformations. Our results show that a combination of nematic alignment and gradients in internal tensions and bending moments is sufficient to reproduce basic building blocks of epithelial morphogenesis, including fold formation, budding, neck formation, flattening, and tubulation.