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Biology subjects

Farago, N.

Publications and source records attributed to Farago, N..

5 recordsLinked to original sources

The shifting dynamics of ancestry and culture at a post-Roman crossroads

The collapse of the western Roman Empire in the 5th century created a period of geopolitical upheaval, driven by Barbarians dispersing into the former Empire and reshaping post-Roman communities. While there is now evidence for a major genetic impact of these migrations into specific regions of Europe, it is unknown whether these changes in ancestry were uniform across the continent. We investigate present-day Slovenia, a crucial crossroad connecting the Roman East and West and the gate to Italy during the Langobard invasion. We conducted paleogenomic and isotopic analyses of 410 individuals from 21 sites across Slovenia and Cividale (Italy), establishing a longitudinal transect, spanning eight centuries. During Late Antiquity, despite changes in burial artifacts, kinship practices, and settlement structures reflecting a shift in culture, we find high levels of genetic continuity with the local Late Roman population and reduced mobility. However, demographic turnover began during the 8th century, when communities with northeastern European ancestry and distinct cultural practices entered the region, gradually advancing westward over the span of three centuries, replacing the local populations. This shows that cultural change in post-Roman Europe could be decoupled from genetic change in transit zones, demonstrating a dynamic spatiotemporal process across the continent.

genetics↗

Unveiling the complexity of post-Roman polity formation using ancient DNA

The transformation of the Roman world (4th-9th centuries CE) culminating in the dissolution of the Western Roman Empire in the 5th century marked a fundamental transition in European history. "Barbarian" groups and Roman provincial societies merged into enduring political frameworks in some places but not in others. Key questions persist regarding the regionally specific nature of this transformation. Here, we present one of the most densely sampled early medieval datasets to date, enabling the reconstruction of a post-Roman polity at an unprecedented micro-regional resolution. Our integrated genetic and archaeological analysis of two Roman-period (n=68) and five post-Roman (n=246) sites from the Little Hungarian Plain, a former Roman frontier region, reveals a significant increase in Northern European genetic ancestry, likely reflecting a large-scale population movement into the region. Moreover, while all post-Roman sites, dated to the time of the Langobard Kingdom, share similar genetic profiles, burial practices, and material culture, they display distinct patterns of social organization, especially regarding the role that biological relatedness played in each community. Our results suggest that distinct social hierarchies might have existed between sites, and their intensive connectivity probably formed the basis for regional-level organisation within the post-Roman polity. Our study provides a framework for investigating how new polities take shape after the collapse of major political systems. Applied more broadly, this approach can deepen our understanding of societal transformation across early medieval Europe and beyond, offering a richer and more nuanced view of the human past than ever before.

evolutionary biology↗

Automatic deep learning driven label-free image guided patch clamp system for human and rodent in vitro slice physiology

Patch clamp recording of neurons is a labor-intensive and time-consuming procedure. We have developed a tool that fully automatically performs electrophysiological recordings in label-free tissue slices. The automation covers the detection of cells in label-free images, calibration of the micropipette movement, approach to the cell with the pipette, formation of the whole-cell configuration, and recording. The cell detection is based on deep learning. The model was trained on a new image database of neurons in unlabeled brain tissue slices. The pipette tip detection and approaching phase use image analysis techniques for precise movements. High-quality measurements were performed on hundreds of human and rodent neurons. We also demonstrate that further molecular and anatomical analysis can be performed on the recorded cells. The software has a diary module that automatically logs patch clamp events. Our tool can multiply the number of daily measurements to help brain research. ONE SENTENCE SUMMARYNovel deep learning and image analysis algorithms for automated patch clamp systems to reliably measure neurons in human and rodent brain slices.

neuroscience↗

Enhancing the translational capacity of E. coli by resolving the codon bias

Escherichia coli is a well-established, and popular host for heterologous expression of proteins. The preference in the choice of synonymous codons (codon bias), however, might differ for the host and the original source of the recombinant protein, constituting a potential bottleneck in production. Codon choice affects the efficiency of translation by a complex and poorly understood mechanism. The availability of certain tRNA species is one of the factors that may curtail the capacity of translation.\n\nHere we provide a tRNA-overexpressing strategy that allows the resolution of the codon bias, and boosts the translational capacity of the popular host BL21(DE3) when rare codons are encountered. In BL21(DE3)-derived strain, called SixPack, copies of the genes corresponding to the six least abundant tRNA species have been assembled in a synthetic fragment and inserted into a ribosomal RNA operon. This arrangement, while not interfering with the growth properties of the new strain, allows dynamic control of the transcription of the extra tRNA genes, providing significantly elevated levels of the rare tRNAs in exponential growth phase.\n\nResults from expression assays of a panel of heterologous proteins of diverse origin and codon composition showed that the performance of SixPack surpassed that of the parental BL21(DE3) or a related strain equipped with a rare tRNA-expressing plasmid.\n\nImportanceCodon composition not fitting the codon bias of the expression host frequently compromises the efficient production of foreign proteins in E. coli. Various attempts to remedy the problem (codon optimization by gene synthesis, expression of rare tRNAs from a plasmid) proved to be unsatisfying. Our new approach, adjusting the tRNA pool by co-expressing extra copies of rare tRNA genes with ribosomal RNA genes, does not affect normal cell physiology, and seems to be a superior solution in terms of simplicity, cost, and yield.

synthetic biology↗

Transcriptomic and morphophysiological evidence for a specialized human cortical GABAergic cell type

We describe convergent evidence from transcriptomics, morphology and physiology for a specialized GABAergic neuron subtype in human cortex. Using unbiased single nucleus RNA sequencing, we identify ten GABAergic interneuron subtypes with combinatorial gene signatures in human cortical layer 1 and characterize a novel group of human interneurons with anatomical features never described in rodents having large, \"rosehip\"-like axonal boutons and compact arborization. These rosehip cells show an immunohistochemical profile (GAD1/CCK-positive, CNR1/SST/CALB2/PVALB-negative) matching a single transcriptomically-defined cell type whose molecular signature is not seen in mouse cortex. Rosehip cells make homotypic gap junctions, predominantly target apical dendritic shafts of layer 3 pyramidal neurons and inhibit backpropagating pyramidal action potentials in microdomains of the dendritic tuft. These cells are therefore positioned for potent local control of distal dendritic computation in cortical pyramidal neurons.

neuroscience↗