Biology subjects

Beer, M.

Publications and source records attributed to Beer, M..

At least 37 records · Page 2Linked to original sources

bioRxiv2025

In vivo models for rustrela virus (RusV) infection in potential reservoir and spill-over hosts

Rustrela virus (RusV; species Rubivirus strelense) is a recently discovered relative of the human rubella virus (Rubivirus rubellae) and causes fatal non-suppurative meningoencephalomyelitis in a broad range of mammalian domestic, wild and zoo animals, in Europe and the USA, including staggering disease in domestic cats. Based on its reportedly broad host range, a zoonotic potential of RusV cannot be excluded. Apparently healthy yellow-necked field mice (Apodemus flavicollis) and wood mice (Apodemus sylvaticus) were identified as potential reservoir hosts. In this study, we experimentally inoculated wood mice and Lewis rats with brain homogenates of RusV-infected animals. Intracranial as well as combined intranasal/peroral inoculation resulted in apparently persistent RusV infection in both rodent species, while combined intramuscular/subcutaneous injection failed to establish detectable infection. Viral loads were highest in the central nervous system, but viral RNA was prominently found also in mucosal organs of wood mice. Viral RNA was frequently detected in oral swabs from infected wood mice, but only sparsely from rats. Neither wood mice nor rats presented neurological signs during twelve weeks after infection. However, RusV-infected rats showed significantly reduced body weight. A lymphohistiocytic meningoencephalomyelitis was observed in infected rats, whereas infected wood mice infrequently developed minimal lesions in the brain. Our study provides the first infection model for RusV and indicates that natural infection may occur via mucosal routes. Shedding of viral RNA suggests wood mice to serve as natural reservoir hosts. In rats, we could reproduce a lymphohistiocytic meningoencephalomyelitis, as described for diseased cats and other tentative non-reservoir hosts.

microbiology↗

bioRxiv2025

Opportunity Drives Spillover: Serological Surveillance across Carnivores, Omnivores and Herbivores in an HPAIV H5 Hotspot in North-East Germany, 2023-2025

In North-East Germanys offshore islands and mainland coast, wild ruminants, boar, and carnivores were tested for H5-HPAI antibodies. Wild ruminants were seronegative; 3.5% of boar and 12.5-21.9% of carnivores were seropositive, evidencing frequent spillover. Because such events may accelerate mammalian--and ultimately human--adaptation, sustained One- Health monitoring is essential. SummaryAcross offshore islands and the mainland coast of North-East Germany, H5 HPAI serosurveillance in wildlife found no seroconversion in ruminants, but positives in 3.5% of boar and 12.5-21.9% of carnivores, indicating ongoing spillover and risk of avian-to- mammalian adaptation.

ecology↗

bioRxiv2025

The Winners Take It All? Evolutionary Success ofH5Nx Reassortants in the 2020-2024 Panzootic

Avian influenza viruses undergo frequent genetic reassortment, which can coincide with phenotypic changes in transmission, pathogenicity, and host species niche. Since 2020, clade 2.3.4.4b H5 high pathogenicity avian influenza viruses (HPAIVs) have driven a global panzootic, causing mass mortality in wild birds, poultry, and, for the first time, repeated spillover infections in a variety of mammalian species. This worldwide resurgence of H5 HPAIV has coincided with a dramatic increase in the number of circulating reassortant strains; however, the scale, impact and drivers of these reassortants remain unclear. Here, we combined statistical and phylodynamic modelling to reconstruct the global evolutionary dynamics of H5Nx viruses across four epizootic seasons (2020-2024). We identified 209 genetically distinct reassortants, stratified into three transmission categories based on their phylogenetic and epidemiological profiles. Accounting for sampling depth and HPAIV incidence, we estimated that reassortants emerged most frequently from Asia, but major reassortants associated with increased host range, inter-seasonal persistence, and long-range dissemination, more frequently emerged from Europe. Altogether, reassortant emergence followed an episodic pattern in which most reassortants were transient, but 2% seeded large clusters of secondary reassortants soon after their own emergence. Statistical modelling revealed that reassortant success was strongly shaped by ecological factors, including sustained circulation in specific wild bird orders and detection across a wider range of host niches. Collectively, our findings uncover global reassortment dynamics in H5 HPAIVs and identify key virological and ecological drivers underpinning the emergence and spread of successful reassortants. These insights support the importance of enhanced surveillance to track evolution of H5 HPAIV and identify traits relevant for consideration in pandemic risk assessment.

evolutionary biology↗

bioRxiv2025

Borna disease virus 1 infection causing fatal meningoencephalomyelitis in wild European hedgehogs in known endemic areas, Germany, 2022 to 2024

Herein, we report Borna disease virus 1 (BoDV-1) infection in seven wild European hedgehogs (Erinaceus europaeus) from an endemic area in Germany. BoDV-1 causes encephalitis with a fatality rate of more than 90% in domestic mammals and humans. Currently, the bicolored white-toothed shrew (Crocidura leucodon) is the only known reservoir host. As hedgehogs are distant relatives of shrews and often cared for by humans, the cases raise concern regarding a potential zoonotic risk. All of the hedgehogs that tested positive for BoDV-1 had succumbed to neurological disease and exhibited severe polio-predominant lymphoplasmohistiocytic meningoencephalitis. However, due to the detection of viral antigens in non-neural cells in one animal, it cannot be completely excluded that some infected hedgehogs shed the virus. Although direct BoDV-1 transmission is known to be inefficient, our results emphasize the necessity of hygiene measures when handling hedgehogs, especially those with neurological signs from BoDV-1-endemic regions.

pathology↗

bioRxiv2025

Duration of immunity following infection with moderately virulent ASFV

African swine fever virus (ASFV) poses a significant threat to pork production and wild pig populations worldwide. The study assessed the long-term fate and immunity of animals recovering from a moderately virulent ASFV infection, following the principles of a duration of immunity study for live vaccines. Pigs inoculated with the moderately virulent ASFV strain Estonia14 largely developed mild clinical signs and only transient viremia. Six months after the initial inoculation and once fully recovered, all the animals were challenged with highly virulent ASFV Armenia08. Only one of the previously exposed pigs exhibited mild clinical signs, while all control animals showed typical signs of acute, lethal ASF. Moreover, only a subset of pigs inoculated with the ASF strain Estonia14 displayed temporary detectability of ASFV genomes following challenge infection. Virus isolation corroborated these findings, with low levels of infectious virus in organs of previously inoculated pigs (28 days post challenge). Furthermore, monitoring of IgM and IgG kinetics enabled the analysis of humoral responses. IgG levels were sustained over the study period and increased slightly upon challenge infection. Lastly, plasma analysis revealed elevated complement factor C3a levels post inoculation and challenge in the recovered pigs, directly correlating with challenge virus presence. In contrast, both C3a and C5a levels were increased in the control group. It could be shown that complement system activation was mediated by the lectin pathway, possibly by interaction of mannose-binding lectins and ASFV particles. This study suggests that protective immunity following recovery can last at least six months. No cases of persistent or chronic disease were observed in convalescent pigs. These findings have implications for both vaccine development and assessment, as well as for disease control strategies including surveillance actions.

immunology↗

bioRxiv2025

The expanding avian influenza panzootic: skua die-off in Antarctica

High pathogenicity avian influenza virus of subtype H5 (H5 HPAIV), clade 2.3.4.4b, invaded Antarctica in 2023. Here we show that H5 HPAIV caused high mortality in a breeding colony of skuas at one of ten sites we visited in March 2024. By combined virological and pathological analyses, we found that H5 HPAIV caused multi-organ necrosis and rapid death in skuas. Taken together with recent data, skuas in Antarctica are at risk of continued mortality from H5 HPAIV infection, threatening their already small populations. Conversely, because of their wide distribution and ecological relevance, skuas may play a substantial role in spread of the virus across Antarctica. Transdisciplinary surveillance is needed in coming years to monitor the impact of this poultry-origin disease on Antarcticas unique wildlife.

microbiology↗

bioRxiv2025

Wuhan sharpbelly bornavirus (genus Cultervirus) can infect a wide range of host cells and establishes persistent infection in diverse cypriniform cells

Our recent study using in silico data mining identified novel culterviruses (family: Bornaviridae) in fish, including a variant of W[u]han sharpbelly bornavirus (WhSBV) in grass carp kidney and liver cell lines. Here, metagenomic sequencing of different fish cell lines revealed WhSBV in two cell lines from grass carp (Ctenopharyngodon idella; order: Cypriniformes). Using these cell lines, we investigated the ability of WhSBV to infect and establish persistent infection in other cell lines from bony fish (Cypriniformes, Chichliformes, Salmoniformes, Centrarchiformes and Spariformes), reptiles (Testudines and Squamata), birds (Galliformes) and mammals (Primates and Rodentia). WhSBV showed efficient replication and a time-dependent increase in viral RNA levels in cypriniform cells, whereas replication was limited, confined to single cells, and lacked a clear time-dependent increase in cells from other bony fish and reptiles. No replication was detected in avian and mammalian cells. In situ hybridisation and electron microscopy confirmed the presence of viral RNA and particles in infected cypriniform cells. Transcriptomic sequencing revealed minimal innate immune activation during early stages of infection and antiviral response only at later stages, suggesting that WhSBV establishes persistence by evading early immune recognition. In addition, we identified polycistronic viral mRNAs regulated by specific transcriptional start and termination sites and RNA splicing. Viral proteins were detected, confirming previous in silico predictions. These findings provide insights into the potential infectivity, persistence mechanisms and transcriptional strategies of WhSBV. This study validates previous findings from in silico data mining, further reinforcing its effectiveness as a powerful tool for discovering hidden viruses. IMPORTANCEUnderstanding the diversity and host range of viruses is crucial for assessing their ecological role, associated diseases and zoonotic potential. However, many newly discovered viruses are characterised using sequence data alone because isolates are often difficult to obtain. Using cell culture models, this study characterises W[u]han sharpbelly bornavirus (WhSBV), a member of the genus Cultervirus. Here we demonstrate its ability to establish persistent infection in cypriniform fish cell lines, while exhibiting restricted replication in certain non-cypriniform fish. The identification of polycistronic transcription, splicing events and immune evasion mechanisms advances our understanding of the molecular biology of WhSBV and culterviruses in general. By validating in silico predictions, this study highlights the power of computational approaches in uncovering viral diversity. As cypriniform fish include economically important species such as carp, understanding the dynamics of WhSBV host range and infection biology may be crucial for future aquaculture health management.

molecular biology↗

bioRxiv2025

Mechanistic Basis for Inhibition of the Extended Spectrum Class A b-Lactamase GES-1 by Tazobactam and Enmetazobactam

Expression of {beta}-lactamases is the primary form of {beta}-lactam antibiotic resistance in Gram-negative bacteria. Enmetazobactam is a penicillanic acid sulfone (PAS) that inhibits extended spectrum {beta}-lactamases (ESBLs) by forming an acyl-enzyme complex that eventually breaks down to an irreversible lysinoalanine crosslink. In contrast, enmetazobactam inhibits the class A carbapenemase KPC-2 via an acyl-enzyme that does not lead to lysinoalanine crosslink formation. This difference correlates with greater inhibitory potency of enmetazobactam against class A ESBLs, compared to carbapenemases. The GES enzymes, unlike other class A {beta}-lactamase families, show progression from carbapenem-inhibited to carbapenem-hydrolysing phenotypes through single point mutations. We present crystal structures of GES-1, a globally disseminated ESBL, as the enmetazobactam- and tazobactam-derived acyl-enzymes. The complexes differ in the identities of their respective covalent adducts, with the catalytic Ser70 acylated by a 214 Da enmetazobactam-derived fragment, whereas tazobactam has fragmented to a 70 Da aldehyde. The tautomeric form of the enmetazobactam-derived ligand is verified by high-level QM/MM calculations, revealing the trans-enamine as the most thermodynamically stable tautomer, that adopts an optimised conformation that best matches the experimentally observed electron density appended to the side chain oxygen of Ser70. In contrast to previous findings for the ESBL CTX-M-15, mass spectrometry provides no evidence for lysinoalanine crosslink formation on reaction of GES-1 with (enme)tazobactam, providing further evidence that PAS inhibitors inhibit different class A {beta}-lactamases by different mechanisms. This work reveals new details of the basis for PAS inhibition of diverse {beta}-lactamases, and will guide development of future {beta}-lactamase inhibitors.

biochemistry↗

bioRxiv2025

A century-old museum sample reveals abandavirus with modern day presence in northernEuropean bats

Ancient genome sequences provide invaluable insights into the origin and evolution of viral pathogens, offering a broader temporal perspective that extends well beyond the limited timespan of clinical data, which typically covers at most a few decades. Whereas ancient viral DNA is relatively frequently recovered, ancient viral RNA genomes are scarce due to the fragile nature of RNA molecules. In this study, we explored the feasibility of detecting ancient viral RNA in ethanol-preserved bat samples from a museum collection. We not only detected viral genome fragments but also recovered the coding-complete genome of a bandavirus (species Bandavirus zwieselense, family Phenuiviridae, order Hareavirales, class Bunyaviricetes) from a Common pipistrelle (Pipistrellus pipistrellus) bat collected in northern Germany in 1919. To investigate the modern distribution of Bandavirus zwieselense, we screened bat organs collected in Germany and the Netherlands via RT-qPCR, identifying modern counterparts in nine Common Pipistrelle (P. pipistrellus) bats (collected between 2010 and 2018), and one Serotine bat (Eptesicus serotinus, collected in 1999). The resulting genomic data enabled us to map phylogenetic relationships within this previously uncharacterized virus species (Bandavirus zwieselense) and estimate the timeframe for the most recent common ancestor. Additionally, we performed functional analysis of the S segment encoded nonstructural (NSs) protein of Bandavirus zwieselense in human HEK-293T cells, demonstrating its ability to block interferon induction, a characteristic also observed in the related human-pathogenic Severe fever with thrombocytopenia syndrome virus (SFTSV, species Bandavirus dabieense). This study demonstrates the feasibility of recovering and characterizing viral genomes from ethanol-preserved ancient RNA material, underscoring the significant potential of museum collections to contribute to the understanding of RNA virus evolution.

microbiology↗

bioRxiv2025

Detection of low pre-existing humoral immunity against influenza virus H5N1 clade 2.3.4.4b in unexposed individuals

The spill-over of Influenza A virus H5N1 clade 2.3.4.4b from cattle to humans highlights the risk of a human H5N1 pandemic. Given the impact of pre-existing immunity on the course and severity of viral infections, we comprehensively assessed the humoral immunity against the H5N1 A/Texas/37/2024 isolate in H5N1-naive individuals. To this end, we performed complementary binding and neutralization assays on 66 subjects and ranked activities among a panel of 76 influenza A virus isolates. We detected low but distinct cross-neutralizing titers against A/Texas/37/2024 with a 3.9 to 15.6-fold reduction compared to selected H1N1 or H3N2 strains. By cloning and evaluating 136 monoclonal antibodies from memory B cells, we identified potent A/Texas/37/2024-neutralizing monoclonal antibodies in five out of six investigated individuals. These antibodies cross-neutralize H1, compete with antibodies targeting the HA stem, and protect mice from lethal H5N1 challenge. Our findings demonstrate partial pre-existing humoral immunity to A/Texas/37/2024 in H5N1-naive individuals.

immunology↗

bioRxiv2025

Integrated analysis of protein sequence and structureredefines viral diversity and the taxonomy of the Flaviviridae

The Flaviviridae are a family of non-segmented positive-sense enveloped RNA viruses containing significant pathogens including hepatitis C virus and yellow fever virus. Recent large-scale metagenomic surveys have identified many diverse RNA viruses related to classical orthoflaviviruses and pestiviruses but quite different genome lengths and configurations, and with a hugely expanded host range that spans multiple animal phyla, including molluscs, cnidarians and stramenopiles,, and plants. Grouping of RNA-directed RNA polymerase (RdRP) hallmark gene sequences of flavivirus and flavi-like viruses into four divergent clades and multiple lineages within them was congruent with helicase gene phylogeny, PPHMM profile comparisons, and comparison of RdRP protein structure predicted by AlphFold2. These results support their classification into the established order, Amarillovirales, in three families (Flaviviridae, Pestiviridae, and Hepaciviridae), and 14 genera. This taxonomic framework informed by RdRP hallmark gene evolutionary relationships provides a stable reference from which major genome re-organisational events can be understood.

microbiology↗

bioRxiv2024

Experimental BTV-3 and BTV-8 infection of Culicoides sonorensis biting midges

BTV-3 emerged in the Netherlands in 2023 and spread rapidly to neighboring countries. Compared to the BTV-8 outbreak in 2006, the course of the BTV-3 epizootic is more severe. Experimental infection of laboratory-reared Culicoides sonorensis midges showed a slightly higher replication rate of BTV-3 than of BTV-8. One sentence summary lineWe experimentally infected laboratory-reared Culicoides sonorensis biting midges with bluetongue virus (BTV) serotypes 3 and 8 using virus-containing blood meal and found slightly higher replication rates of BTV-3.

microbiology↗

bioRxiv2024

Schmallenberg virus non-structural proteins NSs and NSm are not essential for experimental infection of Culicoides sonorensis biting midges

The teratogenic orthobunyavirus Schmallenberg virus (SBV) is transmitted between its mammalian hosts by Culicoides biting midges. The genome of circulating SBV, i.e. variants present in viraemic ruminants or insect vectors, is very stable, while variants found in malformed ruminant foetuses display a high genetic variability. It was suggested that foetal infection provides an environment that favours viral mutations that enable immune escape in the unborn, but at the costs of limiting the ability of the virus to spread further. To investigate infection and dissemination rates of different SBV variants in the insect vectors, we fed laboratory-reared Culicoides sonorensis with blood containing the prototype strain BH80/11-4 from a viraemic cow or strain D281/12, which was isolated from the brain of a sheep foetus and harbours multiple mutations in all three genome segments. Further, virus variants lacking NSs, NSm or both non-structural proteins were included. Six days after feeding, virus replication was found in about 2% of the midges exposed to wild-type strain BH80/11-4. The absence of the non-structural proteins had no obvious effect on the oral susceptibility to virus infection, as 2.78% of the midges fed with the NSs-deletion mutant displayed after six days viral loads higher than the respective day-0-group, 1.92% of the midges exposed to the NSm-deletion mutant and 1.55% of midges exposed to the NSs/NSm-deletion mutant. In contrast, strain D281/12 did not replicate at all in the midges, supporting the assumption that SBV variants arising in infected foetuses are unable to enter the normal insect-mammalian host cycle. ImportanceBiting midges are responsible for the transmission of Schmallenberg virus (SBV), a pathogen of veterinary importance that primarily infects ruminants. Although SBV has been extensively studied in the mammalian host, the virus-intrinsic factors allowing infection of, and replication in, biting midges are largely unknown. Therefore, we infected laboratory-reared Culicoides sonorensis midges with SBV variants by feeding them with virus-containing blood. The SBV variants differed in their genome composition, as we used the prototype wild-type strain, a strain with multiple mutations that was isolated from the brain of a malformed foetus, and recombinants lacking either NSs or NSm or both of these non-structural proteins. While the non-structural proteins had no obvious effect, the variant from the malformed foetus did not replicate at all, indicating that virus variants with characteristic genomic mutations present in foetuses lose their ability to infect the insect vector and will be excluded from the natural transmission cycle.

microbiology↗

bioRxiv2024

Electrostatic interactions define nacubactam potency against OXA-48-like β-lactamases

Carbapenemases, {beta}-lactamases hydrolysing carbapenem antibiotics, severely challenge treatment of multi-drug resistant bacterial infections. OXA-48 is among the most widely disseminated carbapenemases in Enterobacterales, consequently new treatment options for OXA-48 producers are urgently required. Development of diazabicyclooctane (DBO) inhibitors to overcome {beta}-lactamase-mediated resistance is one attractive option, due to their efficacy against a wide range of {beta}-lactamases. The DBO avibactam is already licensed for clinical use, with the related compound nacubactam currently in phase III trials for carbapenem-resistant infections. Here we investigate the activities of avibactam and nacubactam towards OXA-48 and two variants, OXA-163 and OXA-405, that contain deletions in the {beta}5 - {beta}6 loop adjacent to the active site and show modified activity towards different {beta}-lactam classes. Compared to avibactam, nacubactam is c. 80-fold less potent towards OXA-48, but this difference is reduced in OXA-163 and OXA-405. Crystal structures of the respective avibactam and nacubactam complexes, and molecular dynamics simulations based upon these, reveal residue Arg214 on the OXA-48 {beta}5 - {beta}6 active-site loop to be electrostatically repelled by nacubactam, but not avibactam, binding. This increases flexibility of the OXA-48 {beta}5 - {beta}6 loop, as well as neighbouring active site loops, in simulations of the OXA-48:nacubactam, compared to the avibactam, complex. Such effects are not observed in simulations of the respective complexes of OXA-163 and OXA-405, which lack Arg214. These data indicate that interactions with Arg214 can determine DBO potency towards OXA-48-like enzymes, and suggest that sequence variation in this {beta}-lactamase family affects reactivity towards inhibitors as well as {beta}-lactam substrates.

biochemistry↗

bioRxiv2024

Outcome of H5N1 clade 2.3.4.4b virus infection in calves and lactating cows

In March 2024, highly pathogenic avian influenza virus (HPAIV) clade 2.3.4.4b H5N1 infections in dairy cows were first reported from Texas, USA. Rapid dissemination to more than 190 farms in 13 states followed. Here, we provide results of two independent clade 2.3.4.4b experimental infection studies evaluating (i) oronasal susceptibility and transmission in calves to a US H5N1 bovine isolate genotype B3.13 (H5N1 B3.13) and (ii) susceptibility of lactating cows following direct mammary gland inoculation of either H5N1 B3.13 or a current EU H5N1 wild bird isolate genotype euDG (H5N1 euDG). Inoculation of the calves resulted in moderate nasal replication and shedding with no severe clinical signs or transmission to sentinel calves. In dairy cows, infection resulted in no nasal shedding, but severe acute mammary gland infection with necrotizing mastitis and high fever was observed for both H5N1 genotypes/strains. Milk production was rapidly and drastically reduced and the physical condition of the cows was severely compromised. Virus titers in milk rapidly peaked at 108 TCID50/mL, but systemic infection did not ensue. Notably, adaptive mutation PB2 E627K emerged after intramammary replication of H5N1 euDG. Our data suggest that in addition to H5N1 B3.13, other HPAIV H5N1 strains have the potential to replicate in the udder of cows and that milk and milking procedures, rather than respiratory spread, are likely the primary routes of H5N1 transmission between cattle.

microbiology↗

bioRxiv2024

Red knots in Europe - a dead end host species or a new niche for highly pathogenic avian influenza?

The 2020/2021 epidemic in Europe of highly pathogenic avian influenza virus (HPAIV) of subtype H5 surpassed all previously recorded European outbreaks in size, genotype constellations and reassortment frequency and continued into 2022 and 2023. The causative 2.3.4.4b viral lineage proved to be highly proficient with respect to reassortment with cocirculating low pathogenic AIV and seems to establish an endemic status in northern Europe. A specific HPAIV reassortant of the subtype H5N3 was detected almost exclusively in red knots (Calidris canutus islandica) in December 2020. It caused systemic and rapidly fatal disease leading to a singular and self-limiting mass mortality affecting about 3.500 birds in the German Wadden Sea, roughly 1% of the entire flyway population of islandica red knots. Phylogenetic analyses revealed that the H5N3 reassortant very likely had formed in red knots and remained confined to this species. While mechanisms of virus circulation in potential reservoir species, dynamics of spill-over and reassortment events and the roles of environmental virus sources remain to be identified, the year-round infection pressure poses severe threats to endangered avian species, and prompts adaptation of habitat and species conservation practices. One-Sentence SummaryHigh red knot mortality in Europe (December 2020) was associated with infection of a unique genotype of HPAIV H5N3 clade 2.3.4.4b.

ecology↗

bioRxiv2024

Dynamical Responses Predict a Distal Site that Modulates Activity in an Antibiotic Resistance Enzyme

{beta}-Lactamases, which hydrolyse {beta}-lactam antibiotics, are key determinants of antibiotic resistance. Predicting the sites and effects of distal mutations in enzymes is challenging. For {beta}-lactamases, the ability to make such predictions would contribute to understanding activity against, and development of, antibiotics and inhibitors to combat resistance. Here, using dynamical non-equilibrium molecular dynamics (D-NEMD) simulations combined with experiments, we demonstrate that intramolecular communication networks differ in three class A SulpHydryl Variant (SHV)-type {beta}-lactamases). Differences in network architecture and correlated motions link to catalytic efficiency and {beta}-lactam substrate spectrum. Further, the simulations identify a distal residue 89 in the clinically important Klebsiella pneumoniae carbapenemase 2 (KPC-2), as a participant in similar networks, suggesting that mutation at this position would modulate enzyme activity. Experimental kinetics, biophysical and structural characterisation of the naturally occurring, but previously biochemically uncharacterised, KPC-2G89D mutant with several antibiotics and inhibitors reveals significant changes in hydrolytic spectrum, specifically reducing activity towards carbapenems without effecting major structural or stability changes. These results show that D-NEMD simulations can predict distal sites where mutation affects enzyme activity. This approach could have broad application in understanding enzyme evolution, and in engineering of natural and de novo enzymes.

biochemistry↗

bioRxiv2024

The absence of superinfection exclusion of Borna disease virus 2 maintains genomic polymorphisms in persistently infected cells

Viruses belonging to the genus Orthobornavirus within the family Bornaviridae are known to infect various vertebrate species, including mammals and birds. Within the genus, the species Orthobornavirus bornaense includes two mammalian viruses: Borna disease virus 1 (BoDV-1), the prototype of the family, and its closely related virus, BoDV-2. BoDV-1 was identified as the causative agent of Borna disease (BD) in horses, sheep, humans, and other mammals. BoDV-2 was first detected in a pony in eastern Austria in 1999 that exhibited severe and incurable neurological symptoms. Although BoDV-2 shares approximately 80% nucleotide identity with BoDV-1, its virological properties, including host range, replication ability, and pathogenicity, remain unclear. In this study, we aimed to investigate the virological properties of BoDV-2 by re-evaluating its whole-genome sequence using RNA sequencing. Compared to the published reference sequence, we identified two nonsynonymous nucleotide substitutions in the large (L) gene. One of these substitutions was found to be critical for the restoration of polymerase activity, enabling the successful recovery of recombinant BoDV-2 (rBoDV-2) through reverse genetics. We also identified two nonsynonymous single-nucleotide polymorphisms (SNPs) in the L gene and one in the phosphoprotein (P) gene. Substitution of these SNPs significantly enhanced the growth ability of rBoDV-2. In addition, our studies showed that BoDV-2 does not induce superinfection exclusion in cells, allowing persistence of low-fitness genome variants for an extended period of time. These findings help to characterize the virological properties of BoDV-2 and shed light on how bornaviruses maintain genetic diversity in infected cells. ImportanceMammalian bornaviruses are a general term for viruses belonging to the genus Orthobornavirus that infect mammalian species, e.g., Borna disease virus 1 and 2 (BoDV-1 and -2) and variegated squirrel bornavirus 1 (VSBV-1). Although BoDV-1 and VSBV-1 are reported to be associated with fatal encephalitis in humans, the infectivity and pathogenicity of BoDV-2 in humans remain unclear. To determine the virological properties of BoDV-2, we developed a reverse genetics system for BoDV-2. By using recombinant BoDV-2s, we identified several nucleotides that affect the growth ability of BoDV-2 and revealed the molecular mechanisms through which BoDV-2 maintains genetic heterogeneity in persistently infected cells. This reverse genetics system will accelerate the biological studies of BoDV-2 and contribute to the development of countermeasures against mammalian bornaviruses.

microbiology↗