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Journal articleMolpeceres-García FJ, García-Miró A, Mateos-García E, et al., 2026,
Pseudomonas putida JM37 as a novel bacterial chassis for ethylene glycol upcycling
, Bioresource Technology, Vol: 443, ISSN: 0960-8524Ethylene glycol (EG), one of the main monomers of polyethylene terephthalate (PET), is an attractive target for microbial upcycling. Despite this interest, there is a limited number of described organisms that can efficiently metabolise EG. Here, we report the metabolic and biotechnological potential of Pseudomonas putida JM37 as a novel bacterial chassis for EG valorization. We show that JM37 efficiently grows on EG as the sole carbon and energy source, outperforming other Pseudomonas strains. Genome sequencing and directed mutagenesis revealed that genetic redundancies in the glyoxylate assimilation pathways underlie its robust EG metabolism. Beyond biomass generation, we demonstrated the biotechnological potential of JM37. This strain was able to accumulate medium-chain polyhydroxyalkanoates (mcl-PHAs), dominated by C10 monomers, directly from EG. Moreover, JM37 successfully expressed heterologous biosynthetic pathways, including a violacein biosynthetic operon and a PET-hydrolase which has been secreted actively into the extracellular medium. Together, our results support the use of P. putida JM37 as a versatile synthetic biology chassis for sustainable EG upcycling and as a promising platform for circular bioproduction.
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Journal articleBerazategui MA, Goodwin I, Lansink LIM, et al., 2026,
A factor integrating transcription and repression of surface antigen genes in African trypanosomes
, Proceedings of the National Academy of Sciences of the United States of America, Vol: 123, ISSN: 0027-8424Antigenic variation in Trypanosoma brucei (T. brucei) requires monoallelic expression of one variant surface glycoprotein (VSG) from one of the subtelomeric bloodstream form (BSF) expression sites (BESs). This transcription is unusually mediated by RNA polymerase I (RNA Pol I) and occurs in a specialized nuclear body, the expression site body (ESB). While factors promoting active BES transcription and silencing inactive BESs are known, how these opposing activities are integrated remains unknown. Here, we identify ESBX (Tb927.3.1660) as a BSF-specific ESB protein necessary for this coordination. We show that ESBX RNAi knockdown prevents RNA Pol I localizing to the ESB and reduces active BES transcription, while also derepressing inactive BESs with low processivity transcription. Conversely, ESBX overexpression weakly activates inactive BESs in a distinct manner from ESBX knockdown, leading to processive transcription, without disrupting the active BES or forming supernumerary ESBs. ESBX knockdown causes a similar transcriptomic defect to ESB1 and VEX2 knockdown combined, establishing ESBX as a key factor linking transcriptional activation of the active BES with inactive BES silencing through the VSG exclusion (VEX) phenomenon. This allows us to suggest models for understanding the establishment and maintenance of monoallelic expression critical for parasite immune evasion.
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Journal articleDavydova S, Liu J, Kandul NP, et al., 2026,
Generating cisgenic sexing strains in insect pests
, Communications Biology, ISSN: 2399-3642Insect pest population control via sterile insect technique markedly benefits from separation by sex prior to release. To simplify this process, traditional genetics has been deployed to develop genetic sexing strains (GSSs) for several disease vectors and agricultural pests of vast economic significance, although very few are applied in the field due to associated fitness costs and instability. In this study, we generated a method to engineer cisgenic GSS (CGSS) in insects. We use CRISPR/Cas9-mediated homology-directed repair to seamlessly translocate a sex-specific alternatively spliced intron into a dominant phenotypic gene generating a genetically stable strain that enables sex-sorting by eye. To achieve this feat, we use Ceratitis capitata as our model and relied on the sex-specifically spliced intron of its endogenous transformer gene, which we seamlessly inserted a copy into the pupal colouration white pupae gene. This minimal modification resulted in the generation of a homozygous strain we term IMPERIAL that was genetically and phenotypically stable where all female pupae are brown while male pupae are white with overall good fitness. By minimally editing the genome, our novel CGSS approach can be applied to other pests that may aid more efficient and economically suitable pest control.
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Journal articleSanchez Garrido J, Beis K, Frankel G, et al., 2026,
H pilin cyclisation and pilus biogenesis are promiscuous but electrostatic perturbations impair conjugation efficiency
, Nature Communications, ISSN: 2041-1723 -
Journal articleLiu M, Prentice IC, Harrison SP, 2026,
A global analysis of pollen-based reconstructions of land climate changes during Dansgaard–Oeschger events
, Climate of the Past, ISSN: 1814-9324 -
Journal articleRansome E, 2026,
Autonomous reef monitoring structures (ARMS) as a tool for assessing UK marine benthic biodiversity
, Frontiers in Marine Science, ISSN: 2296-7745In benthic marine ecosystems, small organisms that dwell within the habitat matrix comprise the majority of species richness but are inherently difficult to sample. This limits our ability to document the biodiversity of these ecosystems. Autonomous Reef Monitoring Structures (ARMS), artificial reefs that mimic the three-dimensional complexity of benthic habitats, can alleviate this challenge. However, ARMS have been applied infrequently in many temperate locations, including the United Kingdom (UK). To showcase the applicability of ARMS to the UK, this paper applies standardized Smithsonian ARMS protocols for image analysis as well as DNA barcoding and metabarcoding of the cytochrome c oxidase subunit I (COI) gene to 3 ARMS units deployed in the Sussex Inshore Fisheries and Conservation Authority (IFCA) Nearshore Trawling Exclusion zone, a conservation area created in 2021 to facilitate the recovery of seabed habitats. We document 176 genera across 22 eukaryotic phyla as well as 1,920 > 2 mm motile specimens with a biomass of 312 g. We identify 15 notable species, including the 4th UK record of Cephalothrix simula, a non-native poisonous nemertean with the potential to enter the food supply. We also assess the complementarity of image analysis and DNA metabarcoding in describing sessile communities, finding that the two methods produce meaningfully different estimates of relative abundance for some phyla, particularly Cnidaria (77x difference) and Bryozoa (72x difference). As our oceans come increasingly under threat from global change, it is imperative that we can accurately describe their biodiversity. We advocate for ARMS as a critical tool for measuring UK marine benthic biodiversity and discuss the use of ARMS in closing gaps in reference databases as well as in assessing ecosystem function and environmental disturbance in benthic habitats.
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Journal articleWilliams JJ, Angelidou I, Cholvi M, et al., 2026,
Ethical and equitable approaches in AI for vector-borne disease management
, AI and Ethics, Vol: 6, ISSN: 2730-5961Artificial intelligence (AI) is increasingly being incorporated into public health strategies for vector-borne disease (VBD) management, offering several advances in surveillance, prediction, and control. At the same time however, the integration of AI technologies raises critical ethical and equity concerns, particularly in regions disproportionately affected by VBDs. Here, we explore seven key ethical and equitable challenges in the use of AI for VBD management: (1) data quality and representativeness, (2) risk of discrimination and inequality reinforcement, (3) transparency and reproducibility, (4) privacy and data protection, (5) cybersecurity, (6) fair and equitable benefit-sharing, and (7) environmental considerations. Within each of these challenges, we highlight how unaddressed ethical and equity issues can exacerbate health disparities and undermine public trust. We then propose actionable pathways forward, including inclusive data governance, transparency-enhancing tools, and environmentally-conscious AI practices. By highlighting how accounting for these ethical and equity concerns during AI development and deployment can further progress towards the United Nations Sustainable Development Goals, we advocate for a more responsible and inclusive approach to AI in VBD management.
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Journal articleBleidorn C, Sandberg F, Martin S, et al., 2026,
The untapped potential of short-read sequencing in biodiversity research.
, Trends Genet, Vol: 42, Pages: 137-149, ISSN: 0168-9525The power of short-read DNA sequencing in biodiversity research and evolutionary genomics is rapidly growing due to advances in technology and bioinformatics. Short-read sequencing offers powerful solutions for taxonomic identification, biomass estimation, and phylogenetic reconstruction. Moreover, short-read data enable robust estimation of genome size and repeat content, offering valuable insights into genome evolution. Though growing in popularity, long-read genome assemblies are often not feasible with material from museum collections or raw biodiversity samples. With the growing demand for DNA-based approaches in biodiversity research, short-read genomics provides an easily generated universal data source spanning all levels from individual genomes to ecosystems, and including all species on Earth, to achieve the objectives of the Global Biodiversity Framework (GBF) for the preservation of biodiversity.
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Journal articleXu H, Wang H, Prentice IC, et al., 2026,
Global variation in the ratio of sapwood to leaf area explained by optimality principles
, New Phytologist, ISSN: 0028-646X• The sapwood area supporting a given leaf area (Huber value, vH) reflects the coupling between carbon uptake and water transport and loss at a whole-plant level. Geographic variation in vH presumably reflect plant strategic adaptations but the lack of a general explanation for such variation hinders its representation in vegetation models and assessment of how its impact on the global carbon and water cycles. • Here we develop a simple hydraulic trait model to predict optimal vH by matching stem water supply and leaf water loss, and test its performance against two extensive plant hydraulic datasets. • We show that our eco-evolutionary optimality-based model explains nearly 60% of global vH variation in response to light, vapour pressure deficit, temperature and sapwood conductivity. Enhanced hydraulic efficiency with warmer temperatures reduces the sapwood area required to support a given leaf area, whereas high irradiance (supporting increased photosynthetic capacity) and drier air increase it. • This study thus provides a route to modelling variation in functional traits through the coordination of carbon uptake and water transport processes.
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Journal articleDeliard S, Barbieri E, Trizzino M, et al., 2026,
An EGR1-dependent cascade modulates genome architecture at the CSF1R locus
, Nucleic Acids Research, Vol: 54, ISSN: 0305-1048The organization and dynamics of chromatin are key to regulating gene expression during myeloid cell differentiation. Sequence-specific transcription factors initiate and maintain a complex network of enhancer-promoter contacts, which is supported by insulating elements and genome folding organizers such as CTCF and Cohesin. The spatial arrangement of enhancers and promoters, as well as their epigenetic state, drives cell and tissue-specific transcriptomes. Here we dissect the spatial, transcriptional, and epigenetic landscape of the colony stimulating factor 1 receptor (CSF1R) locus in monocytes and macrophages. CSF1R is a receptor tyrosine kinase that triggers the signaling cascade required for macrophage differentiation. Previous work showed that CSF1R expression is regulated by multiple enhancers, including the fms-intronic regulatory element (FIRE). Here, we find that a single EGR-1 binding motif dictates activation of CSF1R. We also discover that the CSF1R entire locus folds into a hub of gene regulation, affecting an extended network of myeloid and inflammatory genes. Globally, EGR1 may have an expanded role as a macrophage-specific boundary element, supporting enhancer-promoter looping at several genes. In sum, we describe a novel 3D chromatin network that is critical for macrophage development and function.
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Journal articleAdams G, Tissot F, Liu C, et al., 2026,
PACESS: Practical AI-based Cell Extraction and Spatial Statistics for large 3D bone marrow tissue images
, Cell Reports: Methods, ISSN: 2667-2375Although the molecular regulation of hematopoiesis is well characterized, the spatial organization of hematopoietic cells within bone marrow (BM) remains unclear. Advances in microscopy have produced increasingly detailed images of murine BM, yet accurate and scalable methods to extract and analyze these complex datasets are limited. The high cellular density of the BM complicates image segmentation, and current spatial analyses are often restricted to pairwise comparisons, unsuitable for investigating interactions between more than two cell types simultaneously. To overcome these limitations, we developed PACESS, a readily applicable neural network-based framework that classifies hundreds of thousands of cells in 3D BM samples and applies spatial statistical methods to evaluate multicellular interactions. Using PACESS, we investigate the spatial organization of T cells, megakaryocytes and leukemic cells, revealing that distinct leukemic clusters generate diverse, previously unrecognized neighborhood within the same BM cavity. PACESS thus provides a powerful tool to dissect BM architecture.
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Journal articlevan Thor J, 2026,
Coherent two dimensional electronic-X-ray spectroscopy
, Journal of Chemical Physics, ISSN: 0021-9606Ultrafast pump-probe time resolved X-ray spectroscopy carries information on the valence-core dynamics of molecular systems. Here, a coherent two-dimensional nonlinear electronic-X-ray spectroscopy (2DEX) application is proposed in order to reveal the frequency-frequency correlations for the valence and the core transition excitations. 2DEX is in the class of extreme-cross peak correlation spectroscopy and is experimentally straightforward to measure as an adaptation of the conventional optical pump – X-ray probe technique by creating a phase-locked pulse pair of the ultrafast laser for the valence excitation. Theoretical evaluation of the coherences and populations for several applications of ultrafast valence-core spectroscopy experiments is shown. Using a response function approach, 2DEX four wave signals are calculated and evaluated with respect to frequency separation in the electronic and X-ray ranges as well as the lineshape characteristics. It is shown that stationary and oscillatory contributions to the rephasing, non-rephasing and absorptive signals can be resolved depending on pulse shaping and phase cycling, phase matching, X-ray spectrometer and material response parameters. Calculations are shown for examples that include the valence-core coherences for a vibrational monomer and for Frenkel and charge transfer (CT)electronic exciton states, which in the X-ray absorption near-edge structure (XANES) spectral region have the potential to resolve the population and coherence contributions in the atomic localised basis.
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Journal articleJimenez Zarco J, 2026,
Engineering whole-cell catalysts to use plastic waste as a feedstock
, Current Opinion in Biotechnology, ISSN: 0958-1669The extensive production, durability and waste mismanagement of plastic polymers have led to a highly concerning environmental problem. Recycling methods aim to reduce the amount of plastic pollution and, among them, biological processes have emerged as an interesting alternative for the management of plastic waste that is difficult to collect or can not be recycled by other methods. While there has been significant progress in the field, in particular related to the enzymatic hydrolysis of polyesters, most biological methods rely on the use of enzymes in vitro, using collected plastics. In this review we explore the status of technologies using whole-cell catalysts that could be used for in vivo upcycling of plastic waste – with plastic becoming a microbial feedstock – and for the development of biodegradation strategies in relevant environments. We have identified a number of barriers related to polymer bioavailability, enzyme activity and secretion, and the use of strains and microbial communities that need to be overcome to materialise a much-needed solution to plastic pollution.
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Journal articleHassan A, Prentice IC, Liang X, 2026,
Insights into evapotranspiration partitioning based on hydrological observations using the generalized proportionality hypothesis
, Hydrology and Earth System Sciences (HESS), Vol: 30, Pages: 317-341, ISSN: 1027-5606Evapotranspiration comprises transpiration, soil evaporation, and interception. The partitioning of evapotranspiration is challenging due to the lack of direct measurements and uncertainty of existing evapotranspiration partitioning methods. We propose a novel method to estimate long-term mean transpiration to evapotranspiration (Et/E) ratios based on the generalized proportionality hypothesis using long-term mean hydrological observations at the watershed scale. We tested the method using 648 watersheds in the United States classified into six vegetation types. We mitigated impacts of the variability associated with different Ep data products by rescaling their original Ep values using the product E/Ep ratios in combination with the observed E calculated from watershed water balance. With Ep thus rescaled, our method produced consistent Et/E across six widely used Ep products. Shrubs (0.33) and grasslands (0.32) showed lower mean Et/E than croplands (0.48) and forests (respectively 0.69, 0.60, and 0.70 for evergreen needleleaf, deciduous broadleaf, and mixed forests). Et/E showed significant dependence on aridity, leaf area index, and other hydrological and environmental conditions. Using Et/E estimates, we calculated transpiration to precipitation ratios (Et/P) ratios and revealed a bell-shaped curve at the watershed scale, which conformed to the bell-shaped relationship with the aridity index (AI) observed at the field and remote-sensing scales (Good et al., 2017). This relationship peaked at an Et/P between 0.5 and 0.6, corresponding to an AI between 2 and 3 depending on the Ep dataset used. These results strengthen our understanding of the interactions between plants and water and provide a new perspective on a long-standing challenge for hydrology and ecosystem science.
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Journal articleNeu CT, Antonopoulos A, Dell A, et al., 2026,
Gne-Depletion in C2C12 Myoblasts Leads to Alterations in Glycosylation and Myopathogene Expression.
, Cells, Vol: 15GNE myopathy is a rare genetic neuromuscular disorder caused by mutations in the GNE gene. The respective gene product, UDP-N-acetylglucosamine 2-epimerase/N-acetylmannosamine kinase (GNE), is a bifunctional enzyme that initiates endogenous sialic acid biosynthesis. Sialic acids are important building blocks for the glycosylation machinery of cells and are typically found at the terminal ends of glycoprotein N- and O-glycans. The exact pathomechanism of GNE myopathy remains elusive, and a better understanding of the disease is urgently needed for the development of therapeutic strategies. The purpose of this study was to examine the effects of hyposialylation on glycan structures and subsequent downstream effects in the C2C12 Gne knockout cell model. No overall remodeling of N-glycans was observed in the absence of Gne, but differences in glycosaminoglycan expression and O-GlcNAcylation were detected. Expression analysis of myopathogenes revealed concomitant down-regulation of muscle-specific genes. Among the top candidates were the sodium channel protein type 4 subunit α (Scn4a), voltage-dependent L-type calcium channel subunit α-1s (Cacna1s), ryanodine receptor 1 (Ryr1), and glycogen phosphorylase (Pygm), which are associated with excitation-contraction coupling and energy metabolism. The results suggest that remodeling of the glycome could have detrimental effects on intracellular signaling, excitability of skeletal muscle tissue, and glucose metabolism.
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Journal articleCui Y, Peng S, Delgado-Baquerizo M, et al., 2026,
Productivity-driven decoupling of microbial carbon use efficiency and respiration across global soils.
, Sci Adv, Vol: 12Despite extensive research on soil microbial carbon (C) use efficiency (CUE), its linkage to actual soil C storage remains ambiguous. A key uncertainty is that CUE estimates from short-term labeling incubations assume a linear negative relationship with respiration rates, overlooking nonlinear interactions and long-term microbial acclimation. Here, we use a stoichiometry-based approach to estimate CUE (CUEST), which links soil resource availability to microbial demand and captures microbial adaptability under resource constraints. We synthesized 1094 paired observations of CUEST and heterotrophic respiration rate (Rh) across natural ecosystems and found a nonlinear relationship between them governed by ecosystem productivity. In low-productivity arid and cold regions, CUEST declined with increasing Rh, whereas in productive tropical and temperate regions, CUEST stabilized at a low level (0.27 ± 0.11) as Rh exceeded 340 ± 10.8 grams of C per square meter per year. This shift reflects microbial trade-offs between C assimilation and stoichiometric homeostasis, revealing a decoupling of microbial growth from respiration that limits the capacity of productive ecosystems to store additional soil C.
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Journal articleCator L, 2026,
A tiger is not always a satyr: role of male mating behaviour in interspecific mating interactions between Aedes aegypti and Aedes albopictus
, Parasites and Vectors, ISSN: 1756-3305Background: Interspecific mating between Aedes aegypti and Aedes albopictus, which act as vectors of a wide range of arboviruses, is predicted to have an important influence on their future distributions and disease control efforts. While interspecific insemination has been documented in a range of laboratory and field studies, rates vary between populations. It has been suggested that the outcome of mating interactions is driven by evolved variation in both the male ability to mate interspecific females and ability of females to resist interspecific males. However, there has been relatively little dissection of the behaviours that underlie interspecific insemination rates. Methods: We compared insemination rates between sympatric, allopatric, and lab-adapted strains of Ae. aegypti (Colombia, Arizona, and Liverpool, respectively) and allopatric and sympatric strains of Ae. albopictus (Montpellier and Colombia, respectively). We then used both live observations and high-speed videography to compare intraspecific and interspecific mating interactions. Results: We found very low rates of interspecific mating across all strains used. Both behavioural observations and high-speed videography suggested that female resistance behaviours were not responsible for low interspecific mating. Interestingly, we documented male Ae. albopictus consistently aborting interspecific mating attempts. Conclusions: This study provides additional evidence for strong pre-copulatory species barriers between Ae. aegypti and Ae. albopictus species and adds male avoidance as a possible mechanism to maintain these barriers. Considering female resistance, the ability of males to overcome that resistance, and male avoidance of interspecific matings together will be important for informing understanding of how we expect interspecific mating rates to vary across populations and respond to selective pressures such as mass-release strategies.
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Journal articleLodhiya T, Palande A, Veeram A, et al., 2026,
ATP burst is the dominant driver of antibiotic lethality in Mycobacterium smegmatis.
, Elife, Vol: 13Antibiotic-tolerant bacteria, due to their unique physiology, are refractory to antimicrobial killing and pose challenges for infection control. Incomplete knowledge of how bactericidal antibiotics work limits our understanding of partial resistance due to phenotypic tolerance in mycobacteria, a driver for developing genetic resistance. Using proteomics, 13C isotopomer analysis, genetic and biochemical assays, we investigated the physiological response of M. smegmatis challenged with aminoglycoside and fluoroquinolone antibiotics. Two distinct classes of antibiotics elicited remarkably similar responses and increased flux through the TCA cycle, causing enhanced respiration, ROS generation, and ATP burst. We observed that excessive ATP levels and not ROS dominantly contribute to cidality, which may in part be conferred by sequestration of divalent metal ions by ATP. Consequently, 13C isotope tracing indicated TCA cycle flux deviation from its oxidative arm as a bacterial adaptive mechanism, which also included activated intrinsic resistance and a higher propensity to develop antibiotic resistance. Our study provides a new understanding of the intricate mechanisms of antibiotic-induced cell death and expands the current paradigm for antibiotic action.
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Journal articleLodhiya T, Palande A, Veeram A, et al., 2026,
ATP burst is the dominant driver of antibiotic lethality in Mycobacterium smegmatis
, eLife, Vol: 13<jats:p> Antibiotic-tolerant bacteria, due to their unique physiology, are refractory to antimicrobial killing and pose challenges for infection control. Incomplete knowledge of how bactericidal antibiotics work limits our understanding of partial resistance due to phenotypic tolerance in mycobacteria, a driver for developing genetic resistance. Using proteomics, <jats:sup>13</jats:sup> C isotopomer analysis, genetic and biochemical assays, we investigated the physiological response of <jats:italic>M. smegmatis</jats:italic> challenged with aminoglycoside and fluoroquinolone antibiotics. Two distinct classes of antibiotics elicited remarkably similar responses and increased flux through the TCA cycle, causing enhanced respiration, ROS generation, and ATP burst. We observed that excessive ATP levels and not ROS dominantly contribute to cidality, which may in part be conferred by sequestration of divalent metal ions by ATP. Consequently, <jats:sup>13</jats:sup> C isotope tracing indicated TCA cycle flux deviation from its oxidative arm as a bacterial adaptive mechanism, which also included activated intrinsic resistance and a higher propensity to develop antibiotic resistance. Our study provides a new understanding of the intricate mechanisms of antibiotic-induced cell death and expands the current paradigm for antibiotic action. </jats:p>
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Journal articleCoxshall C, Nesbit M, Hodge J, et al., 2026,
Ecological and social pressures drive same-sex sexual behaviour in non-human primates
, Nature Ecology and Evolution, ISSN: 2397-334XSame-sex sexual behaviour (SSB) is widespread across animal species; however, its evolutionary origins and ecological underpinnings remain poorly understood. In social animals, SSB is likely shaped by both genetic and environmental factors. For instance, a recent study in rhesus macaques indicate that while SSB is partially heritable and genetically based, it is also strongly influenced by environmental and social conditions. Here, we compiled species-level data on 491 non-human primate species, documenting SSB occurrence and prevalence in 59 species, and examined its associations with 15 environmental, life history, and social traits using phylogenetic regression and structural equation modelling. SSB occurrence was more likely in species inhabiting drier environments with increased food scarcity and predation pressure, in species with greater size dimorphism and longer lifespans, and in those with more complex social structures and hierarchies. Structural equation modelling further indicated that environmental and life history traits influence SSB mainly indirectly, whereas social complexity directly promotes its occurrence. Together, these findings highlight SSB as a context-dependent behaviour shaped by interactions among ecological, life history, and social factors, offering insights into the sexual diversity and social evolution of primates.
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Journal articleLavergne A, Harrison SP, Atsawawaranunt K, et al., 2026,
Minimal impact of recent decline in C4 vegetation abundance on atmospheric carbon isotopic composition
, Communications Earth & Environment, ISSN: 2662-4435Changes in atmospheric carbon dioxide concentrations, climate, and land management influence the abundance and distribution of C3 and C4 plants, yet their impact on the global carbon cycle remains uncertain. Here, we use a parsimonious model of C3 and C4 plant distribution, based on optimality principles, combined with a simplified representation of the global carbon cycle, to assess how shifts in plant abundances driven by carbon dioxide and climate affect global gross primary production, land-based carbon isotope discrimination, and the isotopic composition of atmospheric carbon dioxide. We estimate that the proportion of C4 plants in total biomass declined from about 16% to 12% between 1982 and 2016, despite an increase in the abundance of C4 crops. This decline reflects the reduced competitive advantage of C4 photosynthesis in a carbon dioxide-enriched atmosphere. As a result, global gross primary production rose by approximately 16.5 ± 1.8 petagrams of carbon, and land-based carbon isotope discrimination increased by 0.017 ± 0.001‰ per year. Accounting for changes in C3 and C4 abundances reduces the difference between observed and modelled trends in atmospheric carbon isotope composition, but does not fully explain the observed decrease, pointing to additional, unaccounted drivers.
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Journal articleMishra V, Kozik Z, Biswas P, et al., 2026,
Rehydration rescues Il22-/- mice from lethal Citrobacter rodentium infection
, Nature Communications, Vol: 17, ISSN: 2041-1723Interleukin-22 (IL-22) is considered indispensable for host defence against Citrobacter rodentium, with 100% mortality of Il22 -/- mice. While IL-22 promotes epithelial barrier integrity and production of antimicrobial peptides, the precise mechanism underlying lethality remains unclear. Here, we show that following C. rodentium infection Il22-/- mice succumb due to dehydration, rather than failure to control bacterial burden or regenerate damaged intestinal epithelium. Proteomic and gene expression analysis reveal greater enterocyte depletion in C. rodentium-infected Il22-/- mice, resulting in significant reductions in ion transporter abundances. We show that while not reducing bacterial load, improving the gut barrier integrity, or affecting immune responses, fluid therapy (FT) fully rescues Il22-/- mice by correcting systemic dehydration. Survival is associated with locally increased Reg3b, IL-17F and IL-10 levels, suggesting activation of compensatory pathways that potentially support recovery in the absence of IL-22. Recovered Il22-/- mice exhibit epithelial cell regeneration and tissue physiology similarly to C. rodentium-infected Il22+/+ mice. These findings suggest that dehydration is the primary cause of mortality in Il22-/- mice and reveal that IL-22 prevent this outcome by preserving epithelial integrity and fluid-ion absorption. Importantly, this study underscores the necessity of incorporating supportive therapies into preclinical infection models to better reflect physiological settings and improve their relevance in modelling human disease.
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Journal articleChao KW, Wong L, Oqua AI, et al., 2026,
Human class B1 GPCR modulation by plasma membrane lipids
, Communications Biology, ISSN: 2399-3642The class B1 G protein-coupled receptor (GPCR) subfamily is a class of receptors known for their regulatory roles in metabolism and neuronal activity and as important drug targets. Lipids play key functional roles in modulation of GPCR signalling, yet our understanding of the molecular level detail of specific lipid interactions with class B1 GPCRs remains limited. Here we present coarse-grained molecular dynamics (MD) simulations of the active and inactive states of 15 human class B1 family members and use aiida-gromacs to capture full provenance for the set-up of simulations in complex plasma membranes. Receptors exhibit state-dependent lipid interactions with the regulatory sterol cholesterol and phospholipid phosphatidylinositiol-3,4-bisphosphate (PIP2) at defined locations on the receptor surface. Global analysis of trends across the subfamily reveals conserved patterns of lipid interaction dynamics. The glycosphingolipid GM3 exerts a modulatory influence on the dynamics of class B1 extracellular domains in both simulations and in vitro time-resolved FRET assays.
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Journal articleWeeks TL, Walkden PA, Edwards DP, et al., 2026,
Land-use change undermines the stability of avian functional diversity
, Nature, Vol: 649, Pages: 381-387, ISSN: 0028-0836Land-use change causes widespread shifts in the composition and functional diversity of species assemblages. However, its impact on ecosystem resilience remains uncertain. The stability of ecosystem functioning may increase after land-use change because the most sensitive species are removed, which leaves more resilient survivors1,2,3. Alternatively, ecosystems may be destabilized if land-use change reduces functional redundancy, which accentuates the ecological impacts of further species loss4,5. Current evidence is inconclusive, partly because trait data have not been available to quantify functional stability at sufficient scale. Here we use morphological measurements of 3,696 bird species to estimate shifts in functional redundancy after recent anthropogenic land-use change at 1,281 sites worldwide. We then use extinction simulations to assess the sensitivity of these altered assemblages to future species loss. Although the proportion of disturbance-tolerant species increases after land-use change, we show that this does not increase stability because functional redundancy is reduced. This decline in redundancy destabilizes ecosystem function because relatively few additional extinctions lead to accelerated losses of functional diversity, particularly in trophic groups that deliver important ecological services such as seed dispersal and insect predation. Our analyses indicate that land-use change may have major undetected impacts on the resilience of key ecological functions, hindering the capacity of natural ecosystems to absorb further reductions in functionality caused by ongoing perturbations.
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Journal articleHabtewold T, Lwetoijera DW, Hoermann A, et al., 2026,
Gene-drive-capable mosquitoes suppress patient-derived malaria in Tanzania
, Nature, Vol: 649, Pages: 442-448, ISSN: 0028-0836Gene drive technology presents a transformative approach to combatting malaria by introducing genetic modifications into wild mosquito populations to reduce their vectorial capacity. Although effective modifications have been developed, these efforts have been confined to laboratories in the global north. We previously demonstrated that modifying Anopheles gambiae to express two exogenous antimicrobial peptides inhibits the sporogonic development of laboratory-cultured Plasmodium falciparum, with models predicting substantial contributions to malaria elimination in Africa when integrated with gene drive1,2,3. However, the effectiveness of this modification against genetically diverse, naturally circulating parasite isolates remained unknown. To address this critical gap, we adapted our technology for an African context by establishing infrastructural and research capacity in Tanzania, enabling the engineering of local A. gambiae under containment. Here we report the generation of a transgenic strain equipped with non-autonomous gene drive capabilities that robustly inhibits genetically diverse P. falciparum isolates obtained from naturally infected children. These genetic modifications were efficiently inherited by progeny when supplemented with Cas9 endonuclease provided by another locally engineered strain. Our work brings gene drive technology a critical step closer to application, providing a locally tailored and powerful tool for malaria eradication through the targeted dissemination of beneficial genetic traits in wild mosquito populations.
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Journal articlePretorius D, Nikov G, Washio K, et al., 2026,
Designing novel solenoid proteins with in silico evolution
, Communications Chemistry, Vol: 9, ISSN: 2399-3669Solenoid proteins are elongated tandem repeat proteins with diverse biological functions, making them attractive targets for protein design. Advances in machine learning have transformed our understanding of sequence-structure relationships, enabling new approaches for de novo protein design. Here, we present an in silico evolution platform that couples a solenoid discriminator network with AlphaFold2 as an oracle within a genetic algorithm. Starting from random sequences, we design α-, β-, and αβ-solenoid backbones, generating structures that span natural and novel solenoid space. We experimentally characterise 41 solenoid designs, with α-solenoids consistently folding as intended, including one structurally validated design that closely matches the design model. All β-solenoids initially failed, reflecting the difficulty of designing β-strand majority proteins. By introducing terminal capping elements and refining designs based on earlier experimental screens, we generate two β-solenoids that have biophysical properties consistent with their designs. Our approach achieves fold-specific hallucination-based design without depending on explicit structural templates.
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Journal articleSayol F, NeateClegg MHC, Sheard C, et al., 2026,
AVONICHE: a global dataset of dietary and foraging niches for birds
, Global Ecology and Biogeography, Vol: 35, ISSN: 1466-822XMotivationThe role of each animal species in an ecosystem is largely determined both by the resources it uses and the behaviours through which these resources are obtained. Even in well-studied vertebrate groups, like birds, quantitative data on the relative use of different food resources in the context of foraging strategies are generally lacking. Most analyses in macroecology, macroevolution and conservation biology are therefore limited to simplified dietary categories, ignoring the specific foraging behaviours and substrates used to access resources. Here we present AVONICHE, a dataset quantifying proportional membership in 32 foraging niches, representing a combination of dietary categories and associated foraging strategies used by all bird species.Main Types of Variables ContainedSpecies-level information on the proportional use of foraging niches, each of which is defined as a particular foraging strategy within a specific dietary category (e.g., invertebrate feeding is subdivided into 7 foraging niches based on different foraging behaviors).Spatial Location and GrainGlobal.Time Period and GrainPresent.Major Taxa and Level of MeasurementAll bird species (Class Aves). To allow integration with global phylogenies and other data resources published in future, we align species-level niche data with four different taxonomic treatments: BirdTree (9993 species), Clements/eBird (10,661 species), BirdLife International (10,999 species) and the new AviList taxonomy (10,981 species).Software FormatSpreadsheet (.csv).
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Journal articleEndres RG, 2026,
Bacteria may not be good at chemotaxis
, Nature Physics, Vol: 22, Pages: 8-9, ISSN: 1745-2473Bacteria appear to be masters of chemotaxis, but it is unclear how well they process chemical information. A study now argues that cells squander most sensory information, making chemotaxis far less efficient than established physical limits allow.
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Journal articleBurton GP, Ceci P, MacKinnon L, et al., 2026,
Phylogenetics and evolution of Digitaria grasses, including cereal crops fonio, raishan, and Polish millet
, Annals of Botany, Vol: 137, Pages: 141-157, ISSN: 0305-7364Background and Aims Millet crops in the grass genus Digitaria include white and black fonio (D. exilis and D. iburua), raishan (D. compacta) and Polish millet (D. sanguinalis), cultivated across West Africa, India, and Europe. Fonio and raishan crops are important to supporting food security and subsistence agricultural systems in rural communities, while D. sanguinalis is no longer cultivated. These crops are resilient to challenging climates. We aim to produce an integrated study of these crops: a phylogeny of the Digitaria genus including all four food species, to identify key crop wild relatives (CWRs); time-calibrated biogeographic analysis, to investigate the history and evolution of Digitaria; and morphological study to assess the transition between wild and domesticated species. Methods We use the Angiosperm 353 target-enrichment sequencing approach to produce maximum likelihood and coalescent model nuclear phylogenies for 46 Digitaria species, and Bayesian methods to propose an evolutionary and biogeographic history for the genus. Morphology of wild and cultivated species is investigated for spikelets and growth habits using microscopy and SEM imaging.Key Results Four distinct evolutionary lineages are found for the Digitaria crops, and we identify new close crop wild relatives D. fuscescens, D. atrofusca, D. setigera and D. radicosa, and D. ciliaris. South and eastern Africa is proposed as a likely origin of early Digitaria divergence, with crop lineages diverging from wild relatives around 2-6mya. Incomplete domestication traits are observed, including the loss of trichomes, but no clear change in appearance for spikelet or abscission zone morphologies.Conclusions The knowledge produced in this study about Digitaria CWRs will be useful in improving crop traits through targeted breeding and physiological studies; and we also highlight the need for conservation of seed material through programmes working with local partners, for these important climate-tole
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Journal articleLoft T, Oliveras Menor I, Stevens N, et al., 2026,
Energy flows reveal declining ecosystem functions by animals across Africa
, Nature, Vol: 649, Pages: 104-112, ISSN: 0028-0836A key challenge for ecological science is to understand how biodiversity loss is changing ecosystem structure and function at scales that are relevant for policy1. Almost all biodiversity metrics are challenging to disaggregate into animal-mediated ecosystem functions such as pollination, seed and nutrient dispersal, and predation. Here we adopt an ecosystem energetics approach2 as a physically meaningful method of translating animal species composition into a suite of ecosystem functions. Drawing on new datasets that estimate biodiversity intactness and species population densities3,4,5, we quantify historical changes to energy flows through mammal- and bird-mediated ecosystem functions across sub-Saharan Africa. In total, trophic energy flows have decreased by more than one-third. The pattern of decreasing function varies by historical biome, driven by arboreal birds and primates in forests, terrestrial herbivores in grassy systems, and burrowing mammals in arid systems. Functions performed by megafauna in particular have collapsed outside protected areas. Compared with other biodiversity metrics, an energetics approach highlights the ecological importance of smaller animals and keystone species. The results can help practitioners conserve and restore functionally diverse, energetically intact ecosystems across land uses and biomes. By relating biodiversity intactness to energy and material flows, ecosystem energetics can also advance efforts to integrate animal-driven functions into biosphere and earth system models, helping us to understand possible regional or planetary boundaries6 for biodiversity.
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