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Xie, K.

Publications and source records attributed to Xie, K..

At least 37 records · Page 2Linked to original sources

Multi-Timescale Neural Adaptation Failure as a Mechanistic Signature of Major Depression

Major depression (MD) is usually characterized in terms of momentary abnormalities, such as negative bias or emotional blunting, derived from paradigms that measure only the first response to a stimulus. Yet depressive experience in daily life is repetitive and cumulative. Here we test the hypothesis that a failure of neural adaptation across repetitions is a core feature of MD. Using a repeated negative-stimulus paradigm, we quantified adaptation at micro (within-trial) and macro (across-session) scales via electroencephalography in 28 MD patients and 34 healthy controls, measuring both conventional event-related potentials and large-scale traveling-wave propagation. MD patients exhibited pervasive maladaptation: neural rigidity at the micro scale (absent repetition suppression) and progressive regulatory depletion at the macro scale (escalating emotional reactivity with declining cognitive control). Across analyses, adaptation-based metrics revealed larger group differences than single-shot indices, and classifiers built on adaptation features--especially traveling-wave dynamics--outperformed single-shot models (task AUC = 0.83 vs 0.78) and generalized to two independent datasets (up to AUC = 0.91). These findings challenge conventional symptom-based characterizations of MD, establishing adaptation failure--not initial reactivity--as the mechanistically primary pathological signature. This reframing provides a unified mechanistic explanation for rumination and cognitive inflexibility while offering a standardized, low-cost biomarker requiring minimal electrodes ([≤]8 channels), enabling large-scale screening in resource-limited settings.

neuroscience↗

Apparent failure and cryptic success of disease control via intermediate host population reduction: Density dependence in copepods has implications for Guinea worm disease transmission

All populations experience density dependence, lest they grow infinitely. However, elucidating what forms of density dependence act most strongly for a given species remains incredibly challenging. Identifying the mechanisms that regulate population density is particularly relevant to pest control, which often causes high mortality, reducing population density but enabling recovery when survivors are freed from intraspecific competition and density dependent vital rates (e.g., birth, death, and maturation rates). Understanding these demographic responses is critical for effective pest management, especially when specific life stages of pests differ in the harm they cause. Guinea worm disease (GWD) is a neglected tropical disease with an obligate copepod intermediate host, and importantly, only large-bodied copepods can be infected with GW parasites. GW disease has been the target of control for several decades, with main management strategies including the use of a chemical larvicide, Abate, which is applied to water bodies to cull copepod populations. Despite the wide application of Abate in GW endemic countries, little is known about long-term copepod population dynamics in response to Abate. Thus, we evaluated this mortality-based management of intermediate copepod hosts to control GW transmission, combining mathematical models with a population dynamics experiment designed to mimic Abate pesticide control methods across a range of intensities. Despite initial reductions in both total and stage specific population densities, copepod populations recovered so rapidly that control appeared to fail, enabled by extremely fast maturation rates in low-density populations. Much to our surprise, model simulations of GW transmission showed that although total and stage-specific densities rebounded, infectious adult copepods --the proximate cause of infections--were strongly suppressed, indicating cryptic success. This effect was enabled by the 15-day developmental period of GW larvae within copepods, which blocks the accumulation of infectious copepods between interventions. Ultimately, this study highlights the importance of understanding mechanisms of density dependence when designing and optimizing pest control interventions, as well as interpreting counterintuitive consequences of interventions.

ecology↗

Memory network activity flow failures in temporal and frontal lobe epilepsy

Declarative memory deficits represent considerable challenges to adequate functioning and wellbeing in temporal lobe epilepsy (TLE) and frontal lobe epilepsy (FLE), two of the most common pharmaco-resistant epilepsies. TLE and FLE are impacted differently however, with TLE affecting primarily episodic, and mildly semantic memory, while FLE presenting with overall lesser declarative impairments and a greater involvement of language processes. Although functional magnetic resonance imaging (fMRI) studies are overall compatible with differential disruptions of medial temporal and fronto-limbic networks in both syndromes, direct comparisons of brain activity and connectivity remain scarce. The current study investigated how alterations in intrinsic functional brain organization, as mapped with resting-state connectivity (rsFC), shapes altered brain network activations in both episodic and semantic memory states. To this end, we acquired task- and rs-fMRI data in 28 TLE patients and 17 FLE patients and 87 age- and sex-matched healthy controls (HCs). We used activity flow mapping (AFM), a generative machine learning technique that derives plausible task activation patterns via individualized rsFC as well as normative task activation data. Previous studies in HC as well as patient populations have shown that this technique has been effective in identifying mechanisms contributing to atypical functional organization across different context. Overall, AFM reliably predicted task activations across HC, TLE, and FLE, but prediction accuracy was consistently reduced in both patient groups, indicating impaired propagation of task-relevant signals. These reductions co-occurred with abnormal episodic and semantic task activation patterns, atypical rsFC, and behavioral profiles marked by preserved semantic but impaired episodic memory performance in both patient groups. Importantly, although neither task-evoked abnormalities nor rsFC disruptions alone were associated with clinical variables, lower AFM accuracy in patients robustly tracked poorer episodic and semantic memory performance and longer disease duration. Prediction accuracy was driven more by intrinsic functional than structural network features, suggesting that altered network communication, rather than gross anatomy, constrains AFM in pharmaco-resistant epilepsy. Our work revealed syndrome-specific yet convergent disruptions in paralimbic and heteromodal association systems, linking intrinsic dysconnectivity to a shared episodic vulnerability and semantic resilience across TLE and FLE. By modelling how intrinsic connectivity shapes task-evoked responses, AFM provides a mechanistic account of imbalanced memory-state activations and isolates network-flow pathways as targets for intervention and rehabilitation.

neuroscience↗

Bioactive 3D-bioprinted scaffolds with endothelial progenitor cells and Zn2+-enhanced SFMA/HisMA/nHAP for healing of infected bone defect

Infected bone defects remain one of the greatest challenges in orthopedics, as bacterial contamination and insufficient vascularization severely compromise regeneration. Here, we report the development of a multifunctional 3D-bioprinted scaffold composed of zinc ion (Zn{superscript 2}{square}) functionalized silk fibroin methacryloyl (SFMA), histidine methacryloyl (HisMA), and nano-hydroxyapatite (nHAP), further loaded with endothelial progenitor cells (EPCs) to promote simultaneous antibacterial, angiogenic, and osteogenic responses. The photocrosslinkable SFMA/HisMA bio-ink reinforced with nHAP provided mechanical stability, controlled swelling and degradation, while Zn{superscript 2}{square} coordination endowed strong antibacterial activity against E. coli and S. aureus. EPCs adhered and proliferated on the scaffolds, and in co-culture with bone marrow stromal cells (BMSCs) markedly enhanced osteogenic differentiation, as evidenced by increased expression of OCN, RUNX2, COL1, and OPN. Proteomic profiling further revealed that EPC-loaded scaffolds modulated osteoblast protein expression patterns consistent with both immunoregulation and active extracellular matrix reconstruction to promote tissue regeneration. In a murine femoral infected defect model, EPC-loaded scaffolds suppressed pro-inflammatory cytokines (IL-6, TNF-), stimulated angiogenesis, and supported robust new bone formation, leading to accelerated defect repair confirmed by {micro}CT and histological analyses. Together, these findings demonstrate that the EPC-loaded Zn{superscript 2}{square} functionalized SFMA/HisMA/nHAP scaffold integrates antibacterial defence with vascular and osteogenic stimulation, offering a promising translational strategy for the treatment of complex infected bone defects. Graphic Abstract O_FIG O_LINKSMALLFIG WIDTH=200 HEIGHT=145 SRC="FIGDIR/small/676384v1_ufig1.gif" ALT="Figure 1"> View larger version (51K): org.highwire.dtl.DTLVardef@1a75a57org.highwire.dtl.DTLVardef@1c32b6org.highwire.dtl.DTLVardef@1456159org.highwire.dtl.DTLVardef@1fa5321_HPS_FORMAT_FIGEXP M_FIG C_FIG Schematic illustration of materials synthesis and application. Silk fibroin was modified with glycidyl methacrylate (GMA) to obtain silk fibroin methacryloyl (SFMA), while histidine was functionalized with acryloyl chloride to generate histidine methacryloyl (HisMA). SFMA and HisMA were then combined and coordinated with Zn{superscript 2}{square} ions and incorporated with nHAP to form the full-component bioactive scaffold (SFMA/HisMA/nHAP/Zn{superscript 2}{square}). The resulting material can be 3D-printed and loaded with endothelial progenitor cells (EPCs) to yield a multifunctional scaffold with antibacterial activity, pro-osteogenic and pro-angiogenic properties, favorable physicochemical characteristics, and excellent biocompatibility, making it a promising candidate for the treatment of infected bone defects.

bioengineering↗

Personalized Biomarkers of Multiscale Functional Alterations in Temporal Lobe Epilepsy

Temporal lobe epilepsy (TLE) presents with substantial inter-patient variability in clinical and neuroimaging manifestations. This multicenter study examined inter-individual differences in spatial patterns of intrinsic brain function in TLE using normative modeling at multiple spatial scales and evaluated the effectiveness of individual functional deviations for clinical diagnosis and postsurgical outcome prediction. We analyzed multimodal MRI data on 298 healthy controls, 282 TLE patients, and 45 disease controls with extratemporal epilepsy. Cortical function was profiled at local, regional, and global scales using brain signal variability, regional homogeneity, and node strength. We estimated patient-specific W-score maps to index deviations from normative metrics. Compared to healthy controls, patients with TLE showed considerable variations in patterns of functional alterations across the cortex, with the highest overlap in the ipsilateral mesiotemporal regions. Connectome-based simulation revealed the paralimbic and medial default mode regions as key disease epicenters. Functional changes were primarily underpinned by superficial white matter anomalies. Supervised pattern learning achieved classification AUCs of 0.76 for TLE versus disease controls, 0.74 for left versus right TLE, and 0.63 for seizure-free versus non-seizure-free TLE, with greater contralateral temporal functional deviations correlating with unfavorable postsurgical seizure outcome. Our findings reveal the heterogeneous impact of TLE on intrinsic cortical function. These biomarkers hold promise for clinical translation, guiding precision therapeutics and enhancing presurgical decision-making in TLE.

neuroscience↗

Emergence of isochorismate-based salicylic acid biosynthesis within Brassicales

Salicylic acid (SA) is a major defense phytohormone. In Arabidopsis thaliana, the isochorismate (IC) pathway is the primary route for pathogen-induced SA biosynthesis. First, the IC synthase (ICS) catalyzes the isomerization of chorismate to IC in chloroplasts. Second, the chloroplast-localized MATE transporter EDS5 appears to transport IC from chloroplasts to the cytosol. Cytosolic IC is then further converted to SA via the GH3 amino acid-conjugating enzyme PBS3. While this pathway is genetically well-characterized in A. thaliana, its evolutionary origin and conservation remain controversial. In this study, through comprehensive phylogenetic, structural, and functional analyses, we demonstrate that the IC pathway emerged within the Brassicales order in a time span between the divergence of Carica papaya and Capparis spinosa. The evolution of the IC pathway was driven by three key adaptations during the time span: (1) enhancement of ICS activity, (2) neofunctionalization of EDS5 after duplication of its ancestral gene, and (3) evolution of a PBS3, whose activity is specialized for glutamate-conjugation to IC. Structural modeling and functional assays reveal that an enhanced salt bridge network in ICS enhanced its activity. One of the duplicated genes, EDS5, acquired key amino acid substitutions in the C-lobe, which likely contributed to the EDS5 neofunctionalization. In addition, the functional PBS3 clade, including A. thaliana PBS3, is restricted to a Brassicales clade. Taken together, this study addresses the evolutionary trajectory of IC-based SA biosynthesis.

plant biology↗

Optimized antibody with W32I mutation enhances antiviral efficacy against influenza

The influenza virus has caused a global pandemic with significant morbidity and mortality, highlighting the need to optimize antibodies for improved antiviral efficacy. The 3E1 antibody effectively neutralizes influenza subtypes H1 and H5 by inhibiting acid-induced conformational changes of hemagglutinin (HA). This study aimed to optimize the antibodys bioactivity by modifying amino acid residues, resulting in single-point mutants (3E1-L [W32I], 3E1-H [F103I]) and a double mutant (3E1-H+L [F103I, W32I]). The binding affinity, neutralizing activity, and antiviral mechanisms of the mutants were evaluated. Notably, the 3E1-L mutant showed significantly enhanced antiviral activity against H1N1 and H3N2 compared to wild-type 3E1, inhibiting both viral entry and release. The prophylactic and therapeutic efficacy of the 3E1-L mutant was validated. Molecular dynamics simulations of the 3E1-L/HA complex showed that the W32I mutation reduces steric hindrance between tryptophan at position 32 and the complementarity-determining region (CDR) L1 loop of HA. In conclusion, the W32I substitution enhances the antiviral activity of wild-type 3E1, making the optimization of 3E1-L a promising strategy for developing more effective influenza therapies.

immunology↗

Blood pressure variability compromises vascular function in middle-aged mice

Blood pressure variability (BPV) has emerged as a significant risk factor for cognitive decline and dementia, independent of alterations in average blood pressure (BP). However, the impact of large BP fluctuations on neurovascular function remains poorly understood. In this study, we developed a novel murine model of BPV in middle-aged mice using intermittent Angiotensin II infusions. Radio telemetry confirmed that 24-hr BP averages in BPV mice remained comparable to controls, demonstrating BPV in the absence of hypertension. Chronic (20-25 days) BPV resulted in a blunted bradycardic response and cognitive deficits. Two-photon imaging revealed heightened pressure-evoked constrictions (myogenic response) in parenchymal arterioles of BPV mice. While sensory stimulus-evoked dilations (neurovascular coupling) were amplified at higher BP levels in control mice, this pressure-dependent effect was abolished in BPV mice. Our findings indicate that chronic BP fluctuations impair vascular function within the neurovascular complex and contribute to cognitive decline, emphasizing BPV as a critical factor in brain health.

physiology↗

Structural compromise in spiking cortex and connected networks

INTRODUCTIONEpilepsy is increasingly conceptualized as a network disorder, and advancing methods for its diagnosis and treatment requires characterizing both the epileptic generator and related networks. We combined multimodal magnetic resonance imaging (MRI) and high-density electroencephalography (HD-EEG) to interrogate alterations in cortical microstructure, morphology, and intrinsic local function within and beyond spiking tissue in focal epilepsy. METHODSWe studied 25 patients with focal epilepsy (12F, mean {+/-} SD age = 31.28 {+/-} 9.30 years) and 55 age- and sex-matched healthy controls, subdivided into a group of 30 for imaging feature normalization (15F, 31.40 {+/-} 8.74 years) and a group of 25 for replication (12F, 31.04 {+/-} 5.65 years). The 3T MRI acquisition included T1-weighted, diffusion, quantitative T1 relaxometry, and resting-state functional imaging. Open-access MRI processing tools derived cortex-wide maps of morphology and microstructure (cortical thickness, mean diffusivity, and quantitative T1 relaxometry) and intrinsic local function and connectivity (timescales, connectivity distance, and node strength) for all participants. Multivariate approaches generated structural and functional alteration scores for each cortical location. Using HD-EEG electrical source imaging, the most prominent spike type was localized and we quantified MRI alterations within spike sources, as well as in proximal and connected networks. RESULTSRegions harboring spike sources showed increased structural MRI alterations compared to the rest of the brain in patients. Structural compromise extended to all regions with close functional coupling to spike sources, but not to anatomical neighbors of spike sources. This finding was replicated using average control functional and anatomical matrices instead of patient-specific matrices. CONCLUSIONSpiking regions contain more marked alterations in microstructure and morphology than the remaining cortex, and combining imaging with neurophysiology techniques may ultimately help identify the epileptogenic zone non-invasively. There are nevertheless broader networks effects, which may relate to a cascading of structural changes to functionally connected cortices. These results underscore the utility of combining high-definition MRI and EEG approaches for characterizing epileptogenic tissue and assessing distributed network effects.

neuroscience↗

Three Subtypes Of Autism Spectrum Disorder With Transcriptomic Signatures Derived From Morphometric Similarity Networks

Autism spectrum disorder (ASD) is a prevalent and highly heterogeneous neurodevelopmental disorder. Previous studies have attempted to identify ASD subgroups by analyzing isolated cortical structural features. However, these studies have not considered the relationship between multiple structural features, which provide information on the structural organization of the brain. Morphometric similarity network (MSN), a structural brain network contributed by multiple anatomical features (gray matter volume, mean cortical thickness, surface area, mean curvature, Gaussian curvature, curvature index, and fold index), strongly relates to cytoarchitectonic and genomic measures of histological similarity between cortical areas. We applied K-means clustering on MSN from 236 individuals with ASD and identified three subtypes. Subtype-1 showed relatively similar MSN values with typically developmental individuals (TD). Subtype-2 showed higher morphometric similarities in the lateral frontal and temporal cortical regions and lower in anterior prefrontal and occipital regions compared to TD. These patterns were the opposite in subtype-3. Behaviorally, subtype-3 had more severe verbal and social deficits compared to subtype-2. The weaker resting-state functional connectivity (rs-FC) between the language and salience networks was observed between subtype-2 and TD. Subtype-3 had stronger rs-FC between salience and default mode networks (DMN), between frontoparietal and visual networks, and between language and dorsal attention networks, while weaker rs-FC within DMN, within sensorimotor, and within salience networks. In addition, genes with expression patterns associated with regional MS changes in ASD subtypes were functionally enriched in neuron-specific biological processes related to nervous system development, synaptic signaling and chromatin organization. These genes were particularly enriched in GABAergic neurons, glutamatergic neurons, astrocytes and microglia. Taken together, our findings suggest the existence of different neuroanatomical subtypes based on multiple anatomical features in ASD with distinct transcriptomic signatures and functional connectome patterns.

neuroscience↗

Telomere-to-telomere, gap-free genome of mung beans (Vigna radiata) provides insights into domestication under structural variation

Mung bean (Vigna radiata), an essential annual legume, holds substantial value in global agriculture due to its short growth cycle, low input requirements, and nutritional benefits. Despite extensive domestication, the genetic mechanisms underlying its morphological and physiological evolution remain incompletely understood. In this study, we present a gap-free, telomere-to-telomere genome assembly of the mung bean cultivar Weilv-9, achieved through the integration of PacBio HiFi, Oxford Nanopore, and Hi-C sequencing technologies. The 500 Mb assembly, encompassing 11 chromosomes and containing 28,740 protein-coding genes, reveals that 49.17% of the genome comprises repetitive sequences. Within the genome, we found the recent amplification of transposable elements significantly impacts the expression of nearby genes. Furthermore, integrating structural variation and SNP data from resequencing, we identified that the fatty acid synthesis, suberin biosynthetic, and phenylpropanoid metabolic processes have undergone strong selection during domestication. These findings provide valuable insights into the genetic mechanisms driving domestication and offer a foundation for future genetic enhancement and breeding programs in mung beans and related species.

genomics↗

Cortical Acetylcholine Response to Deep Brain Stimulation of the Basal Forebrain

BackgroundDeep brain stimulation (DBS), the direct electrical stimulation of neuronal tissue in the basal forebrain to enhance release of the neurotransmitter acetylcholine, is under consideration as a method to improve executive function in patients with dementia. While some small studies indicate a positive response in the clinical setting, the relationship between DBS and acetylcholine pharmacokinetics is incompletely understood. ObjectiveWe examined the cortical acetylcholine response to different stimulation parameters of the basal forebrain. Methods2-photon imaging was combined with deep brain stimulation. Stimulating electrodes were implanted in the subpallidal basal forebrain, and the ipsilateral somatosensory cortex was imaged. Acetylcholine activity was determined using the GRABACh-3.0 muscarinic acetylcholine receptor sensor, and blood vessels were imaged with Texas red. ResultsExperiments manipulating pulse train frequency demonstrated that integrated acetylcholine induced fluorescence was insensitive to frequency, and that peak levels were achieved with frequencies from 60 to 130 Hz. Altering pulse train length indicated that longer stimulation resulted in higher peaks and more activation with sublinear summation. The acetylcholinesterase inhibitor donepezil increased the peak response to 10s of stimulation at 60Hz, and the integrated response increased 57% with the 2 mg/kg dose, and 126% with the 4 mg/kg dose. Acetylcholine levels returned to baseline with a time constant of 14 to 18 seconds in all experiments. ConclusionsThese data demonstrate that acetylcholine receptor activation is insensitive to frequency between 60 and 130 Hz. High peak responses are achieved with up to 900 pulses. Donepezil increases total acetylcholine receptor activation associated with DBS but did not change temporal kinetics. The long time constants observed in the cerebral cortex add to the evidence supporting volume in addition to synaptic transmission. Graphical Abstract O_FIG O_LINKSMALLFIG WIDTH=200 HEIGHT=117 SRC="FIGDIR/small/605828v1_ufig1.gif" ALT="Figure 1"> View larger version (20K): org.highwire.dtl.DTLVardef@a06bborg.highwire.dtl.DTLVardef@4003f0org.highwire.dtl.DTLVardef@c286d1org.highwire.dtl.DTLVardef@1213d2c_HPS_FORMAT_FIGEXP M_FIG C_FIG

neuroscience↗

Mutation of phosphatidate phosphohydrolase genes confers broad-spectrum disease resistance in plants

Phosphatidic acid (PA) is considered as a second messenger that interacts with protein kinases, phosphatases and NADPH oxidases, amplifying the signal to initiate plant defense signaling responses (Li and Wang, 2019). In rice, mutation of RBL1 causes the accumulation of PA, enhancing multipathogen resistance (Sha et al., 2023). In our previous study, we attempted to rescue rbl1 mutant by overexpressing phosphatidate phosphohydrolase (PAH) genes. However, overexpression of PAH2 reduced the PA level but did not affect the disease resistance, which made us to reconsider the importance of PA and PAH in rice immunity. Here, we identified that mutation of PAHs caused PA accumulation and enhanced multipathogen resistance in rice and Arabidopsis.

plant biology↗

Pharmaco-resistant temporal lobe epilepsy gradually perturbs the cortex-wide excitation-inhibition balance

AO_SCPLOWBSTRACTC_SCPLOWExcitation-inhibition (E/I) imbalance is theorized as a key mechanism in the pathophysiology of epilepsy, with a mounting body of previous research focusing on elucidating its cellular manifestations. However, there are limited studies into E/I imbalance at macroscale and its microcircuit-level mechanisms and clinical associations. In our current work, we computed the Hurst exponent--a previously validated index of the E/I ratio--from resting-state fMRI time series, and simulated microcircuit parameters using biophysical computational models. We found a broad reduction in the Hurst exponent in pharmaco-resistant temporal lobe epilepsy (TLE), indicative of a shift towards more excitable network dynamics. Connectome decoders pointed to temporolimbic and frontocentral areas as plausible network epicenters of E/I imbalance. Computational simulations further revealed that enhancing cortical excitability in patients likely reflected atypical increases in recurrent connection strength of local neuronal ensembles. Moreover, mixed cross-sectional and longitudinal analyses revealed heightened E/I elevation in patients with longer disease duration, more frequent electroclinical seizures and inter-ictal epileptic spikes, and worse cognitive functioning. Replicated in an independent dataset, our work provides compelling in-vivo evidence of a macroscale shift in E/I balance in TLE patients that undergoes progressive changes and underpins cognitive impairments, potentially informing treatment strategies targeting E/I mechanisms.

neuroscience↗

Whole-genome resequencing revealed the Origin and Domestication of Chinese Domestic Rabbits

The evolutionary and genetic origins of Chinese indigenous rabbits (Oryctolagus cuniculus) remain largely unclear, despite being among the most recently domesticated animals. We sequenced the whole genomes of 142 individual rabbits and collected 25 resequencing accessions from the NCBI, representing six Chinese indigenous breeds, three other domesticated breeds (serving as a bridge between European wild-type and Chinese domestic populations), and two wild rabbit populations from the Iberian Peninsula and Southern France. Population and demographic analyses suggest that Chinese domestic rabbits are most likely descendants of O. c. cuniculus, native to France 800-1500 years ago. These rabbits likely first arrived in the southeast coastal areas of China through trade before spreading to inland regions. Additionally, there may be other origins for Chinese domestic rabbits. We observed considerable variation in the genetic makeup of maternal ancestry between Chinese domestic rabbits and European wild populations, with Chinese rabbits possessing unique mitochondrial haplotypes. Our analysis also highlights selective sweeps on genes affecting brain and neuronal development, which may have been under strong positive selection during domestication; genes related to starch digestion and fat metabolism, suggesting an evolutionary adaptation to digest high-starch diets; and the white coat phenotype in rabbits, resulting from selection at the melanogenesis-associated transcription factor locus. Overall, our data provide comprehensive insights into the origin and domestication of rabbits and lay the foundation for genome-based breeding.

evolutionary biology↗

Identification and classification of the genomes of novel Microviruses in a poultry slaughterhouse

Microviridae is a family of phages with circular ssDNA genomes and they are widely found in various environments and organisms. In this study, Virome techniques were employed to explore potential members of Microviridae in poultry slaughterhouse, leading to the identification of 98 novel and complete microvirus genomes. Using a similarity clustering network classification approach, these viruses were found to belong to at least 6 new subfamilies within Microviridae and 3 higher-level taxonomic units. Analysis of their genomes found that the genome size, GC content and genome structure of these new taxa showed evident regularities, validating the rationality of our classification method. Compared with the 19 families classified by previous researchers for microviruses dataset, our method can divide microviruses into about 45 more detailed clusters, which may serve as a new standard for classifying Microviridae members. Furthermore, addressing the scarcity of host information for microviruses, this study significantly broadened their host range and discovered over 20 possible new hosts, including important pathogenic bacteria such as Helicobacter pylori and Vibrio cholerae, as well as different taxa demonstrated differential host specificity. The findings of this study effectively expand the diversity of the Microviridae, providing new insights for their classification and identification. Additionally, it offers a novel perspective for monitoring and controlling pathogenic microorganisms in poultry slaughterhouse environments.

microbiology↗

Mutation of OsCDS5 confers broad-spectrum disease resistance in rice

Phospholipids are important components of biological membranes, participating in various biological processes, including plant development and responses to biotic and abiotic stresses. A previous study showed that mutation of the rice OsCDS5 (CDP-DAG Synthase) gene alters lipid metabolism, causing enhanced abiotic stress responses, yellowing of leaves at the seedling stage and delayed plant development. Here, we observed that the Oscds5 mutant shows enhanced resistance to rice blast, bacterial blight and bacterial leaf streak. Mutation of OsCDS5 promotes production of reactive oxygen species (ROS) and increases the expression level of multiple defense-related genes. Transcriptomic analyses indicate that genes involved in responses to stress, biotic/abiotic stimuli and metabolic processes are highly upregulated and enriched in mutant Oscds5. Metabolomic analyses show that differential metabolites are enriched in the lipid metabolic and tryptophan metabolic pathways. The decreased level of phosphatidylinositol (PI) and increased level of serotonin likely contribute to enhanced disease resistance of the Oscds5 mutant. Taken together, mutation of OsCDS5 enhances abiotic and biotic stress responses, and OsCDS5 may be a promising target in genetic engineering to enhance the resilience of rice to abiotic and biotic stresses simultaneously.

plant biology↗

Differential reorganization of episodic and semantic memory systems in epilepsy-related mesiotemporal pathology

Declarative memory encompasses episodic and semantic divisions. Episodic memory captures singular events with specific spatiotemporal relationships, while semantic memory houses context-independent knowledge. Behavioural and functional neuroimaging studies have revealed common and distinct neural substrates of both memory systems, implicating mesiotemporal lobe (MTL) regions such as the hippocampus and distributed neocortices. Here, we explored declarative memory system reorganization in patients with unilateral temporal lobe epilepsy (TLE), as a human disease model to test the impact of variable degrees of MTL pathology on memory function. Our cohort included 31 patients with TLE as well as 60 age and sex-matched healthy controls and all participants underwent episodic and semantic retrieval tasks during a multimodal MRI session. The functional MRI tasks were closely matched in terms of stimuli and trial design. Capitalizing on non-linear connectome gradient mapping techniques, we derived task-based functional topographies during episodic and semantic memory states, both in the MTL and in neocortical networks. Comparing neocortical and hippocampal functional gradients between TLE patients and healthy controls, we observed a marked topographic reorganization of both neocortical and MTL systems during episodic memory states. In the neocortex, alterations were characterized by reduced functional differentiation in patients in lateral temporal and midline parietal cortices in both hemispheres. In the MTL, on the other hand, patients presented with a more marked functional differentiation of posterior and anterior hippocampal segments ipsilateral to the seizure focus and pathological core, indicating perturbed intrahippocampal connectivity. Semantic memory reorganization was also found in bilateral lateral temporal and ipsilateral angular regions, while hippocampal functional topographies were unaffected. Leveraging MRI proxies of MTL pathology, we furthermore observed alterations in hippocampal microstructure and morphology are associated with TLE-related functional reorganization during episodic memory. Moreover, correlation analysis and statistical mediation models revealed that these functional alterations contributed to behavioural deficits in episodic, but again not semantic memory in patients. Altogether, our findings suggest that semantic processes rely on distributed neocortical networks, while episodic processes are supported by a network involving both the hippocampus and neocortex. Alterations of such networks can provide a compact signature of state-dependent reorganization in conditions associated with MTL damage, such as TLE.

neuroscience↗