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Biology subjects

Ibrahim, J.

Publications and source records attributed to Ibrahim, J..

7 recordsLinked to original sources

The Female Side of Autism: Sexual Dichotomies impacting the Helsmoortel-Van der Aa syndrome pathology.

Background: Helsmoortel-Van der Aa syndrome, caused by pathogenic variants in ADNP, is characterised by substantial clinical heterogeneity, but how biological sex influences disease biology and treatment response remains an emerging area of investigation. Here, we investigated whether sex modifies the behavioural and molecular consequences of Adnp deficiency, the response to the investigational drug candidate davunetide (NAP), and the clinical phenotype of Helsmoortel-Van der Aa syndrome. Methods: We studied male and female Adnp heterozygous mice harbouring the p.Leu822Hisfs*6 variant and sex-matched wild-type littermates using continuous 24-h behavioural phenotyping, hippocampal genome-wide DNA methylation and bulk RNA sequencing. NAP effects on behaviour, hippocampal ADNP protein abundance, and epi-transcriptomic responses were assessed using genotype-by-treatment models. Four Core Genotypes mice were assessed to distinguish sex-chromosome and gonadal contributions to hippocampal Adnp transcript expression, and reproductive-tissue transcriptomes were analysed in Adnp mice to unravel a possible endocrine component of the disease. Findings were compared with clinical and developmental data from 129 individuals with Helsmoortel-Van der Aa syndrome. Findings: Adnp deficiency produced a shared overall behavioural phenotype in male and female mice, but through distinct patterns of behavioural disruption, indicating that sex modifies the implementation rather than the magnitude of the phenotype. This distinction was also evident at the molecular level: hippocampal DNA methylation was predominantly determined by genotype and showed convergence between sexes, whereas transcriptional responses diverged, with mitochondrial pathways predominating in males and chromatin, RNA processing, and cell-cycle pathways in females. NAP partially shifted behavioural abnormalities towards the wild-type state in both sexes and increased hippocampal ADNP protein abundance in heterozygous mice, without reversing the underlying methylation phenotype. Its transcriptional effects were markedly broader in males, indicating a sex-dependent molecular response to treatment. In reproductive tissues, Adnp deficiency was associated with convergent alterations in steroid hormone biosynthesis, despite no evidence for direct regulation of hippocampal Adnp expression by sex-chromosome complement or gonadal hormonal state. By contrast, sex was not associated with robust differences across the clinical and developmental features assessed in 129 individuals with Helsmoortel-Van der Aa syndrome after correction for multiple testing. Interpretation: Biological sex modifies how Adnp deficiency is expressed at behavioural and molecular levels, but these differences do not necessarily define distinct clinical phenotypes. The convergence of the methylation response alongside greater divergence in transcriptional and behavioural responses identifies sex as a modifier of disease biology rather than a determinant of the core phenotype. The sex-dependent response to NAP further indicates that biological sex may influence pharmacological responses even when treatment-associated behavioural improvement is observed in both sexes. These findings support consideration of biological sex as a prespecified variable in preclinical and clinical studies of Helsmoortel-Van der Aa syndrome and suggest that systematic investigation of sex-dependent biology may also be relevant to therapeutic development across rare diseases. Keywords: Helsmoortel-Van der Aa syndrome (HVDAS), Activity-Dependent Neuroprotective Protein (ADNP), autism spectrum disorder, intellectual disability, sex, mouse model, behaviour.

genetics↗

The 3D micro- and nanostructure of the apical extracellular matrix in Drosophila

The apical extracellular matrix (aECM) serves as a dynamic scaffold, orchestrating tissue growth, cellular communication, and wound repair, and thus functions as a powerful biomaterial. In this study, we explored the intricate three-dimensional landscape of the Drosophila larval aECM using advanced 3D Volume electron microscopy. This technique opens a window into understanding and mimicking the diversity of aECM surfaces and architectures of the exoskeletal cuticles. We reconstructed the striking forms of denticles, hairs, and sensory organs, including double sensilla and Keils organs, at the epidermal surface. Our reconstructions brought the larval tracheal system and the sponge-like felt chamber (Filzkorper) of the spiracles into sharp relief, revealing a labyrinth of tiny cavities surrounding a central tube that extends from the posterior opening to the tracheal lumen. When examining the ultrastructure of transport-active anal pad cells, we discovered an inverted pattern of cuticular pore-canal structures, which supports their suggested role in osmoregulation across the aECM. Our findings further suggest that ordinary epidermal cells weave an intricate network of pore canals, enabling the orchestration of material distribution throughout the entire aECM. Moreover, we reconstructed tendon cells and chordotonal organs that form a branching network of numerous filamentous intracuticular fibers that weave through the aECM, linking the exoskeleton to muscles and sensory organs. By thoroughly mapping the intricate ultrastructural features of the aECM, this study opens new avenues for exploring how its protective, mechanical, and sensory roles intertwine, inspiring the next generation of tailor-made biomimetic materials.

developmental biology↗

Increasing Pyrethroids and DDT Resistance and kdr Mutation in Anopheles gambiae s.l. from Sokoto, North-West Nigeria

BackgroundAnopheles gambiae sensu lato (s.l.) is the primary vector of malaria in sub-Saharan Africa. Although insecticide-based vector control has been central to prevention, the widespread emergence of insecticide resistance poses a serious biological threat to control efforts. Effective resistance monitoring is essential for sustaining vector control but remains highly limited in malaria-endemic hotspots. Here, we assessed pyrethroid and DDT resistance intensity and the frequency of the L1014F knockdown resistance (kdr) mutation in Anopheles gambiae s.l. populations from Sokoto, north-western Nigeria. MethodologyResistance status and intensity to five insecticides were determined in adult Anopheles reared from larvae collected in 2021 and 2022 using the World Health Organization (WHO) tube test and Centers for Disease Control and Prevention (CDC) bottle bioassay, respectively. A subset of resistant mosquitoes was analyzed using PCR-based diagnostic assays to identify species within the Anopheles gambiae complex and to genotype for the West African kdr mutation (L1014F). ResultsHigh knockdown times (KDT) were observed, with KDT50 ranging from 38 to 91 minutes and KDT95 from 104 to 678 minutes, indicating increased resistance levels across all insecticides. In 2021, resistance was detected to DDT, lambda-cyhalothrin, and permethrin, while susceptibility to alpha-cypermethrin (98%) and suspected resistance to deltamethrin (91%) were recorded. In 2022, a general increase in resistance to all insecticides was observed, with mortality rates ranging from 41% to 81%. High resistance intensity was observed against DDT, while permethrin and alpha-cypermethrin exhibited low resistance intensity in both years, failing to reach 10x the diagnostic dose. Deltamethrin and lambda-cyhalothrin showed low to moderate resistance intensity. The 1014F kdr mutant genotype was widely distributed (68.1%) across species and years. Allele frequencies were higher in An. gambiae s.s. (0.83) than in An. arabiensis (0.71), with significant deviations from Hardy-Weinberg equilibrium (p < 0.05), except for An. gambiae s.s. in 2021 (p = 0.7). ConclusionThese findings reveal a concerning increase in key insecticide resistance among Anopheles populations in Sokoto, underpinned by strong genetic mechanisms. This underscores the urgent need for integrated vector management strategies to sustain effective vector control efforts in the region.

zoology↗

Self-Interaction Nanoparticle Spectroscopy Predicts High-Concentration Viscosity of Therapeutic IgG1 Antibodies

Predicting high-concentration viscosity of monoclonal antibodies such as IgG1 is crucial for their development as therapeutics for subcutaneous delivery. Unfortunately, traditional experimental rheometry methods for assessing viscosity are low-throughput. This study evaluates Self-Interaction Nanoparticle Spectroscopy (SINS) assays--specifically charge-stabilized SINS (CS-SINS) and PEG-stabilized SINS (PS-SINS)--for high-throughput viscosity prediction. We characterized 96 IgG1 antibodies, assessing SINS against in silico descriptors and dynamic light scattering (DLS) data. CS-SINS showed strong correlation with charge, offering limited additional utility. In contrast, PS-SINS provided orthogonal information; integrating it with in silico data and DLS significantly improved random forest model accuracy for binary viscosity classification. PS-SINS measurements in multiple buffers captured complementary information, achieving comparable accuracy without DLS. Importantly, PS-SINS scores exhibited a strong logarithmic relationship (r=0.98) with high-concentration viscosity in Fc variants of clinical antibodies, suggesting a direct mechanistic link. Furthermore, PS-SINS performed reliably with one column purified (protein A) samples, supporting its early-stage application. These findings establish PS-SINS as a high-throughput tool to accelerate the developability assessment of antibody candidates.

biochemistry↗

The petrous bone contains high concentrations of osteocytes: one possible reason why ancient DNA is better preserved in this bone.

The characterization of ancient DNA in fossil bones is providing invaluable information on the genetics of past human and other animal populations. These studies have been aided enormously by the discovery that ancient DNA is relatively well preserved in the petrous bone compared to most other bones. The reasons for this better preservation are however not well understood. Here we examine the hypothesis that one reason for better DNA preservation in the petrous bone is that fresh petrous bone contains more DNA than other bones. We therefore determined the concentrations of osteocyte cells occluded inside lacunae within the petrous bone and compared these concentrations to other bones from the domestic pig using high resolution microCT. We show that the concentrations of osteocyte lacunae in the inner layer of the pig petrous bone adjacent to the otic chamber are about three times higher than in the temporal bone, as well as the cortical bone of the femur. The sizes and shapes of the lacuna in the inner layer of the petrous bone are similar to those in the femur. We also confirm that the petrous bone lacunae do contain osteocytes using a histological stain for DNA. We therefore conclude that one possible reason for better preservation of ancient DNA in the petrous bone is that this bone initially contains up to three times more DNA than other bones, and hence during diagenesis more DNA is likely to be preserved. We also note that the osteocytes in the inner layer of the petrous bone may have a function in hearing.

zoology↗

Human-Brain Artificial-Intelligence Matrix

Human-Brain Artificial-Intelligence Matrix is a new technology aims to connect the human brain with the machine for the purpose of enabling the human brain to perform defined functions even if it becomes unable to perform them such as performing the function of vision in case of blindness, the function of hearing in case of deafness, Performing the function of motion in case of paralysis and many other functions. This technology will be based on the Cognition Theory which I argue about that the whole process of cognition can be treated quantum-mechanically. The cognition starts when a neuron sends data to be processed in the brain and ends in an effector to respond. The data "action potential" is a current of particles which can be described quantum-mechanically as a wave-impulse based on the dual nature of the particles. The neurons are a net of entangled cells classically and quantum-mechanically. When the action potential changes the potential of the neurons, it creates quantum mechanical potential wells and barriers. The action potential perfectly transmits in and out the neurons through quantum mechanical tunnels. The form of energy before processing is not the same after, but the amount of energy is always conserved. Since the neurons are entangled during the action potential transmission, the brain and effector will be entangled during the action potential processing. The effectors cognition of data must be a discrete cognition of single-valued data from its self-adjoint matrix which entangled with brain matrix.

bioengineering↗

Large-scale neuroimaging and genetic study reveals genetic architecture of brain white matter microstructure

Microstructural changes of white matter (WM) tracts are known to be associated with various neuropsychiatric disorders/diseases. Heritability of structural changes of WM tracts has been examined using diffusion tensor imaging (DTI) in family-based studies for different age groups. The availability of genetic and DTI data from recent large population-based studies offers opportunity to further improve our understanding of genetic contributions. Here, we analyzed the genetic architecture of WM tracts using DTI and single-nucleotide polymorphism (SNP) data of unrelated individuals in the UK Biobank (n [~] 8000). The DTI parameters were generated using the ENIGMA-DTI pipeline. We found that DTI parameters are substantially heritable on most WM tracts. We observed a highly polygenic or omnigenic architecture of genetic influence across the genome as well as the enrichment of SNPs in active chromatin regions. Our bivariate analyses showed strong genetic correlations for several pairs of WM tracts as well as pairs of DTI parameters. We performed voxel-based analysis to illustrate the pattern of genetic effects on selected parts of the tract-based spatial statistics skeleton. Comparing the estimates from the UK Biobank to those from small population-based studies, we illustrated that sufficiently large sample size is essential for genetic architecture discovery in imaging genetics. We confirmed this finding with a simulation study.

genetics↗