Table of Contents
Resources
Transient chromatin decompaction at the start of D. melanogaster male embryonic germline developmentOur genomics profiling of the earliest fruit fly germline revealed a brief window of major chromatin remodeling in the male germline right after zygotic activation and suggests reprogramming in the early stages of germline to be an evolutionarily conserved phenomenon.
A large-scale cancer-specific protein–DNA interaction networkThis study delineates a large-scale cancer gene TF-DNA interaction network, highlighting potential oncogene-targeted therapeutics and complex TF roles in gene regulation. This study also offers a valuable resource for future research in cancer gene regulation and for therapeutic development.
Gene expression and chromatin conformation of microglia in virally suppressed people with HIVLeveraging our rapid autopsy “Last Gift” cohort at UCSD, we identified distinct microglial gene expression profiles despite ART.
Quantitative assessment of the nanoanatomy of the contractile vacuole complex in Trypanosoma cruziElectron microscopy analysis of the osmoregulatory system in T. cruzi cell lines subjected to cryopreparation methods revealed dynamic changes in the contractile vacuole complex (CVC) and the structure of the adhesion plaque domain during the CVC pulsation cycle.
Research Articles
c-KIT inhibitors reduce pathology and improve behavior in the Tg(SwDI) model of Alzheimer’s diseaseBrain-penetrant c-KIT inhibitors, BK40143 and BK4019,7 regulate harmonious mechanisms via autophagy and regulation of mast-cell-microglial communication and improve cognition in Alzheimer’s models.
idh-1 neomorphic mutation confers sensitivity to vitamin B12 in Caenorhabditis elegansReplicating human cancer-associated variant of isocitrate dehydrogenase in C. elegans causes embryonic lethality upon vitamin B12 supplementation due to increased dependency on one-carbon metabolism.
C/EBPβ deletion in macrophages impairs mammary gland alveolar budding during the estrous cycleMacrophage C/EBPβ contributes to alveolar budding during the estrous cycle by providing critical signaling to mammary epithelial cells.
Defective Integrator activity shapes the transcriptome of patients with multiple sclerosisHigh-depth RNA sequencing reveals down-regulation of HP1α/CBX5 in monocytes of multiple sclerosis patients, associated with major transcriptomic changes and reduced activity of the Integrator complex.
Late-life dietary folate restriction reduces biosynthesis without compromising healthspan in miceLow folate levels reduce anabolism, make yeast and worms live longer, and improve the metabolic flexibility of old mice.
Kinesins regulate the heterogeneity in centrosome clustering after whole-genome duplicationKinesin levels determine mitotic spindle polarity after whole-genome duplication.
Golgi pH homeostasis stabilizes the lysosomal membrane through N-glycosylation of membrane proteinsGolgi pH imbalance (Gphr deficiency) disrupts lysosomal membrane protein glycosylation, compromising lysosomal membrane stability, highlighting the critical role of the Golgi apparatus.
Differential roles of lysosomal cholesterol transporters in the development of C. elegans NMJsNeuronal cholesterol homeostasis during synapse development is controlled by two NPC1 homologs in C. elegans: NCR-1 absorbs cholesterol and promotes synaptogenesis, whereas NCR-2 uses cholesterol and hinders synaptogenesis.
Rit1-TBC1D10B signaling modulates FcγR-mediated phagosome formation in RAW264 macrophagesDuring phagocytosis, the signaling molecule Rit1 GTPase promotes the dissociation of TBC1D10B from the phagocytic membrane, thereby disinhibiting phagosome formation mediated by TBC1D10B.
Transcriptional and methylation outcomes of didehydro-cortistatin A use in HIV-1–infected CD4+ T cellsThe HIV-1 Tat inhibitor didehydro-cortistatin A not only blocks HIV-1 transcription but also induces specific transcriptional and epigenetic changes in CD4+ T cells, promoting a tolerogenic Treg/Th2 phenotype and reducing inflammatory gene expression.
Activation mechanism and novel binding sites of the BKCa channel activator CTIBDCTIBD relieves overactive bladder in animal models by activating BKCa channels through extracellular binding, independent of calcium and membrane depolarization; key residues include W22, W203, and F266.
Chaperone BiP controls ER stress sensor Ire1 through interactions with its oligomersActivation of the stress sensor Ire1 is triggered by stress-induced conformational changes in its luminal domains that promote Ire1 oligomerization. This study demonstrates that the molecular chaperone BiP controls this process by binding to and destabilizing Ire1 oligomers.
Fasting-induced activity changes in MC3R neurons of the paraventricular nucleus of the thalamusThis study assesses how the brain responds to fasting and the role of melanocortin 3 receptor neurons within the paraventricular nucleus of the thalamus, measured using immunohistochemistry, microscopy, chemogenetics, and behavioral analysis.
PPM1G dephosphorylates eIF4E in control of mRNA translation and cell proliferationPPM1G inhibits cell proliferation by targeting phospho-eIF4E–dependent mRNA translation.
Distribution of lipid droplets in hippocampal neurons and microglia: impact of diabetes and exerciseLipid droplets (LDs) are differently distributed in the CA1 and CA3 of the mouse hippocampus, and even along the CA3. Diabetes increased microglial LDs, suggesting a neurodegenerative mechanism, which is modestly affected by high-intensity exercise.
Enhancing uterine receptivity for embryo implantation through controlled collagenase interventionA safe and effective enzymatic pretreatment in mice enhances embryo implantation, revealing how remodeling of specific matrix components of the uterus facilitates implantation through distinct molecular mechanisms without any risk, holding clinical potential for supporting medical treatments in human reproduction.
CC2D1A causes ciliopathy, intellectual disability, heterotaxy, renal dysplasia, and abnormal CSF flowThis report identifies two novel CC2D1A variants in patients with intellectual disability. Functional analysis in multiple model systems reveals CC2D1A’s critical role in ciliogenesis and CSF circulation.
Methods
pyRBDome: a comprehensive computational platform for enhancing RNA-binding proteome dataThis study explores enhancing protein–RNA interaction prediction using machine learning.
A scalable approach to topic modelling in single-cell data by approximate pseudobulk projectionRandom projection of pseudobulk gene expression data improves the scalability and accuracy of single-cell topic modelling.
