RNA Research and Splicing

Bichromatic exon-reporters reveal voltage-gated Ca2+-channel splice-isoform diversity across Drosophila neurons in vivo

The paper develops bichromatic fluorescent reporters in Drosophila to study voltage-gated Ca2+-channel splice-isoform diversity across neurons in vivo.

PAL-AI reveals genetic determinants that control poly(A)-tail length during oocyte maturation, with relevance to human fertility

PAL-AI predicts poly(A)-tail length changes in oocytes, identifies genetic variants under negative selection linked to human fertility.

mRNA trafficking directs cell-size-scaling of mitochondria distribution and function

The paper shows that mRNA trafficking directs cell-size-dependent mitochondria distribution and function through a 3UTR motif that regulates TRAK2 mRNA localization.

Controlling Multicomponent Condensate Morphology via Additive-Modulated Interactions

This study uses simulations to show how small-molecule cosolutes alter condensate morphology by changing interaction strengths and stoichiometry.

Structural Variants at Intronic CTCF Loop Anchors Drive Differential Exon Usage

The paper identifies structural variants at CTCF loop anchors that influence alternative splicing by disrupting chromatin looping in mouse ESCs.

Cytoplasmic localization of the mRNA encoding actin regulator, Serendipity-α, promotes adherens junction assembly and nuclear repositioning

The paper shows that mRNA localization of Serendipity-α promotes adherens junction assembly and nuclear repositioning during Drosophila embryo cellularization.

Inflammation-Induced Alternative Splicing in Human Endothelial Cells Reveals Genetic Mechanisms of Cardiovascular Disease Risk

This study identifies inflammation-induced alternative splicing in human endothelial cells and links it to cardiovascular disease risk through genetic mechanisms.

HNRNPH1-mediated splicing events regulate EIF4G1 transcript variant composition and the organization of the AURKA 5' UTR

This study identifies HNRNPH1-regulated splicing events affecting EIF4G1 transcript variants and AURKA 5' UTR structure, influencing protein expression and function.

TET dioxygenases localize at splicing speckles and promote RNA splicing

This study shows TET dioxygenases localize at splicing speckles and promote RNA splicing through interactions with splicing factors and cytosine modifications.

U-rich elements drive pervasive cryptic splicing in 3' UTR massively parallel reporter assays

The paper identifies U-rich elements in 3' UTRs as drivers of cryptic splicing in MPRA, showing they affect splice site choice and expression levels.

Proximity labeling reveals ZFP36L1 as a central hub for post-transcriptional regulation networks in T cells

The paper maps the ZFP36L1 interactome in human T cells using proximity labeling, revealing its role in post-transcriptional regulation and protein expression.

Nuclear RNA cap-chaperones eIF4E and NCBP2 influence distinct mRNA fates

The paper shows eIF4E and NCBP2 have distinct roles in nuclear mRNA processing, influencing different transcript populations and outcomes.

Molecular basis of the autoregulatory mechanism of motor neuron-related splicing factor 30

This study identifies the molecular mechanism by which SPF30 autoregulates its expression through alternative splicing and nonsense-mediated decay.

Incorporating exon-exon junction reads enhances differential splicing detection

The paper introduces a new method for differential splicing detection that incorporates exon-junction reads, improving statistical power while controlling false discovery rates.

Global inhibition of deadenylation stabilizes the transcriptome in mitotic cells

The paper shows that during prolonged mitotic arrest, the transcriptome is stabilized through increased mRNA half-lives and reduced deadenylation, dependent on PABPC1 and PABPC4.

U1 snRNP-Specific U1C Acts as the Gatekeeper of the Survival of Motor Neurons (SMN) Complex in snRNP Biogenesis

This study identifies U1C as a key regulator of the SMN complex in snRNP biogenesis, showing that U1C mutations disrupt Sm core assembly and inhibit snRNP formation in cancer.

The CFII components PCF11 and Cbc change subnuclear localization as cells differentiate in the male germ line adult stem cell lineage

The paper shows that PCF11 and Cbc change their subnuclear localization during male germ cell differentiation in Drosophila.

SPIDR: a highly multiplexed method for mapping RNA-protein interactions uncovers a potential mechanism for selective translational suppression upon cellular stress

SPIDR is a high-throughput method for mapping RNA-protein interactions that identifies 4EBP1's role in selectively repressing mRNA translation under mTOR inhibition.

Identification of RNA binding proteins that mediate a quality control mechanism of splicing

The paper identifies RNA-binding proteins involved in suppressing latent splice site activation, with ALYREF interacting with U5 snRNA to regulate splicing accuracy.

Autoregulation of RPL7B by inhibition of a structural splicing enhancer

The paper shows that RPL7B autoregulation occurs through inhibition of splicing by Rpl7 protein binding to a conserved structure in the first intron.

GLE1 dysfunction compromises cellular homeostasis, spatial organization, and peripheral axon branching

This study investigates the role of GLE1 in cellular homeostasis and development, showing that its dysfunction leads to embryonic lethality and mid-adulthood death in mice, with defects in neural crest-derived tissues and stress responses.

A neural alternative splicing program controls cellular function and growth in Pancreatic Neuroendocrine tumours

This study identifies an alternative splicing program regulated by SRRM3 that affects secretory function and neuronal characteristics in PanNETs, offering therapeutic targets.

The Polycistronic Transcription Landscape of the Populus Nuclear Genome

The paper identifies widespread polycistronic-like transcripts in Populus species using Nanopore DRS, revealing their molecular features and regulatory patterns.

Pervasive noise in human splice site selection

The paper tracks splicing intermediates in human cells using ultra-deep sequencing and finds pervasive usage of low-fidelity splice sites associated with genomic features that promote splicing noise.

Rapid depletion and super-resolution microscopy reveal an unexpected role of the nuclear-speckle protein SRSF5 in paraspeckle assembly and dynamics during cellular stress

This study shows SRSF5 is critical for paraspeckle assembly and dynamics, with stress-induced changes and compensatory effects on TDP-43 and NEAT1.

Multiple domains of scaffold Tudor protein play non-redundant roles in Drosophila germline

The paper investigates the functional roles of multiple Tudor domains in Drosophila germline formation and finds that they are non-redundant and essential for germ cell development.

An updated compendium of Caenorhabditis elegans RNA-binding proteins and their regulation

The paper updates the wRBP1.0 compendium of C. elegans RNA-binding proteins to 928 proteins, cataloging their expression and developmental phenotypes.

Label-Free Fluorescence Microscopy Reveals Multiphase Organization in Biomolecular Condensates

This paper uses label-free fluorescence microscopy to study biomolecular condensates, revealing their multiphase organization and dynamic properties without exogenous labels.

Lysine acetylation plays a role in RNA binding protein-regulated alternative pre-mRNA splicing.

The paper investigates how lysine acetylation of RNA binding proteins affects alternative pre-mRNA splicing using PTBP1 as a model.

Chemical Probe Discovery for DEAD-box RNA Binding Protein DDX21 using Small Molecule Microarrays

This study identifies KI-DX-014, a small molecule that binds DDX21 and modulates its RNA-related functions, revealing a new therapeutic approach for targeting DEAD-box proteins.