bims-musmir Biomed News
on microRNAs in muscle
Issue of 2026–03–29
eleven papers selected by
Katarzyna Agnieszka Goljanek-Whysall, University of Galway



  1. bioRxiv. 2026 Mar 05. pii: 2026.03.03.709376. [Epub ahead of print]
      Obesity is a major contributor to cardiometabolic disease, and pharmacological therapies such as semaglutide are increasingly used to induce weight loss. However, the commonly used diet-induced obesity model in C57BL/6J mice is limited by relative resistance to weight gain in females, complicating the study of sex-specific effects. Here, we used leptin-deficient ob/ob mice, which develop severe early-onset obesity in both sexes, to investigate sex-specific responses to semaglutide on skeletal muscle mass, function, and mitochondrial metabolism. The ob/ob mice were treated daily with semaglutide or vehicle for three weeks, followed by assessments of body composition, muscle and organ mass, muscle contractile function, and mitochondrial efficiency. Semaglutide induced comparable reductions in body weight and food intake in both sexes but elicited distinct sex-specific changes in body composition. Male mice exhibited losses in both skeletal muscle and organ mass, whereas female mice preferentially lost fat and organ mass while preserving skeletal muscle. Despite these divergent structural adaptations, muscle force generation remained intact in both sexes. Collectively, these findings reveal pronounced sexual dimorphism in skeletal muscle and metabolic remodeling during pharmacologically induced weight loss, highlighting the importance of considering biological sex when evaluating the metabolic and therapeutic effects of anti-obesity interventions.
    Article Highlight: C57BL/6J mice are limited by relative resistance to weight gain in females, complicating the study of sex-specific effects. So, we wanted to determine the sex-specific effect of semaglutide on skeletal muscle function, and mitochondrial metabolism in ob/ob mice. We assessed body composition and ex-vivo muscle force following the treatment and found that the female ob/ob mice are protected from semaglutide-induced skeletal muscle mass loss. These findings demonstrate sex-specific effects of semaglutide, highlighting the need to consider biological sex in GLP-1RA-based therapies.
    DOI:  https://doi.org/10.64898/2026.03.03.709376
  2. J Cachexia Sarcopenia Muscle. 2026 Apr;17(2): e70260
       BACKGROUND: Cancer cachexia leads to decreases in body mass, lean mass and fat mass, decreased therapeutic potential and ~20% of cancer-related deaths. While several studies have demonstrated changes to components of the muscle microenvironment with cancer cachexia, none have comprehensively assessed changes to cellular dynamics across the duration of cachexia development.
    METHODS: Single-cell RNA-sequencing was performed on hindlimb muscles of male mice with 2-, 2.5- and 3.5-week subcutaneous Lewis-lung carcinoma tumours. Cell population changes were confirmed with flow cytometry.
    RESULTS: Body mass (-0.51 g; p = 0.0014) and lean mass (-0.85 g; p = 0.0134) were decreased at 2.5 weeks and were significantly lower than sham. Increases in fat mass were attenuated starting at 2 weeks (0.70 g; p = 0.0408) compared to sham (1.55 g), and muscle cross-sectional area decreased at 3.5 weeks (-14.81%; p = 0.0022) compared to sham. We report a novel cachexia-associated satellite cell subcluster, comprising 71.1% of the population at 3.5 weeks, corresponding with a +20.33% increase in cell size (p = 0.0266) and +19.73% increase in the proportion of activated PAX7+MYOD+ cells after 24 h cultured on individual myofibres (p = 0.0226). This cachexia-associated subcluster was also present in C26 tumour-bearing mice and had a unique gene expression signature compared to other muscle wasting disorders. The cachexia-associated subcluster was enriched for signalling pathways (IL-17, TNF, p53, NF-κB, FoxO, adipocytokines, NOD-like receptor, MAPK and JAK-STAT) implicated in satellite cell dysfunction in cancer cachexia. Prior to the emergence of cachexia-associated satellite cells, increases in CD11b+ (+928.01%; p < 0.0001), Ly6Clow (+1080.85%; p < 0.0001), Ly6Chigh (+920.33%; p = 0.0002), F4/80+CD206- (+299.22%; p = 0.0039), F4/80+CD206+ (+1466.40%; p < 0.0001) immune cell populations were observed at 2 weeks compared to sham and returned to baseline by 2.5 weeks. There was also an increase in PDGFRα+ fibro-adipogenic progenitors at 2 weeks (+53.44%; p = 0.0398) and decreased CD31+ endothelial cells at 2 weeks (-57.37%; p = 0.0014) and 3.5 weeks (-39.78%; p = 0.0213) compared to sham, with no change in ITGA7+ satellite cells (p = 0.4271). Cell communication analyses revealed a decline in cell communication with cancer cachexia in all cells except for monocytes/macrophages, and a decrease in cell adhesion-related signalling in cachexia-associated satellite cells, which is important for satellite cell differentiation, and may help to explain differentiation defects with cachexia.
    CONCLUSIONS: We describe a novel satellite cell subcluster unique to cachexia. We also identified increased immune cell and fibroadipogenic progenitor content and decreased endothelial cell content that precede muscle wasting with cancer, suggesting a role for these cell populations in satellite cell dysfunction and muscle atrophy in this condition.
    Keywords:  cancer cachexia; muscle atrophy; muscle satellite cells; single‐cell RNA sequencing; skeletal muscle
    DOI:  https://doi.org/10.1002/jcsm.70260
  3. Trends Endocrinol Metab. 2026 Mar 26. pii: S1043-2760(26)00041-X. [Epub ahead of print]
      Cancer cachexia lacks effective therapies due to an incomplete understanding of its upstream drivers. A recent study by Morigny et al. identifies one-carbon metabolism as a conserved endocrine-metabolic program that links tumor signals to skeletal muscle hypermetabolism and systemic energy imbalance, highlighting methyl-donor pathways as actionable targets for treating cachexia.
    Keywords:  IL-6; cancer cachexia; glucose hypermetabolism; muscle atrophy; one-carbon metabolism
    DOI:  https://doi.org/10.1016/j.tem.2026.02.006
  4. Acta Neuropathol. 2026 Mar 26. pii: 32. [Epub ahead of print]151(1):
      Selective vulnerability of motor neurons is a defining feature of amyotrophic lateral sclerosis (ALS) and provides a valuable framework for uncovering mechanisms that distinguish resilient from vulnerable neuronal populations. We investigated whether dysregulation of neuroprotective microRNAs (miRNAs), miR-9-5p and miR-124-3p, contributes to the differential susceptibility of motor neuron subtypes. We focused on cervical spinal motor neurons (SMNs), which undergo drastic degeneration in ALS, and oculomotor neurons (OMNs), which remain functionally intact and rarely degenerate, allowing preservation of eye movement in ALS patients. Using a modified multiplexed fluorescent in situ hybridization protocol combined with immunofluorescence, we quantified the expression of miR-9-5p and miR-124-3p in cervical SMNs and OMNs from ALS and control cases. We observed significant downregulation of both miRNAs in ALS SMNs, while their expression was maintained in ALS OMNs. Stratification of ALS SMNs by TDP-43 pathological status revealed similarly reduced miRNA expression in neurons with and without cytoplasmic inclusions, suggesting that miRNA downregulation occurs independently of visible TDP-43 pathology. We assessed the localization of the Dicer cofactor TRBP and found that it colocalized with TDP-43 inclusions in ALS SMNs, suggesting that TRBP sequestration could prevent proper miRNA processing. However, TRBP remained normally localized in neurons without cytoplasmic inclusions, indicating that sequestration cannot fully account for miRNA reduction across all ALS motor neurons. These findings support a model in which early or subtle disruptions, preceding visible pathology, may also contribute to miRNA downregulation in ALS. By identifying preserved miRNA networks as correlates of oculomotor neuron resilience in ALS, this work also exposes new therapeutic targets potentially capable of reinstating miRNA expression and reprogramming vulnerable SMNs.
    Keywords:  Amyotrophic lateral sclerosis; Fluorescent in situ hybridization; Selective motor neuron vulnerability; TDP-43; miR-124-3p; miR-9-5p
    DOI:  https://doi.org/10.1007/s00401-026-03005-6
  5. bioRxiv. 2026 Mar 04. pii: 2026.03.04.709625. [Epub ahead of print]
      Mitochondrial structural plasticity is a critical adaptive response to cellular stress, yet the transcriptional networks governing the formation of specialized mitochondrial architectures remain poorly defined. Here, we identified and demonstrated that activating transcription factor 4 (ATF4), the master regulator of the integrated stress response, directly regulates mitochondrial morphological remodeling through a novel ATF4-NRF1/Nrf2-MFN2 signaling axis. Using serial block-face scanning electron microscopy and three-dimensional reconstruction in Drosophila flight muscle, primary myotubes, and human skeletal muscle, we show that overexpression of ATF4 promotes significant mitochondrial elongation, increased cristae concentration, enhanced mitochondrial-endoplasmic reticulum contact site (MERC) formation, and the initiation of Mitochondrial Nanotunnels. In contrast, loss of ATF4 results in mitochondrial fragmentation and impaired aerobic capacity. Chromatin immunoprecipitation sequencing reveals direct ATF4 binding at the promoters of the genes encoding NRF1 and Nrf2, which in turn regulate MFN2 expression. Small-molecule inhibition studies further establish that activation of this hierarchical pathway is both necessary and sufficient for stress-induced mitochondrial structural adaptation. Together, these findings position ATF4 as a master regulator of mitochondrial architectural plasticity, providing a direct mechanistic link between cellular stress signaling and organelle remodeling.
    DOI:  https://doi.org/10.64898/2026.03.04.709625
  6. bioRxiv. 2026 Mar 18. pii: 2026.03.16.710895. [Epub ahead of print]
       Background: Regulated in development and DNA damage 1 (REDD1) is a highly inducible molecule that plays a role in numerous physiological and pathophysiological processes. It is a well-established negative regulator of mammalian target of rapamycin complex 1 (mTORC1), which is critical for maintaining elevated fatty acid-to-glucose oxidation ratio in the heart. In addition, REDD1 deletion results in hyperglycemia, suggesting that REDD1 is critical for tissue glucose metabolism. The role of REDD1 in regulating cardiac glucose and/or fatty acid metabolism in response to physiologic or pathophysiologic cues, however, remains unexplored.
    Methods: Herein, we utilize AC16 cardiomyocytes with REDD1 deletion, as well as mice with global or cardiomyocyte-specific deletion of Redd1 , and their respective controls. We also subject these mice cardiac pressure overload using transverse aortic constriction (TAC) for 2 weeks or sham operation as a control. To examine the molecular regulators of glucose oxidation, we utilized qPCR and western blotting to evaluate pyruvate dehydrogenase (PDH) kinase ( PDK ) and phospho-PDH (pPDH) levels, respectively. We also directly measured PDH activity and glucose-driven cellular respiration. To investigate the complete REDD1-dependent transcriptome and metabolome, we performed RNA-sequencing (RNA-Seq) and untargeted metabolomics, respectively. To determine if the observed gene expression changes were dependent upon transcription factor peroxisome proliferator-activated receptor alpha (PPARα), we utilized an established pharmacologic PPARα inhibitor, GW6471. Here, we measured PPARα activity directly, as well as the expression of its target genes. In order to determine if our observed effects were mTORC1-dependent, we utilized mTORC1-specific inhibitor, everolimus. Finally, we measured cardiac hypertrophy using gravimetric analyses (heart weight (HW)-to-body weight (BW) or HW-to-tibia length (TL) ratios) and histological analyses of cardiomyocyte cross sectional area (CSA). We also measured mRNA and protein levels of pathological hypertrophic markers Natriuretic Peptide B ( Nppb) and Cardiac Ankyrin Repeat Protein (CARP), respectively.
    Results: Our data demonstrate that physiological levels of glucose induce REDD1 expression in cardiomyocytes. Further, we show that in cardiomyocytes or the hearts of mice with REDD1 deletion, there is elevated PDK4 expression, as well as increased levels of pPDH (S300 and/or S293) and reduced PDH activity. Interestingly, everolimus treatment has no effect on these alterations. In vitro , we also observe elevated glycolysis and glycolytic capacity, and reduced maximal respiratory capacity (MRC) in the presence of glucose. Interestingly, our RNA-Seq data reveals the upregulation of genes involved in fatty acid catabolism. Further, we demonstrate that PPARα activity is enhanced, and everolimus treatment also has no effect on this parameter. Additionally, we show that treatment of cardiomyocytes with GW6471 normalizes the expression of its target genes ( PDK4 , ACSL1 ) and levels of pPDH (S300), that are elevated in cells with REDD1 deletion. Finally, we observe elevated REDD1 in the hearts of mice following TAC. Moreover, we show reduced HW/BW, HW/TL, cardiomyocyte CSA, and levels of cardiac Nppb and CARP in mice with cardiomyocyte Redd1 deletion subjected to TAC versus controls also subjected to TAC. Importantly, TAC-induced reductions in cardiac Pdk4 and pPDH (S293 and S300), are normalized to control levels in mice with Redd1 deletion subjected to TAC.
    Conclusions: Together, our findings suggest that physiological glucose-induced and pathological pressure overload-induced REDD1 is required for enhancing glucose oxidation and suppressing fatty acid oxidation in cardiomyocytes. In this way, REDD1 supports cardiac hypertrophic growth. We also outline a mechanism whereby REDD1 inhibits PPARα activity, thereby inhibiting the expression of its target genes, including PDK4 and those involved in fatty acid oxidation. Finally, we demonstrate that these effects are independent of REDD1's ability to inhibit mTORC1.
    DOI:  https://doi.org/10.64898/2026.03.16.710895
  7. Mech Ageing Dev. 2026 Mar 21. pii: S0047-6374(26)00030-8. [Epub ahead of print]231 112178
      Muscle atrophy and functional decline are shared manifestations of aging and neuromuscular pathologies. Deciphering the molecular mechanisms underlying muscle decline in these conditions has been slow, partly due to the difficulties of molecularly characterizing muscle fibers (the most abundant cell type in skeletal muscle). In contrast to single-cell RNA sequencing (scRNA-seq), which cannot resolve multinucleated fibers, single-nucleus RNA sequencing (snRNA-seq) enables gene expression profiling from isolated nuclei of hard-to-dissociate solid tissues, providing a key advantage for studying skeletal muscle. This paper presents a detailed protocol for proper tissue dissociation and nuclei isolation from skeletal muscle, optimized for downstream transcriptomic analysis. Additionally, we outline a basic bioinformatics pipeline applicable to snRNA-seq data from skeletal muscle, focusing on transcriptomic comparisons between homeostatic and atrophic muscle states.
    Keywords:  Atrophy; Single-nucleus; Skeletal muscle
    DOI:  https://doi.org/10.1016/j.mad.2026.112178
  8. bioRxiv. 2026 Mar 06. pii: 2026.03.04.705181. [Epub ahead of print]
    MoTrPAC Study Group
      The Molecular Transducers of Physical Activity Consortium (MoTrPAC) was established to systematically characterize the molecular basis of the health benefits of exercise. Here, we present the integrative, multi-omics response of human skeletal muscle to acute endurance (EE) and resistance (RE) exercise. Distinct temporal responses were observed, with changes in ATAC-seq, phosphoproteome, and metabolome occurring before changes in the transcriptome and proteome. These distinct temporal multi-omic dynamics were used to identify transcriptional regulatory hubs converging around MEF2A and NFIC regulation of autophagy, angiogenesis and metabolism. Further, early RE-specific phosphoproteome signatures counteracted epigenetic modifications and downregulated transcripts involved in protein turnover. Additional findings include suppression of HIPK2/3 kinase signatures linked to the acute exercise regulation of sarcomeric proteins TTN, NEB, ANKRD2 and LMOD2. Our data demonstrate distinct temporal regulation across the multi-omic landscape of human skeletal muscle, with EE and RE eliciting common and unique molecular signatures.
    DOI:  https://doi.org/10.64898/2026.03.04.705181
  9. Front Neurosci. 2026 ;20 1802313
      Amyotrophic lateral sclerosis (ALS) is a fatal neurodegenerative disorder characterized by progressive loss of upper and lower motor neurons. Despite marked genetic and pathological heterogeneity, a unifying pathogenic framework remains lacking. We propose that axonal transport impairment represents an early and convergent but genotype-modulated upstream vulnerability in ALS, contributing to distal synaptic failure, bioenergetic stress, protein aggregation, neuroinflammation, and neuronal death. Across many ALS models, including SOD1, TARDBP (TDP-43), FUS, and C9orf72, transport deficits are frequently detectable in presymptomatic stages, often preceding overt motor neuron loss or clinical manifestation, although temporal ordering varies by molecular subtype. Human data from induced pluripotent stem cell-derived motor neurons and neuroimaging in mutation carriers further support early transport dysfunction in both familial and sporadic ALS. We synthesize genetic, cellular, and systems-level evidence demonstrating that diverse ALS-associated mutations converge on intracellular trafficking machinery through distinct but interacting mechanisms, disrupting long-range cargo delivery and clearance in motor neurons. This framework provides a mechanistic basis for selective motor neuron vulnerability, the dying-back pattern of neuromuscular junction degeneration, and the emergence of downstream pathological hallmarks including mitochondrial dysfunction, excitotoxicity, aggregation, and inflammation. This model generates testable predictions regarding presymptomatic transport biomarkers and the timing of therapeutic intervention. We discuss implications for biomarker development and therapeutic strategy, proposing restoration of axonal transport as a central component of rational multimodal disease modification in ALS.
    Keywords:  amyotrophic lateral sclerosis; axonal transport; biomarkers; neurodegeneration; neuromuscular junction
    DOI:  https://doi.org/10.3389/fnins.2026.1802313
  10. RNA Biol. 2026 Mar 24.
      microRNAs (miRNAs) are endogenous ~22 nucleotide long, non-coding RNAs that post-transcriptionally regulate gene expression. During miRNA biogenesis, stem-loop-containing miRNA precursors are enzymatically cleaved to form a small RNA duplex. Cleavage positions are determined based on the position of structural motifs and junctions on the stem-loop precursor. The duplex end containing a favourable 5' nucleotide and lower thermodynamic stability is subsequently loading into an Argonaute protein. Typically, one duplex (guide) strand is retained in Argonaute and becomes functional whereas the other (passenger) strand is degraded. Therefore, accurate structural predictions of miRNA intermediates and quantification of duplex end stabilities are important towards understanding miRNA biogenesis. Here, we compiled predicted secondary structures for all Caenorhabditis elegans miRNA hairpins and duplexes at physiologically relevant temperatures. We developed a new approach to calculate the thermodynamic stability of miRNA duplex ends, which resulted in improved predictions of miRNA strand selection. Our approach introduces hard constraints to folding algorithms to restrict base-pairing of terminal nucleotides, which improves modelling of in vivo duplex end unwinding. We propose that constrained RNA folding can be used to evaluate local stabilities within an RNA secondary structure.
    Keywords:  3p/5p; arm asymmetry; duplex end stability; miRNA; strand selection
    DOI:  https://doi.org/10.1080/15476286.2026.2649359
  11. BMC Med. 2026 Mar 26.
       BACKGROUND: Musculoskeletal injuries comprise a growing source of disability worldwide, and the recovery of muscle strength following injury is a critical determinant of patient reported outcomes. Females experience exacerbated muscle atrophy, poorer outcomes, and higher re-injury rates, necessitating a comprehensive interrogation of sex-specific skeletal muscle differences. Our purpose in the current study was to perform an unbiased transcriptomic profiling of muscle samples to identify putative sex-specific molecular targets to enhance recovery in patients who underwent anterior cruciate ligament reconstruction (ACLR).
    METHODS: We performed cellular phenotyping, bulk and single nucleus RNA-sequencing on muscle biopsy samples obtained from thirty-six participants (18 M, 18F). Muscle samples were obtained from the ACLR and contralateral limb with follow-up tissue collection of the injured limb also occurring at seven days and four months post-ACLR. Transcriptomic analyses illuminated putative molecular mechanisms through which sex influences muscle recovery following acute injury.
    RESULTS: Females exhibited greater muscle atrophy relative to males at 4 months post-ACLR compared to the uninjured limb. Bulk and single nucleus paired-limb transcriptomic analyses revealed the emergence of sex-specific myonuclear signaling cascades that demonstrate impaired reactive oxygen species scavenging in females. Females exhibited attenuated SOD2 expression that was associated with increased indices of oxidative stress and protein damage. Within females, angiogenesis signaling was also impaired and associated with capillary rarefaction after reconstructive surgery.
    CONCLUSIONS: These findings reveal inherent sex-based differences in muscle pathology that likely necessitate unique clinical treatments following musculoskeletal injury.
    Keywords:  ACL; Anterior cruciate ligament reconstruction; Capillary; Reactive oxygen species; Skeletal muscle
    DOI:  https://doi.org/10.1186/s12916-026-04818-8