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Cells

Cells is an international, peer-reviewed, open access journal on cell biology, molecular biology, and biophysics, published semimonthly online by MDPI.
The Nordic Autophagy Society (NAS) and the Spanish Society of Hematology and Hemotherapy (SEHH) are affiliated with Cells and their members receive discounts on the article processing charges.
Indexed in PubMed | Quartile Ranking JCR - Q2 (Cell Biology)

All Articles (19,993)

Chitinase-like Proteins YKL-40 and YKL-39 in Colorectal Cancer

  • Tsvetomira Ivanova,
  • Maria Kazakova and
  • Victoria Sarafian
  • + 4 authors

YKL-40 and YKL-39 chitinase-like proteins (CLPs) are secreted glycoproteins involved in inflammation, macrophage polarization, and carcinogenesis. Their expression is significantly upregulated in various inflammatory and immunological conditions, including several cancers, suggesting a role as potential diagnostic markers. Colorectal cancer (CRC) remains a significant global health concern, with a continued need for reliable biomarkers to stratify patients and predict therapy response. In this study, we assessed tissue, plasma, and transcript levels of both CLPs in CRC. We found a strong association between their tissue expression and tumor budding. Notably, plasma YKL-39 levels were lower in CRC patients than in controls, while YKL-40 concentrations were higher in the patient group. Gene expression analysis for both CLPs in white blood cells (WBCs) did not reveal statistical significance between CRC patients and controls. These findings enhance our understanding of the clinical relevance of these molecular signatures and support their potential application as biomarkers in CRC stratification.

30 January 2026

Protein and gene expression levels of YKL-40 and YKL-39 in blood samples. Difference in the median secretory plasma circulating forms of YKL-40 and YKL-39 in CRC and in healthy patients. Medians across groups are compared using Mood’s median test and quantile regressions, with the latter adjusting for age and sex. Analytical sample size: N = 64 in (panel a), from which n = 32 CRC and n = 32 control samples; N = 53 in (panel b), from which n = 29 CRC and n = 24 control samples; N = 52 in (panel c), from which n = 32 CRC and n = 20 control samples; and N = 59 in (panel d), from which n = 32 CRC and n = 27 control samples; p—p value from bivariate median test, p adj.—p-value from quantile regression, B-H p/p adj.—Benjamini–Hochberg corrected version of the median test or quantile regression-associated p value, NA—quantile regression effect estimates for CRC vs. control group could not be estimated due to collinearity in the models.

Acute lung injury (ALI) is a clinically severe respiratory disorder, of which autophagy is the crucial mechanism. Exosomes have the potential to treat ALI, but the role of adipose-derived exosomes (ADEs) in the autophagy of ALI remains unclear. Using an LPS-induced ALI model, the effects of ADE isolated from a lean or diet-induced-obese (DIO) mouse and ADE-carried miRNAs were investigated. After administration of ADEs, the levels of autophagy-related molecules were determined by qRT-PCR, Western blotting, and immunohistochemical staining. Then, a miRNA targeting HMGB1 was screened by bioinformatic analysis and a dual-luciferase reporter assay, and its effect on the HMGB1-driven autophagy in an ALI mouse was investigated as ADEs. The data showed that LPS caused lung injury and activated HMGB1-driven autophagy. The ADEs from a lean mouse or DIO mouse significantly alleviated histopathological lesions, and they inhibited HMGB1-driven autophagy by down-regulating LC3, Beclin-1, and Atg5; the effects of ADEs were not significantly different between a lean and DIO mouse. Of the miRNAs carried by ADE, moreover, miR-142a-3p could specifically bind to HMGB1 mRNA, and up-regulation of pulmonary miR-142a-3p suppressed HMGB1-driven autophagy and relieved lung injuries. Our results indicated that miR-142a-3p and ADEs mitigate LPS-induced ALI by inhibiting HMGB1-driven autophagy, providing new insights on the prevention and treatment of ALI.

30 January 2026

Characteristics of DIO mouse model and adipose-derived exosome. (A) Body weight and (B) Lee’s index (N = 15), (C) TC content and (D) TG content (N = 10), and (E) leptin level and (F) adiponectin level of mice fed with diets after 12 weeks (N = 10). (G,H) Representative images obtained by TEM of DIO-Exo and Lean-Exo, respectively. (I,J) Size distributions of DIO-Exo and Lean-Exo, respectively. (K) Levels of CD9, CD63, and Alix of DIO-Exo and Lean-Exo.
  • Correction
  • Open Access

In the original publication [...]

30 January 2026

N1ICD impaired the hypoxia/reoxygenation elevated expression of PTEN in neonatal cardiomyocytes. (A) The mRNA level of PTEN was analyzed by real-time PCR; (B) the protein level of PTEN was analyzed by real-time PCR; (C) the protein level of PTEN was analyzed by immunofluorescence staining assay; (D) ChIP-RT-PCR and (E) ChIP-qPCR were performed to analyze the enrichment of PTEN promoter in the ChIP products of Hes1; (F) the promoter activity of PTEN was evaluated by luciferase assay; N = 3; * p < 0.05, ** p < 0.01 versus indicated group.

Endothelial cell (EC) barrier integrity is tightly regulated by the activity of the non-muscle myosin light chain kinase (nmMLCK) under diverse pathological inflammatory conditions (pneumonia, sepsis) and exposure to mechanical stress. Inflammatory stimuli, including lipopolysaccharide (LPS), cytokines, and damage-associated molecular patterns (DAMPs), increase EC permeability through nmMLCK-dependent EC paracellular gap formation. However, the exact mechanisms by which nmMLCK regulates vascular barrier dysfunction in acute lung injury (ALI) remain incompletely understood. We hypothesized that inflammation-induced ROS results in the peroxynitrite-mediated nitration of nmMLCK that contributes to EC barrier disruption. Human lung EC exposure to either the peroxynitrite donor, SIN-1, or to LPS, triggered significant nmMLCK nitration, which was abolished by the oxidant scavenger, MnTMPyP. Mass spectrometry of SIN-1-treated nmMLCK identified multiple nitrated tyrosines. Nitration of Y1410 proved a critical PTM as site-directed substitution with alanine (Y1410A) abolished both SIN-1- and LPS-induced nmMLCK nitration. nmMLCK nitration disrupts wild-type nmMLCK interaction with Kindlin-2, a cytoskeletal regulator of vascular barrier stability, whereas EC transfected with the Y1410A nmMLCK mutant exhibited preserved Kindlin-2 binding, reflected by alterations in trans-EC electrical resistance (TEER). Consistent with these observations, LPS-challenged murine lungs displayed enhanced nmMLCK nitration and diminished nmMLCK-Kindlin-2 association. Functionally, SIN-1 markedly impaired EC barrier integrity (TEER), which was not observed in ECs expressing the Y1410A mutant. Together, these findings suggest that nmMLCK nitration at Y1410 is a critical molecular mechanism contributing to vascular leakage, highlighting this modification as a potential therapeutic target to reduce inflammation-induced vascular permeability. Given nmMLCK’s established role in barrier regulation, we hypothesized that LPS-induced peroxynitrite formation may promote the nitration of nmMLCK tyrosine residues: a PTM that potentially contribute to nmMLCK’s regulation of EC barrier integrity.

29 January 2026

Protein nitration induced by SIN-1 disrupts endothelial cell barrier function. (A) Real-time changes in EC barrier function following SIN-1 treatment were assessed by measuring transendothelial electrical resistance (TER). Data are presented as mean ± SEM, n = 4. (B) Detection of nmMLCK nitration. ECs were pretreated for 1 h with PBS or MnTMPyP (25 μM), followed by SIN-1 (1 mM) for 1 h. Cell lysates were subjected to immunoprecipitation (IP) with anti-MLCK antibody and immunoblotting (IB) with anti–3-nitrotyrosine (3-NT). Membranes were re-probed with anti-MLCK for loading control. SIN-1 increased nmMLCK nitration, which was attenuated by MnTMPyP. The arrow indicates the nitrated form of nmMLCK. (C) hPAECs were stimulated with LPS (1 μg/mL, 4 h) in the presence or absence of MnTMPyP (25 μM). LPS-induced nmMLCK nitration was abolished by MnTMPyP, indicating that peroxynitrite mediates LPS-induced nmMLCK nitration in endothelial cells. (D) Densitometry quantification of nitrated nmMLCK levels normalized to total nmMLCK, as determined from the immunoprecipitation results in panel (C).

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Cells - ISSN 2073-4409