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Povzetek: Background/Objectives: Fabry nephropathy (FN) is a progressive complication of Fabry disease that significantly affects patient outcomes. However, the molecular mechanisms underlying FN are not yet fully understood. Recent advances in transcriptomics have opened new perspectives for the identification of early changes in gene expression associated with the development and progression of the disease. Methods: This study includes a systematic review of transcriptomic findings in chronic kidney disease, with a particular focus on FN, and presents a proof-of-concept RNA sequencing analysis of peripheral blood samples from six Fabry patients with progressive nephropathy and six age- and sex-matched control subjects. Results: The analysis identified 41 differentially expressed genes (DEGs), all of which were upregulated in Fabry patients. Enrichment analysis revealed significant involvement in immune-related pathways, including neutrophil degranulation, interferon, and cytokine signaling. Cell type enrichment revealed that neutrophils and other immune cells are key players in this process. Conclusions: These results suggest that immune and inflammatory mechanisms play a central role in the pathogenesis of FN. The identified DEGs are involved in pro-fibrotic signaling and immune system activation and shed light on possible mechanisms underlying fibrosis, podocyte injury, and kidney damage. This study contributes to a deeper understanding of FN and may faci
Ključne besede: Fabry nephropathy, RNA sequencing, transcriptomic, Fabry disease, lysosomal storage disease
Objavljeno v DiRROS: 14.04.2026; Ogledov: 208; Prenosov: 118
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Povzetek: The main objective of this study was to investigate transcriptomic differences in subcutaneous adipose tissue between the local Krškopolje pig and modern hybrids, and to assess the effects of a reduced-protein diet in both genotypes. Comparative analysis between Krškopolje pigs and modern crossbreeds revealed 375 differentially expressed genes, with 189 upregulated and 186 downregulated in Krškopolje pigs. The upregulated genes were enriched in processes related to adipogenesis (SLC7A10, ADIRF, INHBB, SFRP2), extracellular matrix remodeling (COL6A5, COL4A5, COL2A1), calcium signaling (TRPV4, CAMK2A, CALML5), pro-inflammatory cytokines (IL1A, TNFSF9, CXCL8, PTGS2), and cholesterol metabolism (CYP1A1, CYP2A19, CES1). In contrast, the reduced-protein diet induced only minor transcriptional changes at the individual gene level in both Krškopolje pigs and modern crossbreeds.
Ključne besede: RNA sequences, pigs, adipose tissue, high throughput sequencing, RNA, transcriptome profiles, gene expression, locel breeds, hybrid breeds, data, data set
Objavljeno v DiRROS: 20.03.2026; Ogledov: 364; Prenosov: 65
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Povzetek: Introduction. IgA vasculitis nephritis (IgAVN) manifests in up to 84% of adult patients with IgA vasculitis (IgAV) and is associated with an elevated risk of progression to chronic kidney failure. The underlying pathogenic mechanism of adult IgAVN in leukocytes remain largely uncharacterised. Although natural killer (NK) cells were investigated in paediatric IgAV, their specific role in the pathogenesis of adult IgAV has yet to be elucidated. Methods. RNA sequencing of leukocytes from adult IgAV patients and healthy controls (HC) was performed. NK cells’ cytotoxicity was assessed using calcein-AM stained K562 cells, and exocytosis was measured by LAMP-1/CD107a expression. Intracellular perforin and granzyme B were analyzed via flow cytometry, and cytokine secretion was measured by Luminex xMAP. Interferon-induced genes were validated with qPCR. Results. Principal component analysis (PCA) of leukocyte gene expression profiles distinguished IgAV patients from HC. Pathway enrichment analysis showed differences in patients’ subsets - Interferon signalling Reactome pathway was observed only in sample from patients with skin-limited IgAV (sl-IgAV) and was confirmed by increased expression of interferon-induced genes using qPCR. Only in samples from IgAVN patients enrichment of NK cell-mediated cytotoxicity KEGG pathway was found. NK cells from IgAVN patients showed significantly decreased cytotoxicity compared to samples from sl-IgAV patients (p = 2.53 × 10− 2). The % of CD107a+-NK cells significantly increased after stimulation in HC (p = 9.7 × 10− 3) and in sl-IgAV patient samples (p = 2.21 × 10− 2) while only a minor increase was observed in samples of IgAVN patients. IgAVN patients exhibited a decreased % of perforin+ NK cells compared to HC. Following phytohemagglutinin (PHA)/interleukin (IL)-2 stimulation, a significant reduction in intracellular perforin level was observed in HC (p = 2.53 × 10− 2), but not in IgAVN patients NK cells. Interferon (IFN)-ϒ and macrophage inflammatory protein (MIP)-1β were significantly decreased in NK cell culture supernatants from IgAVN patients (p = 2.64 × 10− 2 and p = 2.65 × 10− 2 respectively). Conclusion. Patients with IgAVN exhibited impaired cytotoxic and immunomodulatory functions of NK cells, along with a marked absence of interferon signaling in PBMCs. Further studies are needed to confirm if discrimination of patient subsets based on leukocyte samples might be of clinical use and if deregulated NK function might contribute to the pathogenesis of nephritis in adult IgAV.
Ključne besede: immunoglobulin A, IgAVN, IgA vasculitis, RNA sequencing, kidney diseases, immunoglobulins, killer cells, adults
Objavljeno v DiRROS: 12.11.2025; Ogledov: 625; Prenosov: 316
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Povzetek: The Slovenian autochthonous breed, Krškopolje pig, is known for high fatness and better adaptability to different environmental conditions and feed resources. However, the metabolic processes underlying these adaptations, especially in response to different diets, have not yet been studied. A deeper understanding of these mechanisms could provide valuable insights into the breed’s adaptability to different environmental conditions. Therefore, the main objective of this study was to evaluate the effect of a low-protein (LP) diet on adipose tissue in Krškopolje pigs reared in either organic outdoor (n = 2 × 12) or conventional indoor (n = 2 × 14) systems. In the outdoor system, the LP diet had no effect on adipocyte size compared to the control (high-protein) diet, while it increased lipogenic enzyme activities and monounsaturated fatty acid content, and decreased polyunsaturated fatty acid content (p < 0.05). RNA sequencing revealed the upregulation of 28 genes and the downregulation of 37 genes. The upregulated genes were mainly involved in lipid metabolism (ACLY, FASN, ACACA, MOGAT2), oxidative stress, and mitochondrial function. In the indoor system, pigs on the LP diet had smaller adipocytes (p < 0.05), whereas no differences were detected in the lipogenic enzyme activities or fatty acid composition (p > 0.10). RNA sequencing revealed 30 upregulated and 28 downregulated genes. In the indoor system, heat shock proteins (HSP70.2, HSPA6) were upregulated in pigs on the LP diet, while genes involved in the innate immune system (MSR1, TREM2, CSF3R) were downregulated. To conclude, the present study showed that LP diet affected adipose tissue metabolism and gene expression in Krškopolje pigs, with different transcriptomic responses observed in outdoor and indoor rearing conditions.
Ključne besede: pig, local breed, low-protein diet, indoor system, outdoor system, subcutaneous adipose tissue, RNA-sequencing, nCounter gene expression assay
Objavljeno v DiRROS: 12.05.2025; Ogledov: 1120; Prenosov: 687
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Povzetek: After plants transitioned from water to land around 450 million years ago, they faced novel pathogenic microbes. Their colonization of diverse habitats was driven by anatomical innovations like roots, stomata, and vascular tissue, which became central to plant-microbe interactions. However, the impact of these innovations on plant immunity and pathogen infection strategies remains poorly understood. Here, we explore plant-virus interactions in the bryophyte Marchantia polymorpha to gain insights into the evolution of these relationships. Virome analysis reveals that Marchantia is predominantly associated with RNA viruses. Comparative studies with tobacco mosaic virus (TMV) show that Marchantia shares core defense responses with vascular plants but also exhibits unique features, such as a sustained wound response preventing viral spread. Additionally, general defense responses in Marchantia are equivalent to those restricted to vascular tissues in Nicotiana, suggesting that evolutionary acquisition of developmental innovations results in re-routing of defense responses in vascular plants.
Ključne besede: plant-virus interactions, bryophytes, virome analysis, high-throughput sequencing, virology, pathogenic, innovations, interactions, RNA viruses, plant defense response, botany
Objavljeno v DiRROS: 02.10.2024; Ogledov: 1502; Prenosov: 880
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