Browse publications by year: 2024

  1. Ong HS, Krishnasamy S, Rajandram R, Amirthalingam A, Yusof TNT, Sivalingam S
    Ann Pediatr Cardiol, 2024;17(4):264-271.
    PMID: 39698423 DOI: 10.4103/apc.apc_110_24
    BACKGROUND: The management of ventricular septal defect (VSD) alongside mitral regurgitation (MR) in pediatric patients remains a contentious issue due to the intricacies of cardiac surgery and the need to minimize ischemic time. Despite observations of MR regression following VSD closure, definitive guidelines for this patient subset are lacking, particularly concerning the management of the subgroup of patients with moderate MR. The objective of the study is to explore the factors influencing the choice between surgical intervention and conservative management for the mitral valve (MV) in VSD patients with moderate MR.

    MATERIALS AND METHODS: A retrospective cohort study from January 2000 to December 2015, we analyzed management trends and focused on 53 patients with both VSD and moderate MR. This cohort was subdivided into four groups: first by their MV pathology, and then stratified by the receipt of intervention towards the diseased MV. Our primary goal was to identify correlations, especially concerning surgical outcomes such as mortality and need for re-operation. Statistical significance is determined when the P value is lower than 0.05.

    RESULTS: There were no notable differences in preoperative variables across four cohort groups, apart from the cross-clamp duration which was longest in Group B intervention. Outcome analysis showed survival rates that were higher in cohort groups that underwent intervention toward the disease MV regardless of existing MV morphology, although results were not statistically significant. Cox model analysis found no correlation between the cohort groups and postoperative outcomes, but cross-clamp duration significantly correlated with mortality.

    CONCLUSIONS: In cases of VSD with moderate MR with associated pathologies of the valvular apparatus, opting for MV repair (MVr) appears to improve survival outcomes without significantly increasing postoperative morbidity. Similarly, for patients with moderate MR and isolated annular dilatation, surgical MVr is observed to have better survival trend compared to the control group.

  2. Hu GW, Li CY, Zhang G, Zheng CJ, Ma FZ, Quan XY, et al.
    Quant Imaging Med Surg, 2024 Dec 05;14(12):8064-8082.
    PMID: 39698640 DOI: 10.21037/qims-24-1837
    BACKGROUND: Liver hemangiomas (HGs) are characterized by cavernous venous spaces delineated by a lining of vascular endothelial cells and interspersed with connective tissue septa. Typically, a liver HG has higher apparent diffusion coefficient (ADC) and T2 values than those of hepatocellular carcinomas (HCCs) and liver metastases, and lower ADC and T2 values than those of liver simple cysts. However, a portion of HGs shows ADC and T2 overlapping with those of HCC, liver metastasis, and simple cyst. When MRI is the first line examination for the liver, contrast enhanced imaging is commonly used to confirm the diagnosis of liver HG. Magnetic resonance diffusion-derived vessel density (DDVD) is a physiological surrogate of the area of microvessels per unit tissue area. DDVD is calculated according to: DDVD(b0b2) = Sb0/ROIarea0 - Sb2/ROIarea2, where Sb0 and Sb2 refer to the tissue signal when b is 0 or 2 (s/mm2). Sb2 and ROIarea2 can also be approximated by other low b-values (such as b=10) diffusion-weighted imaging (DWI). In this study, we conducted a preliminary evaluation of magnetic resonance DDVD pixelwise map (DDVDm) for liver HG diagnosis.

    METHODS: Three testing datasets were included. All imaging data were acquired at 3.0T. Dataset-1 consisted of 16 HGs (lesion diameter: 1.5-8.85 cm), 4 focal nodular hyperplasia (FNHs, lesion diameter: 1.72-5.7 cm), and 24 HCCs (lesion diameter: 1.83-12.77 cm), and DDVDm was reconstructed with b=0 and b=2 images. Dataset-2 consisted of 6 HGs (lesion diameter: 1.14-6.2 cm), and DDVDm was reconstructed with b=0 and b=10 images. Dataset-3 consisted of 28 HCCs (lesion diameter: 1.91-3.52 cm), and DDVDm was reconstructed with b=0 and b=2 images. For dataset-1 and dataset-2, a trained reader was required to make a diagnosis for a lesion solely based on DDVDm with 4 choices: (I) HG with confidence; (II) HG without confidence; (III) solid mass-forming lesion (MFL) with confidence; (IV) solid MFL without confidence. Then, three readers attempted to confirm whether DDVDm features summarized from dataset-1 and dataset-2 would be generalizable to dataset-3.

    RESULTS: For dataset-1 and dataset-2 together, the correct diagnosis was made by the trained reader in 90.9% (20/22) of the HGs (77.7% with confidence) and 96.4% (27/28) of the MFLs (85.7% with confidence). HG generally showed substantially higher DDVD signal relative to background liver parenchyma. Though not necessarily, HG DDVD signals could be similar to those of blood vessels. Some HGs showed DDVD signals higher or similar to that of kidneys which have a higher perfusion than the liver. MFL generally showed DDVD signals only slightly higher, similar to, or even slightly lower, than that of background liver parenchyma. The DDVDm features of dataset-3 were all consistent with MFL.

    CONCLUSIONS: When DDVDm is used to evaluate the liver, HG can be diagnosed with confidence in a substantial portion of patients without the need for a contrast enhanced scan. Our result will be relevant for HG confirmation when MRI is the first line examination for the liver.

  3. Umoru GU, Atangwho IJ, David-Oku E, Uti DE, Agwupuye EI, Obeten UN, et al.
    J Cell Mol Med, 2024 Dec;28(24):e70086.
    PMID: 39698791 DOI: 10.1111/jcmm.70086
    Tetracarpidium conophorum nuts are nutrient-dense Nigerian snacks associated with weight regulation. This study explores the nuts' impact on adipose tissue gene expression associated with low-grade inflammation. Ethanol whole extract (EWE), ethyl-acetate fraction (EAF) and the resulting residue (RES) were orally administered once daily to MSG-induced obese rats for 6 weeks (n = 6). Afterward, the RNA synthesis of inflammation-associated genes was measured, and GC-MS ligands in the extract and fractions were docked against their protein products in silico. The study found that in obese animals, PPAR-γ and Adiponectin expressions were down-regulated, while TNF-α was up-regulated, indicating an increased low-grade inflammatory process in adipose tissue. After 6-week oral treatments with EWE, EAF and RES, PPAR-γ and Adiponectin expressions increased significantly, while TNF-α expression decreased, suggesting the modulation of obesity-induced inflammation in adipose tissue. The in silico molecular docking analysis identified four lead compounds likely responsible for the observed effect, namely 6-Isopropenyl-4,8a-dimethyl-4a,5,67,8,8a-hexahydro-1H-naphthalen-2-one, 9,12,15-Octadecatrienoic methyl ester (Z,Z,Z), 9,12,15-Octadecatrienoic acid and Hexanedioic acid, bis(2-ethylhexyl). Of these compounds, 6-Isopropenyl-4,8a-dimethyl-4a,5,67,8,8a-hexahydro-1H-naphthalen-2-one demonstrated the strongest affinity to the binding cavities of PPARγ (-7.3 kcal/mol), Leptin (-5.2 kcal/mol), Adiponectin (-7.1 kcal/mol) and TNF-α (-6.3 kcal/mol) and was better than the standard drug, Orlistat (-6.7, -4.4, -6.8 and - 4.5 kcal/mol, respectively). The study reveals that T. conophorum nuts possess bioactive compounds/drug candidates that can exert positive modulation, at the molecular level, the low-grade inflammatory process associated with obesity, which normally facilitates the outset of complications.
    MeSH terms: Adipose Tissue/drug effects; Adipose Tissue/metabolism; Animals; Gene Expression Regulation/drug effects; Male; Up-Regulation/drug effects; Rats, Wistar; Rats; Molecular Docking Simulation*
  4. Lawrence JM, Tan SH, Kim DC, Tan KE, Schroeder SE, Yeo KS, et al.
    Zebrafish, 2024 Dec;21(6):385-393.
    PMID: 39316469 DOI: 10.1089/zeb.2024.0160
    Xenotransplantation of neuroblastoma cells into larval zebrafish allows the characterization of their in vivo tumorigenic abilities and high-throughput treatment screening. This established preclinical model traditionally relies on microinjection into the yolk or perivitelline space, leaving the engraftment ability of cells at the hindbrain ventricle (HBV) and pericardial space (PCS), sites valuable for evaluating metastasis, angiogenesis, and the brain microenvironment, unknown. To address this gap in knowledge, Casper zebrafish at 48 h postfertilization were microinjected with approximately 200 Kelly, Be(2)-C, SK-N-AS, or SY5Y cells into either the HBV or PCS. Fish were imaged at 1, 3, and 6 days postinjection and tumor growth was monitored at each timepoint. We hypothesized that engraftment ability and location preference would be cell line dependent. Kelly and SK-N-AS cells were able to engraft at both the HBV and PCS, with a near doubling in size of tumor volume during the 6 days observation period, with cells appearing to grow better in the HBV. Be(2)-C tumors remained static while SY5Y tumors decreased in size, with almost complete loss of volume at both sites. Therefore, the capability of neuroblastoma cell engraftment in zebrafish larvae is cell line dependent with a location preference.
    MeSH terms: Animals; Humans; Neoplasm Transplantation; Pericardium; Rhombencephalon; Transplantation, Heterologous; Zebrafish*; Cell Line, Tumor
  5. Tosi G, Kalckert A, Sivasubramanian AK, Romano D
    Atten Percept Psychophys, 2024 Nov;86(8):2866-2876.
    PMID: 39349922 DOI: 10.3758/s13414-024-02964-w
    The rubber hand illusion is a well-known experiment that allows manipulation of one's own body experience. The original questionnaire gauges both the illusion experience and unforeseen experiences acting as control statements. In particular, two statements pertain to the referral of touch originating from the rubber hand (RoT), and one concerns the feeling of ownership of the rubber hand (SoO). Despite its prominence, the rubber hand illusion questionnaire has not undergone thorough examination of its psychometric properties. The literature reveals a tendency to use RoT and SoO statements interchangeably. In this study, we employed Exploratory Graph Analysis to explore the item structure and compared the correlation between SoO and RoT items in various conditions. While SoO and RoT are closely linked, our findings suggest potential separation. SoO and RoT statements consistently correlate, yet hints emerge that RoT might represent a distinct facet of the illusion. Correlations diminish beyond the perihand space, indicating a nuanced relationship. Additionally, moderate relationships between control statements and those measuring the illusion suggest that even control statements are modulated by the illusion experience. This study underscores the need for further exploration into the psychometric properties of body illusion questionnaires, prompting reflections on the interpretation in light of these results.
    MeSH terms: Adult; Body Image; Female; Hand; Humans; Illusions*; Male; Ownership; Proprioception; Psychometrics*; Surveys and Questionnaires; Touch; Young Adult
  6. Romadhon PZ, Ashariati A, Bintoro SUY, Suryantoro SD, Windradi C, Mahdi BA, et al.
    Hemoglobin, 2024 Sep;48(5):301-307.
    PMID: 39497272 DOI: 10.1080/03630269.2024.2414102
    Patients suffering from thalassemia are recipients of routine transfusions leading to hemosiderosis. Taking iron chelating agents is mandatory. Several studies have shown different results regarding the occurrence of kidney complications in thalassemia patients who received iron-chelating agents. In this study, we were looking for kidney complications by examining human NAG urine/serum and NGAL urine/serum in thalassemia community in East Java community. The study was conducted cross-sectionally in the thalassemia community in East Java with a total sample of 91 patients aged 13-48 years. All thalassemia patients filled in demographic data, transfusion routines, duration of taking iron chelating agents, and length of time diagnosed with thalassemia. Laboratory tests included routine blood tests for ferritin, ureum, serum creatinine, human NAG urine or serum, and human NGAL urine or serum. Comparison tests (t-test, Mann-Whitney, and ANOVA, Kruskal-Wallis) were conducted to see if there were significant differences in the levels of human NAG urine and human NGAL urine serum based on age, sex, blood group, duration of transfusion, routine of transfusion, duration of taking iron chelating agents, and types of iron chelating drugs. Multivariate analysis was conducted to see whether some of these categories were related to abnormalities in human NAG urine or serum and human NGAL urine or serum. All 91 patients had normal creatinine values, yet some had abnormal serum NAG. There is a significant difference in urine human NAG and urine human NGAL levels at ages over 23 years (p = 0.05 and p = 0.01). Significant differences in human NGAL serum were also found in working and student patients (p = 0.028). Serum NGAL also differed in those taking deferasirox (p = 0.030) and significantly different human NGAL urine was also found in iron overload status (Ferritin ≥ 1000 ng.ml) (p = 0.006). There is no difference between human NAG urine/serum and human NGAL urine/serum based on sex, body mass index, blood type, hemoglobin less than 10 g/dl, routine transfusion once a month, duration of using iron chelation for more than 10 years, or splenomegaly status (splenomegaly, splenectomy, or no splenomegaly). The multivariate logistic regression results showed that age above 23 was a factor associated with abnormal urine human NAG levels (aOR = 3.79, 95% CI = 1.08-13.28). Students (aOR = 4.89, 95% CI = 1.48-16.16) with ages above 23 years (aOR = 3.69, 95% CI = 1.09-12.43) showed higher risk for an abnormal serum human NGAL levels. Patients with beta-thalassemia major exhibit noticeable tubular damage. Further research is encouraged to determine other factors behind tubular damage in the thalassemia community, particularly in Indonesia.
    MeSH terms: Adolescent; Adult; Cross-Sectional Studies; Female; Humans; Indonesia/epidemiology; Male; Middle Aged; Young Adult; Lipocalin-2/blood; Lipocalin-2/urine
  7. Wangchuk P, Umat C, Chong FY, Zaki FM, Abdullah A
    Audiol Neurootol, 2024 Nov 08.
    PMID: 39522501 DOI: 10.1159/000540965
    INTRODUCTION: Anatomy-based fitting (ABF), a relatively new technique for cochlear implant (CI) programming, attempts to lessen the impact of the electrode insertion location-related frequency-to-place mismatch (FPM). This study aimed to compare vowels and consonant perception in quiet and in noise among experienced adult CI users using the ABF and the regular, conventional-based fitting (CBF) map (pre-ABF) over 6 months.

    METHODS: Nine ears from eight experienced adult CI users were included in the experimental and longitudinal research. Using surgical planning software called Otoplan, postoperative computed computed tomography scans were used to determine the locations of intracochlear electrodes and their angle of insertion. The anatomy-based frequency bands were produced by Maestro 9.0 CI fitting software using the Otoplan data. Nonsense syllables with consonant-vowel-consonant (CVC) recognition scores in quiet and noise (+5 dB SNR) were compared at baseline, 3, and 6 months after ABF. The vowels involved were /a, i, u/, while the consonants were voiced /b, d, g/ and voiceless /p, t, k/ plosives. Speech pieces were presented at 30 dB SL in a sound-treated room through a loudspeaker positioned at 0° azimuth.

    RESULTS: On average, the ABF maps shifted center frequency ranging from 0.46 semitones (0.04 octave) at (E12) to 23.94 semitones (1.99 octave) at (E1) as compared to the CBF maps. The mean vowel and consonant identification scores in quiet and in noise were significantly higher in ABF than in CBF (p < 0.05) with a large effect size and the trend of improvement was seen with time. Voiced consonants had better scores than the voiceless consonants.

    CONCLUSION: The results demonstrated improved perception of vowels and consonants, particularly for sounds containing voicing cues after using the ABF maps. The results also suggested that ABF could be more effective for voice detection in noise. Overall, the findings indicate that correcting place mismatch with an ABF map may improve speech perception, at least among experienced adult CI users.

  8. Soltanzadeh-Naderi Y, Reintam Blaser A, Björck M, Nuzzo A, Starkopf J, Forbes A, et al.
    Diagnostics (Basel), 2024 Nov 30;14(23).
    PMID: 39682613 DOI: 10.3390/diagnostics14232705
    BACKGROUND: There are no clinical or laboratory markers that can diagnose acute mesenteric ischemia (AMI) accurately. This study aimed to find differences in clinical and laboratory markers between arterial occlusive AMI and other acute abdominal diseases where AMI was initially suspected.

    METHODS: This was a post hoc study of an international prospective multicenter study where data on patients with suspected AMI were collected. Independent factors associated with arterial occlusive AMI were evaluated in a multivariable logistic regression analysis.

    RESULTS: The number of patients with arterial occlusive AMI was 231, consisting of thrombotic (n = 104), embolic (n = 61), and indeterminate (n = 66) occlusions. The non-AMI group included 287 patients, of whom 128 had strangulated bowel obstruction. Current smoking (odds ratio [OR] 2.56, 95% confidence interval [CI] 1.31-5.03), hypertension (OR 2.08, 95% CI 1.09-3.97), bowel emptying (OR 3.25, 95% CI 1.59-6.63), and leukocytosis (OR 1.54, 95% CI 1.14-2.08) at admission were independently associated with arterial occlusive AMI compared to the non-AMI group.

    CONCLUSIONS: This study found clinical and laboratory data to be associated with arterial occlusive AMI in patients with suspicion of AMI, which can possibly be of value in screening for arterial occlusive AMI at the emergency department. Further studies are needed to find more accurate diagnostic markers.

  9. Li L, Yang M, Zhu L, Liu W, Li L, Cao W, et al.
    Foods, 2024 Dec 07;13(23).
    PMID: 39683023 DOI: 10.3390/foods13233951
    Apples are one of the most popular fruits in the world and have a significant share in domestic and international fruit production. Drying is a common method used to extend the shelf life of apples. However, it also induces irregular morphological changes in apples, which are essential to maintaining the structural integrity of the material. Therefore, it is necessary to understand the effect of cellular changes at the microscopic level on the macroscopic deformation of the material during drying. In this paper, the evolution of cell wall pectin fractions and viscoelastic properties of apples during freeze drying combined with hot air drying was investigated. The findings indicated that during the HAD stage, a decrease in the relaxation modulus (E1) of the samples was observed in the compression tests when the sample temperature was significantly higher than the glass transition temperature (Tg). As the difference between the two decreased, the samples exhibited increased stiffness and higher E1. The results of the pectin content analysis showed that the HAD process accelerated the loss and degradation of water-soluble pectin in the samples with high moisture content at the transition point. Simultaneously, the esterification degree of chelator-soluble pectin increased, leading to a reduction in the support provided to the cellular structure of the samples, which consequently affected their mechanical properties. These findings may provide valuable information for the application of freeze drying combined with hot air drying in the efficient processing of dried fruit and vegetable products.
  10. Rai PV, Ramu R, Akhileshwari P, Prabhu S, Prabhune NM, Deepthi PV, et al.
    Molecules, 2024 Nov 27;29(23).
    PMID: 39683757 DOI: 10.3390/molecules29235599
    In search of novel antidiabetic agents, we synthesized a new series of chalcones with benzimidazole scaffolds by an efficient 'one-pot' nitro reductive cyclization method and evaluated their α-glucosidase and α-amylase inhibition studies. The 'one-pot' nitro reductive cyclization method offered a simple route for the preparation of benzimidazoles with excellent yield and higher purity compared to the other conventional acid- or base-catalyzed cyclization methods. 1H, 13C NMR, IR, and mass spectrum data were used to characterize the compounds. Single-crystal XRD data confirmed the 3D structure of compound 7c, which was crystalized in the P1¯ space group of the triclinic crystal system. Hirshfeld surface analysis validates the presence of O-H..O, O-H…N, and C-H…O intermolecular hydrogen bonds. From the DFT calculations, the energy gap between the frontier molecular orbitals in 7c was found to be 3.791 eV. From the series, compound 7l emerged as a potent antidiabetic agent with IC50 = 22.45 ± 0.36 µg/mL and 20.47 ± 0.60 µg/mL against α-glucosidase and α-amylase enzymes, respectively. The in silico molecular docking studies revealed that compound 7l has strong binding interactions with α-glucosidase and α-amylase proteins. Molecular dynamics studies also revealed the stability of compound 7l with α-glucosidase and α-amylase proteins.
    MeSH terms: Hydrogen Bonding; Hypoglycemic Agents/pharmacology; Hypoglycemic Agents/chemistry; Structure-Activity Relationship; Molecular Structure; Crystallography, X-Ray; Molecular Docking Simulation*
  11. Razali RA, Muhammad Firdaus FI, Fauzi MB, Mobarak NN, Aminuddin S, Lokanathan Y
    Polymers (Basel), 2024 Nov 30;16(23).
    PMID: 39684132 DOI: 10.3390/polym16233387
    Nasal packing is a critical procedure in postoperative care and trauma management aimed at controlling bleeding, providing structural support, and promoting tissue healing. However, conventional nasal packs often lead to discomfort, infection risks, and secondary tissue damage. To address these challenges, this study explores the potential use of biodegradable and biocompatible gelatin-carrageenan composite scaffolds as an alternative nasal packing material. Five compositions of gelatin-carrageenan scaffolds (ratios 10:0, 7:3, 5:5, 3:7, and 0:10) were fabricated and evaluated for physicochemical properties, hemocompatibility, and cytocompatibility. Results suggest that balanced ratios, such as 7:3 and 5:5, may provide a combination of structural integrity, improved biocompatibility, and controlled degradation, making them a potential candidate for nasal packing applications. The scaffolds exhibited low cytotoxicity and reasonable blood compatibility, which could reduce the risks associated with conventional materials. While these findings are promising, further in vivo studies are necessary to validate the efficacy and safety of these scaffolds in clinical settings. If proven effective, gelatin-carrageenan scaffolds may help address some of the limitations of conventional nasal packing materials and improve postoperative care outcomes.
  12. Alhussaini AJ, Veluchamy A, Jawli A, Kernohan N, Tang B, Palmer CNA, et al.
    Int J Mol Sci, 2024 Nov 21;25(23).
    PMID: 39684226 DOI: 10.3390/ijms252312512
    RO and ChRCC are kidney tumours with overlapping characteristics, making differentiation between them challenging. The objective of this research is to create a radiogenomics map by correlating radiomic features to molecular phenotypes in ChRCC and RO, using resection as the gold standard. Fourteen patients (6 RO and 8 ChRCC) were included in the prospective study. A total of 1,875 radiomic features were extracted from CT scans, alongside 632 cytobands containing 16,303 genes from the genomic data. Feature selection algorithms applied to the radiomic features resulted in 13 key features. From the genomic data, 24 cytobands highly correlated with histology were selected and cross-correlated with the radiomic features. The analysis identified four radiomic features that were strongly associated with seven genomic features. These findings demonstrate the potential of integrating radiomic and genomic data to enhance the differential diagnosis of RO and ChRCC, paving the way for more precise and non-invasive diagnostic tools in clinical practice.
    MeSH terms: Adult; Aged; Diagnosis, Differential; Female; Humans; Male; Middle Aged; Pilot Projects; Prospective Studies; Tomography, X-Ray Computed/methods; Polymorphism, Single Nucleotide*; Genomics/methods
  13. Ahmad Fauzi AA, Osman AF, Alosime EM, Abdul Halim KA, Abdullah MAA
    Int J Mol Sci, 2024 Nov 21;25(23).
    PMID: 39684232 DOI: 10.3390/ijms252312519
    Poly(ethylene-co-vinyl acetate) (PEVAc) is a copolymer that consists of non-polar polyethylene (PE) and a polar polyvinyl acetate (PVAc) monomer. PEVAc has high elasticity and is resilient, making it suitable for a variety of applications. However, the tensile strength of this copolymer needs to be improved for specific applications that require enough strength to tolerate high external tension or stress. This study proposed the use of dual-functionalized dolomite nanoparticles (DF-DNPs) composed of polar and non-polar nano-dolomite (P-DNPs and NP-DNPs) as nanofillers to reinforce the PEVAc. PEVAc/DF-DNP film appears to have a more homogeneous mixture, which is better for forming an optimal nanocomposite material. It also exhibits the highest tensile strength (10.48 MPa), elongation at break (1175.73%), and tensile toughness (62.12 MPa), which are higher by increments of 46.8%, 9.4%, and 20.3%, respectively, as compared to the neat PEVAc. The result proved that using DF-DNPs as a nanofiller can improve the strength of PEVAc while maintaining its flexibility to avoid brittleness of the nanocomposite film. Furthermore, its thermal characteristics were also successfully enhanced. A biostability assessment showed that the use of DF-DNPs as nanofiller caused the PEVAc copolymer to achieve the best water resistance, as it only exhibited a 2.63% weight increase, the lowest reduction in tensile properties among the studied fillers, and the best retention in surface degradation upon 3-month exposure to the in vitro environment. These findings indicate that the DF-DNPs help in developing a homogeneous nanocomposite by interacting with PE and PVAc.
    MeSH terms: Materials Testing; Tensile Strength*
  14. Kisiel A, Miller T, Łobodzińska A, Rybak K
    Int J Mol Sci, 2024 Nov 26;25(23).
    PMID: 39684404 DOI: 10.3390/ijms252312684
    The phenylpropanoid biosynthesis pathway is involved in the response of plants to stress factors, including microorganisms. This paper presents how free-living strains of rhizobacteria Pseudomonas brassicacearum KK5, P. corrugata KK7, Paenibacillus borealis KK4, and the symbiotic strain Sinorhizobium meliloti KK13 affect the expression of genes encoding phenylalanine ammonia-lyase (PAL), the activity of this enzyme, and the production of phenolic compounds in Medicago truncatula. Seedlings were inoculated with rhizobacteria, then at T0, T24, T72, and T168 after inoculation, the leaves and roots were analyzed for gene expression, enzyme activity, and the content of phenolic compounds. All bacteria affected PAL gene expression, in particular, MtPAL2, MtPAL3, and MtPAL4. Pseudomonas strains had the greatest impact on gene expression. The inoculation affected PAL activity causing it to increase or decrease. The most stimulating effect on enzyme activity was observed 168 h after inoculation. A varied effect was also observed in the case of the content of phenolic compounds. The greatest changes were observed 24 h after inoculation, especially with the KK7 strain. The influence of the studied rhizobacteria on the biosynthesis of phenolic compounds at the molecular level (expression of MtPAL genes) and biochemical level (PAL activity and content of phenolic compounds) was confirmed. The MtPAL3 gene underwent the most significant changes after inoculation and can be used as a marker to assess the interaction between M. truncatula and rhizobacteria. The Pseudomonas strains had the greatest influence on the biosynthesis pathway of phenolic compounds.
    MeSH terms: Plant Proteins/genetics; Plant Proteins/metabolism; Pseudomonas/genetics; Pseudomonas/metabolism; Symbiosis; Sinorhizobium meliloti/genetics; Sinorhizobium meliloti/metabolism; Gene Expression Regulation, Plant*; Plant Leaves/metabolism; Plant Leaves/microbiology; Plant Roots/metabolism; Plant Roots/microbiology
  15. Golomidova A, Kupriyanov Y, Gabdrakhmanov R, Gurkova M, Kulikov E, Belalov I, et al.
    Int J Mol Sci, 2024 Nov 27;25(23).
    PMID: 39684465 DOI: 10.3390/ijms252312755
    Escherichia coli and its bacteriophages are among the most studied model microorganisms. Bacteriophages for various E. coli strains can typically be easily isolated from environmental sources, and many of these viruses can be harnessed to combat E. coli infections in humans and animals. However, some relatively rare E. coli strains pose significant challenges in finding suitable phages. The uropathogenic strain E. coli UPEC124, isolated from a patient suffering from neurogenic bladder dysfunction, was found to be resistant to all coliphages in our collections, and initial attempts to isolate new phages failed. Using an improved procedure for phage enrichment, we isolated the N4-related phage Mimir124, belonging to the Gamaleyavirus genus, which was able to lyse this "difficult" E. coli strain. Although Mimir124 is a narrow-spectrum phage, it was effective in the individualized treatment of the patient, leading to pathogen eradication. The primary receptor of Mimir124 was the O antigen of the O101 type; consequently, Mimir124-resistant clones were rough (having lost the O antigen). These clones, however, gained sensitivity to some phages that recognize outer membrane proteins as receptors. Despite the presence of nine potential antiviral systems in the genome of the UPEC124 strain, the difficulty in finding effective phages was largely due to the efficient, non-specific cell surface protection provided by the O antigen. These results highlight the importance of an individualized approach to phage therapy, where narrow host-range phages-typically avoided in pre-fabricated phage cocktails-may be instrumental. Furthermore, this study illustrates how integrating genomic, structural, and functional insights can guide the development of innovative therapeutic strategies, paving the way for broader applications of phage therapy in combating multidrug-resistant bacterial pathogens.
    MeSH terms: Bacteriophages/genetics; Bacteriophages/isolation & purification; Bacteriophages/physiology; Coliphages/genetics; Coliphages/isolation & purification; Coliphages/physiology; Humans; Urinary Tract Infections/microbiology; Urinary Tract Infections/therapy; Genome, Viral; Precision Medicine/methods
  16. Alferova VA, Zotova PA, Baranova AA, Guglya EB, Belozerova OA, Pipiya SO, et al.
    Int J Mol Sci, 2024 Nov 30;25(23).
    PMID: 39684615 DOI: 10.3390/ijms252312901
    Puromycin (Puro) is a natural aminonucleoside antibiotic that inhibits protein synthesis by its incorporation into elongating peptide chains. The unique mechanism of Puro finds diverse applications in molecular biology, including the selection of genetically engineered cell lines, in situ protein synthesis monitoring, and studying ribosome functions. However, the key step of Puro biosynthesis remains enigmatic. In this work, pur6-guided genome mining is carried out to explore the natural diversity of Puro-like antibiotics. The diversity of biosynthetic gene cluster (BGC) architectures suggests the existence of distinct structural analogs of puromycin encoded by pur-like clusters. Moreover, the presence of tRNACys in some BGCs, i.e., cst-like clusters, leads us to the hypothesis that Pur6 utilizes aminoacylated tRNA as an activated peptidyl precursor, resulting in cysteine-based analogs. Detailed metabolomic analysis of Streptomyces sp. VKM Ac-502 containing cst-like BGC revealed the production of a cysteinyl-based analog of Puro-cystocin (Cst). Similar to puromycin, cystocin inhibits both prokaryotic and eukaryotic translation by the same mechanism. Aminonucleoside N-acetyltransferase CstC inactivated Cst, mediating antibiotic resistance in genetically modified bacteria and human cells. The substrate specificity of CstC originated from the steric hindrance of its active site. We believe that novel aminonucleosides and their inactivating enzymes can be developed through the directed evolution of the discovered biosynthetic machinery.
    MeSH terms: Anti-Bacterial Agents/biosynthesis; Anti-Bacterial Agents/pharmacology; Bacterial Proteins/genetics; Bacterial Proteins/metabolism; Multigene Family; Humans; Peptide Synthases/genetics; Peptide Synthases/metabolism; Protein Synthesis Inhibitors/metabolism; Protein Synthesis Inhibitors/pharmacology; Protein Biosynthesis
  17. Mercan DA, Niculescu AG, Bîrcă AC, Cristea DE, Moroșan A, Tudorache DI, et al.
    Materials (Basel), 2024 Nov 27;17(23).
    PMID: 39685251 DOI: 10.3390/ma17235816
    Iron oxide nanoparticles were synthesized using a vortex microfluidic system and subsequently functionalized with a primary shell of salicylic acid, recognized for its ability to increase the stability and biocompatibility of coated materials. In the second stage, the vortex platform was placed in a magnetic field to facilitate the growth and development of a porous silica shell. The selected drug for this study was micafungin, an antifungal agent well regarded for its effectiveness in combating fungal infections and identified as a priority compound by the World Health Organization (WHO). The resulting nanocomposite system was characterized using various techniques, including Fourier transform infrared spectroscopy (FT-IR), X-ray diffraction (XRD), transmission electron microscopy (TEM), dynamic light scattering (DLS), Brunauer-Emmett-Teller (BET) analysis, UV-Vis spectroscopy, and Fourier transform ion cyclotron resonance mass spectrometry (FT-ICR MS). The synthesis method produced nanoparticles with dimensions of 5-7 nm, highlighting the advantages of the chosen approach. A desorption profile was established using a continuous-flow, UV-Vis analysis system, indicating that the bioactive compound was released slowly; after two hours, approximately 50% of the loaded micafungin was detected in the release medium. Furthermore, the results obtained from the FT-ICR MS analysis provided molecular-level confirmation, thereby supporting the release mechanism of micafungin from the nanosystem.
  18. Wang Y, Abd Rahman AH, Nor Rashid F', Razali MKM
    Sensors (Basel), 2024 Dec 09;24(23).
    PMID: 39686392 DOI: 10.3390/s24237855
    Object detection is an essential computer vision task that identifies and locates objects within images or videos and is crucial for applications such as autonomous driving, robotics, and augmented reality. Light Detection and Ranging (LiDAR) and camera sensors are widely used for reliable object detection. These sensors produce heterogeneous data due to differences in data format, spatial resolution, and environmental responsiveness. Existing review articles on object detection predominantly focus on the statistical analysis of fusion algorithms, often overlooking the complexities of aligning data from these distinct modalities, especially dynamic environment data alignment. This paper addresses the challenges of heterogeneous LiDAR-camera alignment in dynamic environments by surveying over 20 alignment methods for three-dimensional (3D) object detection, focusing on research published between 2019 and 2024. This study introduces the core concepts of multimodal 3D object detection, emphasizing the importance of integrating data from different sensor modalities for accurate object recognition in dynamic environments. The survey then delves into a detailed comparison of recent heterogeneous alignment methods, analyzing critical approaches found in the literature, and identifying their strengths and limitations. A classification of methods for aligning heterogeneous data in 3D object detection is presented. This paper also highlights the critical challenges in aligning multimodal data, including dynamic environments, sensor fusion, scalability, and real-time processing. These limitations are thoroughly discussed, and potential future research directions are proposed to address current gaps and advance the state-of-the-art. By summarizing the latest advancements and highlighting open challenges, this survey aims to stimulate further research and innovation in heterogeneous alignment methods for multimodal 3D object detection, thereby pushing the boundaries of what is currently achievable in this rapidly evolving domain.
  19. Abdul Razak AA, Shatar L, Ramli A, Kassim S, Mohd Ghazali MS, Chee HY, et al.
    Appl Spectrosc, 2024 Dec 16.
    PMID: 39686601 DOI: 10.1177/00037028241303780
    Leptospirosis is an acute bacterial febrile disease affecting humans and animals in many tropical and subtropical countries. This work presents an optimization of surface-enhanced Raman spectroscopy (SERS) substrates to probe vibrational spectroscopic detail from Leptospira deoxyribonucleic acid (DNA). The pathogenic gene of LipL32 was used as a biomarker. The SERS substrates were based on a photonic crystal (PC) structure embedded with bi-metallic gold and silver nanoparticles (PC@AuAg NPs). The localized plasmonic resonance of AuAg NPs was coupled to the Raman modes of the target through SERS interaction. Prior to detection, the AuAg NPs were functionalized with chemical linkers to facilitate specific conjugation between metallic surfaces and DNA biomolecules. The immobilization and hybridization of probe DNA to their complementary target DNA (cDNA) created duplex formation for detection. The configuration was also tested with non-complementary DNA to verify detection specificity. Prominent SERS peaks were recorded, and the characteristic intensity decreased after cDNA hybridization due to less base interaction after complementary pairing. Distinct SERS behavior from the negative control test was also observed in non-complementary interaction. The configuration is highly attractive and can be potentially extended for sensitive and label-free detection of leptospiral DNA, paving the way for alternative diagnosis of leptospirosis.
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