Agarose Gel Research Articles

Identification of rice samples with rice blast resistance genes Pi-2 and Pi-b

Since rice blast is a disease that causes significant damage to rice all over the world, the intensive development of disease-resistant genotypes is of great urgency. The use of molecular biology technologies, new biotechnological approaches and molecular genetic methods allows creating disease-resistant varieties while reducing the time of their development, which plays an important role in growing competitive products. The current paper has highlighted the results of estimating rice samples developed at the FSBSI “ARC “Donskoy” for blast resistance. The objects of the study were new samples developed in the laboratory of rice breeding and seed production. In 2022–2023, there were screened one hundred eighty-seven rice samples. They were identified on a presence of the blast resistance gene Pi-2. One hundred fifteen samples were estimated for the blast resistance gene Pi-b. Genomic DNA was isolated from young rice leaves. After estimating the quantity and quality of the isolated DNA there was conducted a polymerase chain reaction for the target genes Pi-2 and Pi-b. In order to identify the alleles of the desired genes there were used specific intragenic molecular SSR markers of dominant (for Pi-2) and codominant (for Pi-b) types. Electrophoresis of the obtained amplicons was performed on 2 % agarose gels during an hour. The results of the analysis were recorded in ultraviolet light and processed in ImageLab 5.1 software. As a result of the conducted study, there were identified new rice breeding samples that carry blast resistance genes Pi-2 and Pi-b. These samples are recommended for use in the further breeding process for blast resistance.

Development of a simple, low-cost, blue light-emitting diode illuminator for hands-on training of DNA detection experiments using agarose gel electrophoresis

ABSTRACT DNA detection by agarose gel electrophoresis (AGE) is commonly used in molecular biology. AGE is a separation method that provides opportunities for students to learn about the topology and size of DNA molecules. Recently, several fluorescent dyes have been used for DNA staining owing to their convenience, safety, reduced toxicity, and high sensitivity. A blue light-emitting diode (LED) transilluminator is required to detect DNA using fluorescent dyes; however, the associated high cost may limit its availability in classrooms or small laboratories. Therefore, we have designed a simple, low-cost blue LED illuminator to enable easy assembly for instructors and students. We evaluated the performance of the proposed illuminator by observing fluorescent dye-stained DNA markers using AGE, revealing clear DNA marker bands. Despite its limited functionality, the ease of construction and affordability of the proposed illuminator make it sufficient for hands-on molecular biology training in classrooms, thereby enhancing the learning environment and educational efficiency.

Investigation of the efficacy of siRNA-mediated KRAS gene silencing in pancreatic cancer therapy

Aim Pancreatic carcinoma is an aggressive cancer that progresses without many symptoms. The difficulty of early diagnosis and an inadequate response to traditional treatments also cause the survival rate of pancreatic cancer to be low. Current research is focusing on methods of diagnosis and treatment, such as gene therapy, to increase survival rates. Small interfering ribonucleic acid (siRNA) has emerged as a promising advanced therapeutic strategy for cancer treatment. This study sought to silence the KRAS gene in the human pancreatic carcinoma cell line using a complex of small interfering ribonucleic acid (siRNA) and gold nanoparticles (AuNP). Methods In this study, 25 nM siRNA and gold nanoparticles at 0.5 mg/ml, 0.25 mg/ml, and 0.125 mg/ml concentrations were used to silence the KRAS gene in the CAPAN-1 cell line. Real-time PCR analysis, agarose gel electrophoresis, and double staining were carried out, and xCelligence real-time cell analysis (RTCA) was used to measure proliferation. Results The PCR analysis revealed crossing point (CP) values of actin beta (ACTB) ranging from 33.04 to 35.98, which was in the expected range for all samples. The interaction between the gold nanoparticle/siRNA complex in the double staining analysis revealed that the most effective concentration of gold nanoparticle was 0.125 mg/ml. The WST-1 technique showed that siRNA/AuPEI cells in application groups had a viability rate of over 90%, indicating no toxicity or side effects. The xCELLigence RTCA® showed that at hour 72, there was a significant difference in proliferation in the 0.5 mg/mL PEI/AuNP-siRNA, 0.25 mg/mL PEI/AuNP-siRNA, and 0.125 mg/mL PEI/AuNP-siRNA application groups compared to the control and siRNA groups (p < 0.05). By hour 96, all three groups were statistically different from the control and siRNA groups in terms of proliferation (p < 0.05). Conclusions The results of this analysis suggest that the AuPEI/siRNA complex can be effectively used to silence the target gene, but more studies are needed to verify these results.

Co-Extraction of DNA and RNA from Candida albicans Using a Chemical Method in Conjunction with Silicon Carbide with Few Cells

Objective: The study aimed to optimize protocols for the joint extraction of deoxyribonucleic acid (DNA) and ribonucleic acid (RNA) from 0.025 × 106 CFU of Candida albicans, targeting to overcome the challenges in the extraction of these genetic materials. Materials and methods: From this, treated silicon carbide (SiC) granules were added to fungal samples from methods 1, 2, and 3 obtained from aliquots of BHI or Sabouraud medium to cause cell lysis and enable the isolation of these macromolecules by phenol and chloroform. The concentration and integrity of the extracted nucleic acids were analyzed, respectively, by spectrophotometry using the A260/A280 ratios and 1% agarose gel electrophoresis. Results: Therefore, method 3 is the one that most comprises samples considered pure of both DNA and RNA, simultaneously. Furthermore, the presence of intact RNAs corresponding to the base pair size such as 5.8 S rRNA and tRNA was verified during electrophoresis, considering the particularities of RNA, which makes it very unstable and easily degraded. Conclusions: Thus, it results in a faster and simpler method in addition to obtain promising results using minimal amounts of biological sample and offering a valuable alternative for small laboratories to work with molecular biology.

TMOD-16. ZUCLOPENTHIXOL REDUCES ACTIVITY-DEPENDENT GLIOBLASTOMA PROLIFERATION

Abstract A major challenge in modeling glioblastoma in the laboratory is the complex microenvironment in which tumors evolve in humans. The varied architecture and immune privilege of the brain limits the external validity of many experiments performed in modern cell biology laboratories. Organotypic human cortical slices present an opportunity to model glioblastoma and test the effect of drugs against glioma in ex-vivo human tissue. Cortical slice cultures maintain the cellular organization of the human brain, more closely approximating glioblastoma proliferation in patients. In this study, we test the effect zuclopenthixol, a repurposed antipsychotic inhibitor of glioblastoma-induced neuronal hyperexcitability, on the proliferation of glioblastoma cells in an organotypic human cortical slice culture. Primary patient-derived glioblastoma cultures were established, and human cortical tissues were emersed in oxygenated ACSF agarose gel before preparing 250 µm thick slices. Slices were either exogenously seeded with glioblastoma cells or stained for endogenous tumor infiltration. Slices with either endogenous or exogenous seeding were then treated with zuclopenthixol or regular media change and cultured for 10 days. Proliferation was measured with Ki67 staining and quantified via automated pixel summation using the Pillow library in Python. 0.1 µM zuclopenthixol treated slices had significantly lower proliferation index in both the endogenous tumor condition (0.04 vs 0.30, P < 0.05) and the exogenous seeding condition (0.0013 vs 0.028, P = 0.033). Reduced tissue integrity was observed beginning day 8 of culture, as tissue surrounding tumor seeding sites eroded. Here, we model glioblastoma proliferation in live human tissue and quantify the anti-proliferative effect of zuclopenthixol. We show that zuclopenthixol treatment significantly reduced the proliferation index. Our experimental model allowed the optimization of organotypic human cortical slice cultures for immunofluorescence studies and live-cell imaging.

Visualization of giant Mimivirus in a movie for biology classrooms.

We have developed a new observation chamber for Mimivirus-infected Acanthamoeba to create dynamic visual teaching materials for virus education suitable for high school and university biology courses. We conducted experiments and captured a movie showcasing the infection process of Acanthamoeba cells by mimiviruses. In this educational film, we successfully recorded the active movement of healthy Acanthamoeba cells across the surface of a culture flask under an agarose gel. After Mimivirus infection, the movement of the Acanthamoeba cells gradually slowed and eventually stopped. This cessation coincided with the development of the Mimivirus virion factory, which began producing new virions on the surface of the host cells. Moreover, we captured continuous footage of a single cell throughout the viral proliferation process, thereby illustrating the viral proliferation in real time. This educational movie, which visually demonstrates the proliferation of Mimivirus within host cells, acts as an effective teaching tool. Moreover, it enhances students' understanding of virus proliferation mechanisms and highlights the biological significance of viruses, their impact on host cell fate, and their role in ecosystems.

Establishment of 3D Cultures of Myometrium, Leiomyoma, and Leiomyosarcoma Cells: Advantages and Disadvantages of Two Different Models.

Uterine leiomyomas are the most common benign, monoclonal, gynaecological tumors in a woman's uterus, while leiomyosarcoma is a rare but aggressive condition caused by the malignant transformation of the myometrium. To overcome the common obstacles related to the methods usually used to study these pathologies, we aimed to devise three-dimensional models of myometrium, uterine leiomyoma and leiomyosarcoma cell lines, using two different types of biocompatible scaffolds. Specifically, we exploited the agarose gel matrix in common 6-well plates and the alginate matrix using Bioprinting INKREDIBLE + (CELLINK), a pneumatic extruded base equipped with a system with double printheads, and a UV printer LED curing system. Both methods allowed the development of 3D spheroids of all three cell types, that were also suitable for morphological investigations. We showed that all cell types embedded in both agarose and alginate formed spheroids in their growth medium. The spheroids successfully proliferated and self-organized into complex structures, developing a sustainable system that emulated the condition of the tissues through the accumulation of extracellular matrix. These models could be useful for a better understanding of pathophysiology, etiopathogenesis, and testing new methods or molecules from a preventive and therapeutic point of view.

Characteristics of Hyaluronan Metabolism During Myofibroblast Differentiation in Orbital Fibroblasts.

To study the impact of myofibroblast differentiation (MD) on hyaluronan (HA) turnover in orbital fibroblasts (OFs) focusing on the expression of its key enzymes and their potential implications in the pathogenesis of thyroid eye disease (TED). Primary cultures of OFs were established from tissue samples (TED OFs, n = 4; non-TED OFs, n = 5). MD was induced by TGF-β1 (5 ng/mL). Measurements were performed after 24- and 72-hour treatments. The proliferation rate was determined by 5-bromo-2'-deoxyuridine (BrdU) incorporation. HA level and size were measured using an aggrecan-based ELISA-like method and agarose gel electrophoresis, respectively. mRNA expressions of myofibroblast markers and enzymes with a role in HA metabolism were determined using real-time PCR. Upregulation of type I collagen alpha1 chain, alpha-smooth muscle actin, and fibronectin indicated that OFs underwent MD after stimulation by TGF-β. After 72hours, proliferation of untreated cultures declined, but it remained higher in myofibroblasts. Pericellular HA content, but not HA in the supernatant of myofibroblasts, increased compared to untreated cells. TGF-β was a potent stimulator of hyaluronan synthase 1 (HAS1) expression. The expression of hyaluronidase-1 and cell migration-inducing protein (CEMIP) diminished following MD, whereas the expression of transmembrane protein 2, the regulator of HA catabolism through CEMIP, was elevated. The size distribution of HA shifted toward a high-molecular-weight form following treatment with TGF-β. OFs undergoing MD are characterized by decreased HA turnover as a consequence of the inhibition of hyaluronidases and HAS1 induction. Our results suggest that hyaluronidases could be potential targets in the treatment of TED.

Beating the Odds with Binuclear N‐Heterocyclic Carbene Metallacycles: A Practical and Efficient Full‐Color Tunable Fluorescence System

AbstractAchieving full‐color emission with just two emitters presents a significant challenge. Two N‐heterocyclic carbene metallacycles (NHC‐M; M ═ Ag, Au) featuring a tetraphenylethene core, combining covalent and coordination bonds are synthesized to restrict rotation within the NHC‐M‐BC (BC = bicyclic) metallacycles and greatly enhanced their quantum yields. The enhancement is accomplished by adjusting the CH3CN/H2O solvent mixture, allowing emission tuning from blue to green for NHC‐Ag‐BC. Further diversification of the emission spectrum, including access to high‐quality white light (CIE coordinates 0.33, 0.34), is facilitated through the addition of sulforhodamine B via fluorescence resonance energy transfer (FRET). The compatibility of NHC‐Ag‐BC with agarose gel extends its applicability to UV‐LEDs chromic coatings, as well as information encryption and anti‐counterfeiting materials. The results underscore the viability of dual‐fluorophore systems for achieving full‐color emission and highlight the potential for developing versatile, multi‐colored functional materials.

LncRNA ZNF649-AS1 promotes trastuzumab resistance and TAM-dependent PD-L1 expression in breast cancer by regulating EXOC7 alternative splicing

BackgroundTrastuzumab resistance is a serious clinical problem in the treatment of HER2-positive breast cancer (BC). The lncRNA ZNF649-AS1 was previously found to promote HER2-positive BC trastuzumab resistance. The study aims to explore the molecular mechanism of ZNF649-AS1 in HER2-positive BC trastuzumab resistance. MethodsTumor tissue and peripheral blood samples were collected from 20 HER2-positive BC patients with trastuzumab-resistant and non-resistant, respectively. Trastuzumab-resistant BC cell lines SKBR-3-TR and BT474-TR were established. RIP was employed to confirm the binding of ZNF649-AS1, PRPF8 and exocyst complex component 7 (EXOC7). RNA expression of EXOC7-L (Full length of EXOC7) and EXOC7-S (Spliceosome of EXOC7) were detected using agarose gel electrophoresis. Expressions of macrophage markers CD68+ CD206+ were measured by flow cytometry. ResultsZNF649-AS1 expression was upregulated in HER2-positive BC trastuzumab resistance. ZNF649-AS1 downregulation inhibited trastuzumab resistance in HER2-positive BC. ZNF649-AS1 regulated EXOC7 alternative splicing by binding with PRPF8. EXOC7-S knockdown suppressed trastuzumab resistance and TAM-dependent PD-L1 expression in HER2-positive BC. EXOC7-S overexpression abolished the effects of ZNF649-AS1 knockdown on trastuzumab resistance and TAM-dependent PD-L1 expression in HER2-positive BC. ConclusionZNF649-AS1 promoted trastuzumab resistance and TAM-dependent PD-L1 expression in HER2-positive BC via promoting alternative splicing of EXOC7 by PRPF8.

Preliminary Exploration of T1ρ and T2 Mapping in Porcine Articular Cartilage Using Very-Low-Field Magnetic Resonance Imaging.

The high prevalence of osteoarthritis emphasizes the need for a cost-effective and accessible method for its early diagnosis. Recently, the portability and affordability of very-low-field (VLF) magnetic resonance imaging (MRI, 10-100 mT) have caused it to gain popularity. Nevertheless, there is insufficient evidence to quantify early degenerative changes in cartilage using VLF MRI. This study assessed the potential of T1ρ and T2 mapping for detecting degenerative changes in porcine cartilage specimens using a 50 mT MRI scanner. T2- and T1ρ-weighted images were acquired using a 50 mT MRI scanner with 2D spin-echo and triple-refocused T1ρ preparation sequences. MRI scans of porcine cartilage were also acquired using a 3 T MRI scanner for comparison. A mono-exponential algorithm was applied to fit a series of T2- and T1ρ-weighted images. T2 values for CuSO4·5H2O solutions measured via Carr-Purcell-Meiboom-Gill (CPMG) and spin-echo sequences were compared to verify the algorithm's reliability. The nonparametric Kruskal-Wallis statistical test was used to compare T2 and T1ρ values. Experimental repeatability was assessed using the root-mean-square of the coefficient of variation (rmsCV). T2 values of the CuSO4·5H2O solutions obtained using the spin-echo sequence showed differences within 2.3% of those obtained using the CPMG sequence, indicating the algorithm's reliability. The T1ρ values for varying concentrations of agarose gel solutions were higher than the T2 values. Furthermore, 50 mT and 3 T MRI results showed that both the T1ρ and T2 values were significantly higher for porcine cartilage degraded for 6 h vs intact cartilage, with p-values of 0.006 and 0.01, respectively. Our experimental results showed good reproducibility (rmsCV < 8%). We demonstrated the feasibility of quantitative cartilage imaging via T2 and T1ρ mapping at 50 mT MRI for the first time.

Discovery of broad-spectrum high-affinity peptide ligands of spike protein for the vaccine purification of SARS-CoV-2 and Omicron variants

To combat with emerging SARS-CoV-2 variants of concern (VOCs), we report the identification of a set of unique HWK-motif peptide ligands for the receptor-binding domain (RBD) of the SARS-CoV-2 spike (S) protein from a phage-displayed peptide library. These HWK-motif peptides exhibited nanomolar affinity for RBD. Among them, the peptide, HWKAVNWLKPWT (SP-HWK), had not only the highest affinities for RBD and trimer S protein, but also broad-spectrum affinities for RBDs from VOCs. Molecular dynamics simulations and competitive ELISA revealed a conserved pocket between the cryptic and the outer faces of RBD for SP-HWK binding, distinct from the human angiotensin-converting enzyme 2 receptor binding site. By coupling SP-HWK to agarose gel, the as-prepared affinity gel could efficiently capture RBD and trimer S from the ancestral strain and the Omicron variant, and the bound targets could be recovered by mild elution at pH 6.0. More importantly, the affinity gel presented excellent and stable chromatographic performance in the purification of inactivated SARS-CoV-2 and Omicron vaccines, affording high yields and purities, and strong HCP reduction. The results demonstrated the potential of SP-HWK as a broad-spectrum peptide ligand for developing a universal platform for the vaccine purification of SARS-CoV-2 and VOCs.

A simple, cost-effective, and efficient method for screening CRISPR/Cas9 mutants in plants

The clustered regularly interspaced short palindromic repeats (CRISPR)/CRISPR-associated protein 9 (Cas9)-mediated genome editing system is widely used for targeted mutagenesis in a growing number of plant species. To streamline the screening process for mutants, especially those generated from low-efficiency editing events, there is a need for a rapid, cost-effective, and efficient method. Although several screening methods have been developed to process initial samples, these methods often tend to be time-consuming, expensive, or inefficient when dealing with larger sample sizes. Here we describe a simple, rapid, low-cost, and sensitive screening method for screening CRISPR/Cas9 mutants called PCR-Bsl I-associated analysis (PCR-BAA). This method requires only standard PCR and Bsl I restriction enzyme digestion, as well as agarose gel electrophoresis analysis. This method is particularly well suited for the efficient screening of mutants from larger populations of transformants. The simplicity, low cost, and high sensitivity of the PCR-BAA method make it particularly suitable for rapid screening of CRISPR/Cas9-induced mutants, especially those from low-efficiency editing events.

A convenient approach for generating dimeric nucleic acid dyes via click-chemistry

Fluorescent dyes are essential tools for visualizing DNA and RNA. Dimeric dyes like GelGreen have gained popularity as safer alternatives to ethidium bromide (EB) due to their reduced mutagenicity and genotoxicity. In this study, we present a straightforward method to synthesize novel acridine orange (AO)-based dimeric dyes using click chemistry. Starting from acridine orange, these dyes can be synthesized in just two steps. Compared to GelGreen, these new dyes incorporate additional triazole groups in their linkers. They exhibit a maximum absorption wavelength of approximately 472 nm, which shifts to around 503 nm upon binding with DNA, allowing excitation by blue light. These dyes show minimal fluorescence in aqueous solutions, indicating that they adopt a closed conformation where the fluorescence of acridine orange is quenched due to intramolecular aggregation. The presence of DNA significantly enhances their fluorescence at around 526 nm, suggesting that DNA binding induces an open conformation. This “light-up” property makes them highly sensitive DNA dyes with a strong signal-to-noise ratio. We successfully applied these novel dyes in agarose gel electrophoresis, where they demonstrated excellent performance.

Integrated membranes system for water application in microbiology/molecular biology

An integrated membrane filtration system was developed to make water purity suitable for microbiology/molecular biology research. Water samples were collected from outlets in different buildings of the National Research Center and analyzed for their composition before filtration. An integrated membrane system was developed based on mathematical modeling. Flat sheet membranes were produced, including microfiltration, ultrafiltration, and nanofiltration membranes. The flat sheet membranes were converted to a spiral wound module filter to simulate the local market filters and applied in the integrated membrane system that was designed and installed. The produced water was analyzed and compared to molecular-grade water used in different molecular biology/microbiology applications. Both PCR, agarose gel electrophoresis, bacterial liquid cultures, and viral propagation indicated that treated water using the herein-developed system exhibited comparable performance to the molecular grade water provided with imported reagent kits. So, this research can offer a promising solution for producing high-quality water suitable for sensitive laboratory applications.

DNA extraction protocol from Myrciariacaerulescens J.M.A. Braga, M.T.C. Lacerda &amp; Stadnik (MYRTACEAE)

Myrciaria caerulescens, a fruit-bearing species endemic to Bahia, Brazil, and recently described, has ecological and economic potential. The analysis of genetic diversity and the use of molecular techniques are essential for its conservation and genetic improvement of M. caerulescens.The objective of this work was to standardize the protocol for extracting total DNA from Myrciaria caerulescens in the municipalities of Caetité and Lagoa Real in Bahia. Young leaves were collected using three collection methods and added to aluminum foil stored on ice, aluminum foil with silica and silica in a 50 mL test tube, where they received alphanumeric identification.The material was taken to the Genetic Improvement and Biotechnology Center Laboratory at UFRB, the silica was removed from the samples and stored in an ultra freezer at -80°C. For genomic DNA extraction, the three collection and extraction methods of the 40 samples, three protocols were tested for each method. The protocols of Lodhi (1994), modified by Pereira (2005), Doyle and Doyle (1987) and Murray and Tompsom (1980).Liquid nitrogen was used for crushing, helping to break down the M.caerulescens material. The isolated DNA influenced the quality and quantity of the methods and protocols tested. Silica gel method in the test tube had a greater amount of DNA compared to the others.The best result in DNA bands was described in Lodhi (1994), modified by Pereira (2005), better quality and higher concentration of extracted DNA, the test tube with silica, greater presence of bands, following the aluminum foil with silica for both locations. CTAB protocols were efficient in extraction. The increase in the amount of NaCl (0.5 to 5M) made it possible to quantify DNA bands in the agarose gel with positive ions neutralizing the negative charge of the DNA phosphate group.

Primer reporte de Bemisia tabaci (Gennadius, 1889) (Hemiptera: Aleyrodidae), biotipos B y Q, en soja Glycine max (L.) Merrill (Fabales: Fabaceae) en Paraguay

Whiteflies (Hemiptera: Aleyrodidae) are significant agricultural pests worldwide, primarily because they act as vectors for various plant viruses, including geminiviruses. Additionally, whitefly activity fosters the development of fungal colonies, such as sooty mold (Capnodium spp.), which grows on the sugary secretions (honeydew) produced by these insects. The presence of sooty mold reduces the plant’s photosynthetic capacity, further worsening the negative impact on its growth and development. Together, these factors make whitefly control a challenge for farmers, who must implement integrated pest management strategies to mitigate both the direct damage and the associated diseases that whiteflies can spread. Although approximately 1,200 species of whiteflies have been described, fewer than 40 are considered primary pests, with Bemisia tabaci (Gennadius, 1889) and Trialeurodes vaporariorum (Westwood, 1889) responsible for the greatest agricultural losses worldwide. The emergence of B. tabaci biotypes has prompted significant research, as these biotypes have been linked to economic damage to crops in several nations of the Americas, including Argentina and Brazil. In Paraguay, there is a need to identify local biotypes of B. tabaci led to the collection of whitefly samples from soybean plots in Capitán Miranda and Natalio, Itapúa, Paraguay. DNA was extracted using the Wizard genomic purification kit, followed by PCR amplification of the mitochondrial cytochrome oxidase I (mtCOI) region using specific primers for B. tabaci and T. vaporariorum. Agarose gel electrophoresis confirmed the presence of B and Q biotypes of B. tabaci in both Paraguayan locations, with no detection of T. vaporariorum. Sequencing of the PCR products revealed a 100% match with known sequences for B. tabaci and its biotypes, as confirmed by GenBank BLAST analysis. This research highlights the critical importance of continuously monitoring the population dynamics and geographical distribution of different biotypes. While the expansion of a polyphagous and dynamic pest like the whitefly cannot always be prevented, constant monitoring enables early detection of its spread and allows for the adjustment of management strategies tailored to each region. These measures will not eliminate the pest but will help mitigate damage and manage the problem sustainably and efficiently. The study also emphasizes the need to the effectiveness of insecticides, as resistance has been reported in other countries—an issue not yet explored in Paraguay.

ISOLATION AND MOLECULAR IDENTIFICATION OF INDIGENOUS BACTERIOCIN-PRODUCING WEISSELLA CIBARIA

Globally, over 6.22 million deaths are associated with antibiotic resistance. Bacteriocins, a set of antimicrobial peptides synthesized on the ribosomes, are widely viewed as a potential answer to this issue. This is due to their pore-forming ability and antimicrobial activity against antibiotic-resistant pathogens. The aim of this study is to isolate bacteriocin-producing Weissella cibaria and evaluate its antimicrobial activity against Pseudomonas aeruginosa, Escherichia coli, Staphylococcus aureus, Klebsiella pneumoniae, Salmonella typhi, Proteus mirabilis, Streptococcus sp., Candida sp. and Rhizopus stolonifer. Weissella cibaria man1 was isolated by inoculating deMan Rogosa Sharpe (MRS) broth with small pieces of ripe Mangifera indica (mango), 24-hour incubation at 370C, 10-fold serial dilution and plating on MRS agar. Molecular identification was achieved by DNA extraction, amplification of the 16S rRNA gene through polymerase chain reaction (PCR), agarose gel electrophoresis, gene sequencing, and BLASTN homology searches in the National Center for Biotechnology Information (NCBI). Antimicrobial activity of the bacteriocin was determined by agar well diffusion assay. Mangifera indica (mango) was found to harbor bacteriocin-producing Weissella cibaria man1. The bacteriocin (weissellicin man1) exhibited a broad spectrum of antimicrobial activity. Weissellicin man1 suppressed the growth of several target pathogens (Pseudomonas aeruginosa, Klebsiella pneumoniae, Salmonella typhi, Proteus mirabilis, Candida sp. and Rhizopus stolonifer) but had no inhibitory action against Escherichia coli, Streptococcus sp., Staphylococcus aureus. In conclusion, weissellicin man1 from Weissella cibaria man1 has a broad-spectrum of antimicrobial action. These findings will facilitate further evaluation of the antimicrobial potency of weissellicin man1.

Molecular approach to the characterization of lipase encoding genes from Moraxella sp. SBE01

Lipase from Moraxella sp. SBE01 is an expression of the gene encoding lipase. Detection and characterization of the Moraxella sp. SBE01 lipase coding gene is necessary for large-scale lipase production through genetic engineering. This study aimed to observe the molecular weight, amino acid sequence, length, and conserved amino acids in the DNA encoding the lipase gene, with the goal of identifying and characterizing the lipase-coding gene from Moraxella sp. SBE01. The primer design process was conducted to amplify the lipase gene from Moraxella sp. SBE01 using specialized software for sequence alignment and phylogenetic analysis. Amplification was carried out using PCR with the designed primer, forward primer (GTC ATG ATG TAC TTC CAY GGN GGN GG), reverse primer (GGT TGC CGC CGG CDS WRT CNC C). PCR was carried out under pre-denatured conditions at 95°C (3 minutes), followed by 30 cycles of denaturation at 95°C, annealing at 66°C (30 seconds), 70°C elongations (1 minute) and final elongation of 70°C (10 minutes). The PCR results were electrophoresed using 1% agarose gel with a 1 kb DNA marker. The PCR results were sequenced and analyzed for gene and amino acid sequences and the type of lipase expressed. Sequencing resulted in 387 bp of the nucleotide sequence. The gene and amino acid sequences from Moraxella sp. SBE01 had high homology with the gene and amino acid sequences from Moraxella sp. strain TA144. The lipase gene encodes a protein consisting of 129 amino acids and contains a conserved HGG (His-Gly-Gly) motif, which is characteristic of lipases in family IV, also known as the hormone-sensitive lipase (HSL) family. This conserved sequence suggests that the lipase shares structural and functional similarities with other enzymes in the HSL family, playing a key role in lipid metabolism.

Titin hyper-phosphorylation in the peripheral skeletal muscle but not the diaphragm of HFpEF: association with muscle atrophy and dysfunction

Abstract Background Titin hypo-phosphorylation is an important regulatory mechanism for myocardial stiffness in heart failure with preserved ejection fraction (HFpEF). In contrast, a hyper-phosphorylation of titin in the peripheral skeletal muscle (SKM) was reported in mouse models exhibiting muscle atrophy. In former studies it, was shown that SKM atrophy occurs in HFpEF and is associated with muscle dysfunction and a fiber type shift from type I, towards type II fibers. However, these alterations were not seen in the diaphragm muscle (Dia) and a fiber type shift towards type I was documented. So far, no information about the phosphorylation status of titin is available for SKM and the Dia and its association with muscle dysfunction in HFpEF. Purpose To assess titin phosphorylation in SKM and Dia of a HFpEF animal model and to relate it to muscle function and atrophy. Methods To confirm the development of HFpEF echocardiography was performed in female ZSF1-lean (con, n=18) and ZSF1-obese rats (HFpEF, n=18) at the age of 32 weeks. Skeletal muscle function (soleus) was measured in an organ bath setting after the animals were sacrificed. Tissue of the tibialis anterior muscle (TA) and the diaphragm (Dia) was collected and fixed in formalin or snap frozen in liquid nitrogen. To detect titin expression homogenized TA and Dia tissue samples were resolved on a vertical agarose gel. Phosphorylated titin was detected by staining the gel with Pro-Q Diamond, whereas total titin was visualized using Sypro Ruby. Cross sectional area (CSA) of TA and Dia was quantified after Hematoxylin/eosin staining of tissue section. Myosin heavy chain (MHC) ubiquitination was assessed by western blot. Results Assessment of SKM function revealed significantly reduced maximal absolute (-12 %) and maximal specific force (-22 %) in HFpEF animals when compared to controls. In the TA a significantly reduced CSA was evident in HFpEF (1911±103 vs. 1394±103 µm2, p=0.002), whereas in the diaphragm an increased CSA was noted (438±11 vs. 560±18 µm2, p&amp;lt;0.001). In TA of HFpEF animals, the proportion of phosphorylated titin was significantly elevated whereas the total amount of titin was reduced (Fig. 1A, C). In addition, a significantly higher proportion of ubiquitinated MHC was detected (Figure 1E). However in the Dia these alterations were not observed, even a higher amount of total titin was seen (Fig. 1B, D, F). Furthermore, a significant negative correlation between phosphorylated titin and absolute force (r=-0.461, p=0.035, Fig. 2A) as well as specific force (r=-0.693, p=0.0005, Fig. 2B) was evident. Conclusion In contrast to the heart, the TA showed a titin hyper-phosphorylation in HFpEF, going along with a degradation of total titin. This hyper-phosphorylation could be correlated with a loss of force in the SKM. Additionally a higher ubiquitination of MHC was prevalent in the TA, which may be connected to molecular remodeling and fiber type shift towards a more glycolytic type.