CLI: A new protocol for the isolation of Lactic Acid Bacteria from complex plant samples

Lactic Acid Bacteria (LAB) are predominantly probiotic microorganisms and the most are Generally Recognized As Safe (GRAS). LAB inhabit in the human gut ecosystem and are largely found in fermented foods and silage. In the last decades, LAB have also has been found in plant microbiota as a new class of microbes with probiotic activity to plants. For this reason, today the scientific interest in the study and isolation of LAB for agronomic application has increased. However, isolation protocols from complex samples such as plant tissues are scarce and inefficient. In this study, we developed a new protocol (CLI, Complex samples LAB Isolation) which yields purified LAB from plants. The sensitivity of CLI protocol was sufficient to isolate representative microorganisms of LAB genera (i.e. Leuconostoc, Lactococcus and Enterococcus). CLI protocol consists on five steps: i) sample preparation and pre-incubation in 1% sterile peptone at 30 °C for 24-48 h; ii) Sample homogenization in vortex by 10 min; iii) sample serial dilution in quarter-strength Ringer solution, iv) incubation in MRS agar plates with 0.2% of sorbic acid, with 1% of CaCO3, O2 < 15%, at pH 5.8 and 37 °C for 48 h.; v) Selection of single colonies with LAB morphology and CaCO3-solubilization halo. Our scientific contribution is that CLI protocol could be used for several complex samples and represents a useful method for further studies involving native LAB.

Method development and validation for the quantitative determination of total flavonoids through the complexation of iron (III) and its application in real sample

BACKGROUND

The determination of flavonoids in real sample using UV-Vis spectrophotometer commonly uses quercetin and catechin with Al+3 complexing agent as reference materials for the calibration of the instrument. However, getting these standard materials is challenging due to its expense and unavailability in the chemical reserve of the country. Moreover, the Al+3 - quercetin complexation standard method demands high amount of quercetin in spite of its high cost. Hence, developing alternative method that can solve this problem is crucial for the determination of flavonoids in the real sample.

RESULTS

An iron-based complexation method for the determination of flavonoids in the real sample was developed that reduces the amount of quercetin by 200 times (1 mg/mL to 0.005 mg/mL) during the calibration of UV-Vis spectroscopy as an alternative method. The reaction parameters (incubation time, pH, and concentration of quercetin) were optimized using software Design Expert 11 and confirmed by the practical experiments. The kinetics of reaction between iron and quercetin was found to be pseudo first order with rate constant of kobs at 340 and 510 nm. The analysis window for the flavonoid complex was achieved with the kinetic discrimination of the interferences at its optimized time of complexation 20 min and absorbance maxima of 510 nm. The developed method was validated by evaluating its precision, accuracy, recovery test (84-117%), detection limit and quantification limit following the standard protocols. The calibration of the instrument has been developed for the new method and the linear regression coefficient (R2) of 0.998 was obtained.

SIGNIFICANCE

Applying the developed standard material (Fe3+ - quercetin complex) gives freedom for the analytical chemists to find the standard materials that is accessible and cheaper than the existing one (Al3+-quercetin complex). The developed method can also be easily applied for determination of flavonoid in the real samples without potential interferences coming from sample matrix.

Investigation on the chemical recovery and stability of a newly developed method for 137Cs measurement in marine biota Scomber Japonicus

Seven sets of experiments based on a newly developed Mincing-Digesting method for ¹³⁷Cs measuring in marine biota Scomber Japonicus were conducted to investigate the method's stability and chemical recovery. The results show the chemical recovery of radiocesium for aqueous parts is 68.77 ± 11.2%, which is relatively stable with R² = 0.97, means this value could be used when measuring the Scomber Japonicus or other marine biota belonging to the same category and having similar muscular tissue and cellular structure. Meanwhile, the Minimum Detectable Activity (MDA) of the method is 0.013Bq/kg_-ww which is comparable with that of the conventional method, means that the method could be further developed as a reliable and efficient way to measure other radionuclides in other marine biotas in the future if more experiments were conducted.

Extensor carpi ulnaris muscle shows unexpected slow-to-fast fiber type switch in Duchenne muscular dystrophy dogs

Aged dystrophin-null canines are excellent models for studying experimental therapies for Duchenne muscular dystrophy, a lethal muscle disease caused by dystrophin deficiency. To establish the baseline, we studied the extensor carpi ulnaris (ECU) muscle in 15 terminal age (3-year-old) male affected dogs and 15 age/sex-matched normal dogs. Affected dogs showed histological and anatomical hallmarks of dystrophy, including muscle inflammation and fibrosis, myofiber size variation and centralized myonuclei, as well as a significant reduction of muscle weight, muscle-to-body weight ratio and muscle cross-sectional area. To rigorously characterize the contractile properties of the ECU muscle, we developed a novel in situ assay. Twitch and tetanic force, contraction and relaxation rate, and resistance to eccentric contraction-induced force loss were significantly decreased in affected dogs. Intriguingly, the time-to-peak tension and half-relaxation time were significantly shortened in affected dogs. Contractile kinetics predicted an unforeseen slow-to-fast myofiber-type switch, which we confirmed at the protein and transcript level. Our study establishes a foundation for studying long-term and late-stage therapeutic interventions in dystrophic canines. The unexpected myofiber-type switch highlights the complexity of muscle remodeling in dystrophic large mammals.

This article has an associated First Person interview with the first author of the paper.

Summary: A slow-to-fast fiber-type switch in dystrophic canine ECU muscle is revealed by contraction kinetics and myosin protein and transcript expression. This highlights the complexity of muscle remodeling in Duchenne muscular dystrophy.

A prospective comparative study of two regimens of diphenylcyclopropenone (DPCP) in the treatment of alopecia areata

BACKGROUND

Alopecia areata (AA) is a chronic disorder and the best treatment regimen for it is unknown. Currently, one of the best documented treatment modalities for AA is topical immunotherapy.

AIM

To evaluate the safety and efficacy of a novel method (multi-concentration patch test) versus standard protocol for topical immunotherapy.

METHODS

A prospective randomized clinical trial was conducted on 30 patients with Alopecia areata, half of them received DPCP with a novel method using multi-concentration patch test to determine the optimal initiating concentration of DPCP (case group) and the other half experienced immunotherapy according to the standard protocol (control group). Percentage of hair regrowth after 6 months of treatment and the incidence of drug-related adverse effects were evaluated and compared between the two groups. (IRCT registration code: IRCT20141209020250N5).

RESULTS

Absolute and relative hair regrowth percentages were reported 25% and 41.49% in case group and 8.2% and 14.21% in control group respectively. Considerable response (more than 75% hair regrowth) was observed in 4 (26.6%) patients in case and 1 (6.6%) patient in control group. The clinical response was initiated about 7 weeks sooner in case compared to the control group (14 versus 7.38 weeks, P: 0.001). Overall, clinical response was higher in patients received new protocol, compared to control group. Moreover, patients who experienced new protocol had a higher level of treatment satisfaction in comparison with patients having standard protocol (P: 0.012).

CONCLUSION

This study revealed the effectiveness and safety of the novel multi-concentration patch test DPCP therapy for AA and its priority to conventional method, at least in terms of shortened duration of DPCP immunotherapy.

Meta-analysis of the role of zinc in coordinating absorption of mineral elements in wheat seedlings

BACKGROUND

Zinc (Zn) is an important nutrient for human beings, which is also an essential micronutrient for crop growth. This study investigated the role of Zn in coordinating the mineral elements absorption in modern wheat (Triticum aestivum L.) cultivars with a new developed method.

RESULTS

A method was developed, and showed a robust capability to simultaneously investigate seven mineral elements uptake in wheat seedling. With this method, we found low Zn supply (<  1 μM) promoted the absorption of potassium (K), magnesium (Mg) and manganese (Mn) in wheat seedling, while high Zn supply (>  1 μM) significantly inhibited the absorption of these elements. Cultivars with the green genes (Rht-B1b and Rht-D1b) showed a higher uptake capability on ammonium (NH₄⁺), and cultivars with Rht-B1b allele can uptake more phosphors (P), K, calcium (Ca), Mn and Zn compared to cultivars with Rht-D1b. Further analysis indicated higher uptake capability of NH₄⁺ in cultivars contained Rhts was independent of Zn.

CONCLUSION

The key role of Zn in coordinating for mineral elements absorption was identified in modern wheat cultivars, providing the reference for Zn application in wheat. Meanwhile, this study provides a robust method for quantifying the absorption of mineral elements, which may be adopted into the broadly investigations on the coordinated nutrients absorption of plant.

A cartilage conserving concept of a surgical tracheostomy-introduction and analysis of safety and complications of the Visor-tracheostomy-a retrospective monocentric comparative study over 8 years

INTRODUCTION

For decades, surgical tracheostomy using a Bjoerk-flap has been the standard procedure to create a reliable epithelialized tracheostomy in head and neck tumour surgery. This technique is being used as the gold standard approach in every surgical subspecialty. Preparation of the Bjoerk-flap requires splitting one or two tracheal rings, causing potential tracheal instability and tissue trauma. As a surgical alternative, the Visor-tracheostomy allows creating an epithelialized tracheostomy without splitting tracheal rings. This work aimed to prove the safety of the Visor-tracheostomy method, due to peri- and early postoperative complications.

METHODS

We present a step-by-step approach of this "new tracheostomy method". Monocentric, retrospective data within 8 years were evaluated. Complications such as wound infection, tracheostoma bleeding, tracheostoma dehiscence, and via falsa in a total of 453 tracheostomies (161 Bjoerk-flap and 292 Visor-tracheostomies) were compared and the results were analysed descriptively.

RESULTS

Our data did not reveal a statistically significant difference in risk for a complication between the two methods (Visor-tracheostomy vs. Bjoerk-flap; p = 0.60; OR = 1.26, 95%-CI 0.60-2.82). This supports the hypothesis that applying the new cartilage conserving Visor-tracheostomy does not result in a reduction of safety for the patient.

CONCLUSION

We contend, that the Visor-tracheostomy has the potential to supersede other surgical tracheostomy techniques in some indications.

LEVEL OF EVIDENCE

III (Comparative retrospective monocentric study).

A new method for determining the denaturation temperature of collagen

The denaturation temperature of collagen has been determined using several methods, such as circular dichroism, fourier transform infrared spectroscopy, and differential scanning calorimetry, etc. Such methods need specific equipment or mass samples (more than 75 mg samples), which means higher inspection costs. In this study, Sirius red was employed to determine the Tds of collagen from calf tendon, silver carp skin, frog and salmon skins (38.2 °C, 32.6 °C, 33.8 °C, and 15.6 °C, respectively) to explore a new method that does not require special equipment and only needs 2-3 mg sample for one measurement. This method was suitable for the determination of the denaturation temperature of collagen from terrestrial, aquatic and amphibian animals. Analysis of variance and t-test revealed that no significant difference was found between Sirius Red and viscosity methods. However, the Sirius Red method needs simpler equipment and less sample than viscosity and other methods. So it could be used as a convenient approach to determine the denaturation temperature of collagen instead of the viscosity method.

Pulsed triple electron resonance (TRIER) for dipolar correlation spectroscopy

A new pulse sequence is presented for correlating dipolar frequencies in molecules with more than two paramagnetic centers. This triple electron resonance experiment (TRIER) is an extension the double electron-electron resonance (DEER) experiment, which is widely used for distance determination in the nanometer range. We use linear chirp pulses with smoothed edges to create a refocused observer echo, and two hyperbolic secant pulses with distinct excitation windows to excite two other subsets of spins. These pumped spins are coupled to the observed spin through the dipole-dipole interaction. A two-dimensional dipolar modulation pattern is recorded by variation of the position of the two pump pulses. By two-dimensional Fourier transform of the echo integral, a plot is obtained that correlates dipolar frequencies within the same molecule. Such correlation patterns can be used in conjunction with DEER, with which distance distributions are usually determined for several doubly labeled molecules with different spin-labeling sites. In the presence of two conformers, DEER traces give two distances and assignment to an individual conformer is not trivial and usually requires a trial and error approach. TRIER can potentially provide the missing connection between distances as correlations between dipolar frequencies.

A novel technique for chest drain removal using a two layer method with triclosan-coated sutures

In thoracic surgery, a thoracic drain is always inserted after the surgical procedure. Repair of the wound after removal of the thoracic tube is performed postoperatively, but no universally standard methods currently exists for this tube removal. Here we report a technique using triclosan-coated sutures that is used in thoracic surgery in our hospital. There are several advantages of this technique. First, there is no need for stitches removal on follow-up. Second, it prevents the leakage of pleural exudate because of the tight two-layer sutures. In addition, it was observed to be superior in terms of both wound healing and cosmetic aspects, due to the layer-to-layer sutures. The use of triclosan-coated sutures helps prevent infection and empyema is quite unlikely to occur as the result of the tight ligating of the muscular layer using these sutures. We applied this method in 168 patients over a period of 24 months. There were no complications on removal of the chest tube such as infection, fluid leakage or opening of the surgical wound.

Feasibility in the development of a multi-marker detection platform

A feasibility study for a label-free, multi-marker single sensor using electrochemical impedance spectroscopy (EIS), imaginary impedance, and a signal decoupling technique is reported. To our knowledge, this is the first reported attempt of using imaginary impedance for biomarker detection and multi-marker detection. The electrochemical responses of purified low and high density lipoproteins (LDL and HDL, respectively) were first individually characterized through the immobilization of their molecular recognition elements (MREs) onto gold disk electrodes (GDEs). The co-immobilization was performed by immobilizing the MREs of both LDL and HDL on the same GDE, which was then used to detect LDL and HDL simultaneously in mixed solution. Previous individual purified responses were then used to de-convolute the mixed response, when the two biomarkers were detected in mixed solutions. The optimal frequencies of LDL and HDL were found to be 81.38Hz and 5.49Hz, respectively, which shifted to 175.8Hz and 3.74Hz under co-immobilized conditions. After comparing the electrochemical signal in complex and imaginary impedance, imaginary impedance was found to be more suitable for multi-marker detection purposes. Since imaginary impedance is related to capacitance, electric displacement, relative permittivity, and effective capacitance were derived to elucidate the theory of optimal frequency. This work shows that EIS has the potential for multi-marker detection and can be extended to monitor other complex diseases such as diabetes mellitus for better management and diagnostic purposes.

S-nitrosylation of endogenous protein tyrosine phosphatases in endothelial insulin signaling

Nitric oxide (NO) exerts its biological function through S-nitrosylation of cellular proteins. Due to the labile nature of this modification under physiological condition, identification of S-nitrosylated residue in enzymes involved in signaling regulation remains technically challenging. The present study investigated whether intrinsic NO produced in endothelium-derived MS-1 cells response to insulin stimulation might target endogenous protein tyrosine phosphatases (PTPs). For this, we have developed an approach using a synthetic reagent that introduces a phenylacetamidyl moiety on S-nitrosylated Cys, followed by detection with anti-phenylacetamidyl Cys (PAC) antibody. Coupling with sequential blocking of free thiols with multiple iodoacetyl-based Cys-reactive chemicals, we employed this PAC-switch method to show that endogenous SHP-2 and PTP1B were S-nitrosylated in MS-1 cells exposed to insulin. The mass spectrometry detected a phenylacetamidyl moiety specifically present on the active-site Cys463 of SHP-2. Focusing on the regulatory role of PTP1B, we showed S-nitrosylation to be the principal Cys reversible redox modification in endothelial insulin signaling. The PAC-switch method in an imaging format illustrated that a pool of S-nitrosylated PTP1B was colocalized with activated insulin receptor to the cell periphery, and that such event was endothelial NO synthase (eNOS)-dependent. Moreover, ectopic expression of the C215S mutant of PTP1B that mimics the active-site Cys215 S-nitrosylated form restored insulin responsiveness in eNOS-ablated cells, which was otherwise insensitive to insulin stimulation. This work not only introduces a new method that explores the role of physiological NO in regulating signal transduction, but also highlights a positive NO effect on promoting insulin responsiveness through S-nitrosylation of PTP1B's active-site Cys215.

A simple and effective heat induced antigen retrieval method

In this paper, we describe an additional step to the standard method of heat induced antigen retrieval to improve the detection of antibody staining of formalin fixed paraffin embedded tissue sections. Direct heating of tissues in buffer is an efficient epitope retrieval method but often results in the damage or loss of tissues. In this modified method, before keeping in buffer for heating, we overlapped the tissue on the slide with a plain slide by clipping one end using a normal paperclip, keeping a minimum gap between the slides. Tissues heated in this way in buffer had following advantages over normal heat treatment for epitope retrieval.

•

Tissues were intact even at high temperatures which improved the quality of staining by preventing fold, damage or detachment of tissues from the slides.

•

The method is very safe and economical compared to the methods using microwave or pressure cooker.

•

This simple method also appears to be very effective and less time consuming compared to the existing methods.

Using mid infrared technology as new method for the determination of the dwell time of salivary substitutes on three dimensional gingiva models

Background

Many people suffer from dry mouth (xerostomia) due to radiotherapy treatment of head and neck cancer, diseases like Sjogren’s syndrome or as adverse effects to prescribed medications. Salivary substitute products like gels or sprays are often used for treatment. Efficacy of those oral care products are regularly assessed by validated or even not validated questionnaires. To determine the adhesion effect over time more objectively a new and sensitive method was established. The following study was designed to assess the dwell time of different oral care products in vitro.

Method

Two different types of surfaces were covered with oral care products and washed using a definite protocol with artificial saliva salt solution. First, oral care gels or oral care sprays were spread to a polystyrene surface of 2.25 cm², then onto cell based three-dimensional gingiva models. The surfaces were washed ten times with artificial saliva salt solution. The resulting washing solutions were examined using mid infrared spectroscopy in order to detect ingredients of the oral care products.

Results

All assessed oral care gels or oral care sprays and their components were detected very sensitive. Even traces of the products were detected in the eluent and thus enabled to differentiate the dwell times of the different products. In general, the dwell time of oral care gels on polystyrene or gingiva models was longer than that of oral care sprays. The use of gingiva models improved the differentiation between different products.

Conclusions

MIR spectroscopy turned out to be a sensitive method to detect salivary substitutes. Differences between single components and different products can be detected. The described method is a simple, reliable and easy process to evaluate the dwell time of oral care products in vitro and thus a useful tool to design optimised salivary substitute products.

Ethics

This is an in vitro study. No ethics or consent was required for this study.

Isolation and diagnosis of Helicobacter pylori by a new method: Microcapillary culture

AIM: To investigate the performance of the microcapillary culture method (MCM) in Helicobacter pylori (H. pylori) isolation and diagnosis.

METHODS: Microcapillary culture (MC), classical culture (CC), rapid urease (CLO) test, and histopathologic examination (HE) were performed with biopsy samples. Homogenized biopsy samples were loaded into capillary tubes and incubated for 48 h at 37 °C without providing a microaerophilic environment. Additionally, three or four loops of the homogenized sample were inoculated in a ready-to-use selective medium (Becton Dickinson, Helicobacter Agar, Modified) specific for the isolation of H. pylori and incubated at 37 °C in a microaerophilic atmosphere provided by CampyGen (Becton Dickinson, GasPack). Bacteria reproducing in microcapillary tubes were evaluated in an inverted microscope and also were evaluated after performing a CC with the content. Results obtained by CC, CLO test, and HE were compared with those of MC. The diagnostic performances of the methods used in this study were evaluated for specificity, sensitivity, positive predictive value (PPV), negative predictive value (NPV), and CI.

RESULTS: H. pylori was found positive by CLO test + HE and/or CC culture in 26 patient antrum and corpus biopsy samples. In 25 (25/26) patient biopsy samples, H. pylori was isolated by MCM, whereas in only 14 (14/26) patient biopsy samples, H. pylori was isolated by CC. CLO test and HE were found positive in 17 (17/26) patient biopsy samples. Comparing the results of the isolation of H. pylori by MCM, CC, CLO test, and HE, the sensitivity of the MCM was found as 96%, the specificity as 80%, the PPV as 83%, the NPV as 95%, and the 95%CI as 0.76 (χ² = 31.51, P < 0.01) whereas the sensitivity of the CC was found as 54% (χ² = 19.15, P < 0.01), and the sensitivity of the CLO test and HE were found as 65% (χ² = 25.26, P < 0.01).

CONCLUSION: This new microcapillary cultivation method for H. pylori has high diagnostic sensitivity compared with CC, HE, and CLO tests.

Applying a new method for direct collection, volume quantification and determination of N2 emission from water

The emission of N2 is important to remove excess N from lakes, ponds, and wetlands. To investigate the gas emission from water, Gao et al. (2013) developed a new method using a bubble trap device to collect gas samples from waters. However, the determination accuracy of sampling volume and gas component concentration was still debatable. In this study, the method was optimized for in situ sampling, accurate volume measurement and direct injection to a gas chromatograph for the analysis of N2 and other gases. By the optimized new method, the recovery rate for N2 was 100.28% on average; the mean coefficient of determination (R(2)) was 0.9997; the limit of detection was 0.02%. We further assessed the effects of the new method, bottle full of water, vs. vacuum bag and vacuum vial methods, on variations of N2 concentration as influenced by sample storage times of 1, 2, 3, 5, and 7 days at constant temperature of 15°C, using indices of averaged relative peak area (%) in comparison with the averaged relative peak area of each method at 0 day. The indices of the bottle full of water method were the lowest (99.5%-108.5%) compared to the indices of vacuum bag and vacuum vial methods (119%-217%). Meanwhile, the gas chromatograph determination of other gas components (O2, CH4, and N2O) was also accurate. The new method was an alternative way to investigate N2 released from various kinds of aquatic ecosystems.