Comparison of different methods for total RNA extraction from sclerotia of Rhizoctonia solani

Background Rhizoctonia solani (teleomorph: Thanatephorus cucumeris) is one of the most important pathogens of rice (Oryza sativa L.) that causes severe yield losses in all rice-growing regions. Sclerotia, formed from the aggregation of hyphae, are important structures in the life cycles of R. solani and contain a large quantity of polysaccharides, lipids, proteins and pigments. In order to extract high-quality total RNA from the sclerotia of R. solani, five methods, including E.Z.N.A.™ Fungal RNA Kit, sodium dodecyl sulfate (SDS)-sodium borate, SDS-polyvinylpyrrolidone (PVP), guanidinium thiocyanate (GTC) and modified Trizol, were compared in this study. Results The electrophoresis results showed that it failed to extract total RNA from the sclerotia using modified Trizol method, whereas it could extract total RNA from the sclerotia using other four methods. Further experiments confirmed that the total RNA extracted using SDS-sodium borate, SDS-PVP and E.Z.N.A.™ Fungal RNA Kit methods could be used for RT-PCR of the specific amplification of GAPDH gene fragments, and that extracted using GTC method did not fulfill the requirement for above-mentioned RT-PCR experiment. Conclusion It is concluded that SDS-sodium borate and SDS-PVP methods were the better ones for the extraction of high-quality total RNA that could be used for future gene cloning and expression studies, whereas E.Z.N.A.™ Fungal RNA Kit was not taken into consideration when deal with a large quantity of samples because it is expensive and relatively low yield.

Descelularização como método anticalcificante em próteses valvares de pericárdio bovino sem suporte: estudo em ovinos / Decellularization as an anticalcification method in stentless bovine pericardium valve prosthesis: a study in sheep

OBJETIVO: Avaliar o processo de descelularização com dodecil sulfato de sódio (SDS) como método anticalcificante em próteses de pericárdio bovino fixadas em glutaraldeído, em modelo circulatório de ovinos. MÉTODOS: Tubos valvulados de pericárdio bovino foram implantados em posição pulmonar de ovinos por 180 dias. Os animais foram divididos em dois grupos com oito animais: grupo controle, com condutos de pericárdio fixado em glutaraldeído e grupo estudo, com pericárdio descelularizado com SDS 0,1% e posteriormente fixado em GDA. Os explantes foram submetidos à análise macroscópica, histológica com hematoxilina-eosina, alizarina-red e pentacrômico de Russel-Movatz, estudo radiológico e quantificação de cálcio com espectrometria de absorção atômica. RESULTADOS: Não houve mortalidade imediata, porém dois animais de cada grupo faleceram na evolução tardia. Os enxertos do grupo controle apresentavam intensa calcificação das cúspides e em algumas regiões dos condutos, enquanto que os enxertos descelularizados apresentavam-se preservados, sem calcificações macroscópicas evidentes. Esses resultados foram comprovados por análise histológica e radiográfica. Histologicamente, os enxertos descelularizados tiveram sua matriz melhor preservada e com diminuição acentuada da calcificação. O conteúdo de cálcio nos condutos foi de 35±42 µg/mg de tecido no grupo controle versus 15 ±10 µg/mg nos descelularizados. Nas cúspides valvares, esses valores foram de 264±126 µg/mg no grupo controle versus 94±27 µg/mg nos descelularizados (P=0,009). CONCLUSÃO: A descelularização com SDS 0,1% foi efetiva como método anticalcificante em condutos de pericárdio bovino implantados em modelo circulatório de ovinos por 180 dias.

OBJECTIVE: The objective was to analyze the decellularization process with SDS in glutaraldehyde-preserved bovine pericardium as an anticalcification method in a circulatory sheep model. METHODS: The valved tubs were implanted in pulmonary artery position in sheep by 180 days. The animals were divided in two groups of 8 animals: control group glutaraldehyde-preserved bovine pericardium and the study group - decellularized bovine pericardium with 0,1% SDS and glutaraldehyde-preserved. After explantation the tubs were analized by x-ray macroscopy, hematoxilin-eosin, alizarin-red and Russel-Movatz pentacromic histology. The calcium content was measured by flame atomic absorption spectrometry. RESULTS: There was no early mortality, but two animals in each group died during the study. All cusps in the control group were severely calcified and in some points in the conduits, while the decellularized group did not show macroscopic calcification. Data were proved by x-ray and histologycal exams. The matrix was preserved in histologycal analysis in decellularized group, without gross calcification. The wall conduits calcium content was 35,25±42,13 µg/mg in the control group versus 15,75±10,44 µg/mg in the decellularized one: in the cusps was 264,4±126,16 µg/mg in control group versus 94,29±27,05 µg/mg in decellularized group (P=0,009). CONCLUSION: The decellularization with 0.1% SDS was effective as an anticalcification method in bovine pericardial grafts implanted in a sheep circulatory model for 180 days.

Comparison of mtDNA extracting methods for common sarcosaphagous insects / 法医学杂志

OBJECTIVE@#To compare effects of three different methods for mtDNA extraction from common sarcosaphagous insects including cetyl trimethyl ammonium bromide (CTAB) method, sodium dodecyl sulfate-potassium acetate (SDS-KAc) method and sodium dodecyl sulfate-proteinase K (SDS-PK) method.@*METHODS@#Seventy-two insects from four species [Chrysomya megacephala (Fabricius, 1784), Eusilpha bicolor (Fairmaire, 1896), Paraeutrichopus pecoudi (Mateu, 1954), Vespa velutina (Lepeletier, 1836)] were collected from the corpses of the rabbits in Changsha district. The total DNA of above samples was extracted by CTAB, SDS-Kac and SDS-PK methods. The purity and concentration of DNA were examined by protein-nucleic acid spectrophotometry, and mtDNA were amplified by specific primers and PCR products were detected by agarose gel electrophoresis. Then PCR products were sequenced and subsequently up-loaded to GenBank.@*RESULTS@#mtDNA was successfully extracted with three methods from most of the samples. The SDS-PK method was better in DNA purity compared to other methods and the CTAB method was superior in extracting DNA from old samples, while SDS-KAc method showed no significant difference for extraction effects of different samples.@*CONCLUSION@#The most appropriate method should be chosen depending on different situations. SDS-PK method is expected to obtain high-quality DNA, while CTAB method is preferred in extracting obsolete samples. SDS-KAc method is low cost and can be used in various kinds of preliminary experiments.

Isolation and characterization of photosystem II from the filamentous sporophyte of Porphyra yezoensis.

Thylakoid membranes were isolated and purified from diploid filamentous sporophytes of Porphyra yezoensis Ueda using sucrose density gradient ultracentrifugation (SDGUC). After thylakoid membranes were solubilized with SDS, the phtosystem II (PSII) particles with high 2, 6-dichloroindophenol (DCIP) photoreduction activity were isolated by SDGUC. The absorption and fluorescence spectra, DCIP photoreduction activity and oxygen evolution activity of the thylakoid membranes and PSII particles were determined. The polypeptide composition of purified PSII particles was distinguished by SDS-PAGE. Results showed that PSII particles of sporophytes differed from the gametophytes in spectral properties and polypeptide composition. Apart from 55 kDa D1-D2 heterodimer, CP47, CP43, 33 kDa protein, D1, D2, cyt b559 and 12 kDa protein were identified from PSII particles from sporophytes; a new 102 kDa protein was also detected. However, cyt c-550, 20 kDa, 14 kDa and 16 kDa proteins found in PSII particles from gametophytes were not detected in the sporophytes.

Taurine prevents collagen abnormalities in high fructose-fed rats.

BACKGROUND & OBJECTIVE: Accumulation of collagen and changes in its physiochemical properties contribute to the development of secondary complications of diabetes. We undertook this study to see the effects of taurine on the content and characteristics of collagen from tail tendon of rats fed with high fructose diet. METHODS: The rats were divided into four groups of six each: control group (CON), taurine-supplemented control group (CON+TAU), taurine supplemented (FRU+TAU) and not supplemented fructose-fed group (FRU). The physico-chemical properties of collagen isolated from the tail tendon were studied. RESULTS: Fructose administration caused accumulation of collagen in tail tendon. Enhanced glycation and advanced glycation end products (AGE)-linked fluorescence together with alterations in aldehyde content, solubility pattern, susceptibility to denaturing agents and shrinkage temperature were observed in fructose-fed rats. Elevated b component of type I collagen was evidenced from the SDS gel pattern of collagen from the fructose-fed rats. Simultaneous administration of taurine alleviated these changes. INTERPRETATION & CONCLUSION: Taurine administration to fructose-rats had a positive influence on both quantitative and qualitative properties of collagen. The results of the present study suggested a role for the action of taurine in delaying diabetic complications and the possible use of taurine as an adjuvant therapeutic measure in the management of diabetes and its complications.

Solubilization and binding of DNA-CTAB complex with SDS in aqueous media.

Extent of binding (gamma 2(1)) of sodium dodecyl sulphate (SDS) to the binary complex formed between calfthymus DNA and cetyltrimethylammonium bromide (CTAB) has been measured in mole per mole of nucleotide in the complex as function of concentration of SDS by using equilibrium dialysis technique at different temperatures and pH. Binding of SDS to thermally denatured DNA-CTAB complex has also been studied. The most interesting aspect to be noted in this experiment is that the water insoluble DNA-CTAB binary complex gets solubilized in the ternary mixture in presence of SDS but when DNA is thermally denatured, the ternary system DNA-CTAB-SDS remains insoluble. Significant change in the extent of binding has been noted with the variation of the relative composition of DNA and CTAB in their binary mixture. The data of binding of SDS to DNA-CTAB complex are compared more precisely in terms of the standard Gibbs' free energy decrease (-delta G degree) for the saturation of the binding sites in the complex with the change of SDS activity from zero to unity in the rational mole fraction scale.

High and low molecular weight proteolytic activities in prawn (Metapenaeus brevicornis) muscle.

Muscle extract of prawn (Metapenaeus brevicornis) expressed high azocoll lytic activity compared to extracts of many other prawn varieties; the activity was also inhibited to a small extent by dithiothreitol. Ammonium sulphate precipitation, subsequent extraction at pH 5.6 and chromatography revealed the occurrence of two types of azocoll lytic activities: one, high molecular weight (630 kDa) and the other low molecular weight (< 30 kDa) enzyme. The former was stimulated by dithiothreitol whereas the latter was inhibited. SDS PAGE of high molecular weight preparation did not show homogeneity but the profile was similar to that of the low molecular weight fraction. Gel filtration of high molecular weight enzyme following incubation at high pH revealed the formation of low molecular weight fractions having activity towards azocoll. Chymotrypsin-like activity associated with high molecular weight enzyme was also susceptible to dissociation by high pH. Azocoll lytic activity of both enzymes was strongly inhibited by 1,10-phenanthroline.