一种简单高效的食用真菌总RNA提取方法

以金针菇为材料,建立了一种适合于富含RNase、多酚、多糖和糖蛋白的食用真菌RNA的提取方法,此方法在高浓度变性剂存在的条件下2次用苯酚-氯仿-异戊醇进行抽提去除DNA、蛋白质,并用异丙醇和乙酸钠选择性沉淀RNA、去除多糖,得到完整、均一的RNA样品。 Abstract:With Flammulina velutipes material,an improved method was developed for extracting total RNA from domestic fungus that are rich in RNase,polyphenols,polymeric carbohydrates and proteoglycans..Phenol-chloroform-isoamyl alcohol were used twice to clear DNA and protein under higher concentration of denaturing solution and isopentanol,sodium acetate were used to precipitate RNA selectively.Pure and intact RNA can be effectively prepared by this method.     

An Improved Protocol for the Isolation of RNA from Roots of Tea (Camellia sinensis (L.) O. Kuntze)

Tea, a beverage crop, is a rich source of polyphenols and polysaccharides which greatly attribute to its importance. However, oxidation and precipitation of these compounds during nucleic acids extraction is a limitation to molecular biology and genomic studies. On isolation of total RNA from root tissue using established protocols, difficulties were encountered in terms of purity and quantity of isolated RNA or some of the methods were time-consuming and also yields were low. The present communication combines a phenol-based RNA isolation protocol with a cetyltrimethylammonium bromide-based procedure with appropriate modifications. This protocol successfully isolated RNA from tap root tissue in 2-3 h as compared with 16 h reported by the previous method. Also, RNA yield was higher by more than fourfold. The RNA isolated by this protocol was successfully used for downstream applications such as RT-PCR and the construction of suppression subtractive hybridization library. The developed protocol worked well with other plant tissue with high polyphenols and polysaccharides contents.     

A Modified Protocol for RNA Extraction from Different Peach Tissues Suitable for Gene Isolation and Real-Time PCR Analysis

RNA extraction is the first step in the study of gene isolation and expression. However, it is difficult to extract high quantity and quality RNA from tissues containing large quantities of polysaccharides and polyphenols. Peach (Prunus persica), in addition to containing high levels of polysaccharides and polyphenols, is a challenging starting material for RNA isolation using a single method because of different amounts of those substances in diverse tissues. Based on three reported methods, we developed a modified RNA isolation protocol to solve this problem, leading to high quality and quantity of total RNA from peach mesocarp tissues of fruits which were sampled from all developmental stages and different storage periods, as well as from other tissues including flowers, leaves, stems, and roots. With our modified method, 28–650 μg of total RNA was routinely obtained from per gram of fresh material, gave at least a 1.16-fold improvement by compared with those isolated by other seven methods. The RNA extracts were successfully used in downstream applications such as RT-PCR, RACE, and real-time PCR.     

Biological degradation of Ascophyllum nodosum

The alginate forms the major structural component of the cell wall and the intercellular matrix of the brown alga Ascophyllum nodosum. Successful biological degradation of A. nodosum would largely depend on the dissolution of the alginate, but reactive compounds in the alga such as polyphenols may also have toxic effects on the microbial population involved. Aerobic and anaerobic batch reactors, operated at 35°C and pH 7, were fed milled A. nodosum, nutrients and inocula adapted to seaweed degradation. The dominant factor for conversion of organic matter during anaerobic digestion was the inhibitory effect of the polyphenols on alginate lyases and methane production. Probably, the relative large fraction of high molecular weight polyphenols (>10 kDa) in this alga gave efficient binding of proteins during digestion. The anaerobic degradation was greatly stimulated when the polyphenols were fixed with low amounts of formaldehyde. An accumulated content of guluronate in the remaining alginate indicated that Ca-crosslinking also limited the guluronate lyase access to the polymer. In contrast, the aerobic digestion of alga gave no increase in the guluronate content of the residual alginate. Compared to anaerobic conditions, the phenols had a much lower influence on the hydrolytic rate of organic matter during aerobic conditions. This revised version was published online in August 2006 with corrections to the Cover Date.     

一株红孢囊藻(Rhodosorus sp.SCSIO-45730)总糖和β-葡聚糖的积累特性研究

红孢囊藻(Rhodosorus sp.)可以积累高含量多糖,在医药保健和生物能源领域具有潜在开发价值。为进一步评估红孢囊藻(Rhodosorus sp.)产业化潜力,研究了一株红孢囊藻SCSIO-45730在盐度不同的4种培养基中生长及总糖和β-葡聚糖积累特性,结果表明:改良的ASW培养基相对于其他培养基(f/2、Conway和Erdschreiber)更有利于红孢囊藻SCSIO-45730生物量和总糖的积累。以ASW培养基为基础培养基,研究该藻盐度适应性,结果显示:该藻可在18‰-58‰盐度范围内正常生长,随着盐度增加,藻细胞体积逐渐增大且出现聚团现象;在盐度为38‰时,获得最大生物量、总糖含量和产率以及β-葡聚糖产率,分别为13.70 g/L、48.52%DW、412.58 mg/L·d和119.70 mg/L·d,β-葡聚糖含量随着盐度增加而降低;该藻在户外平板光生物反应器中总糖和β-葡聚糖单位体积产量分别为0.73 g/L和0.23 g/L。结果表明,红孢囊藻SCSIO-45730具有较广的盐度适应性、高产总糖和β-葡聚糖潜力,是生产生物乙醇和β-葡聚糖的理想原料。     

Yeast strains from the endogenous microflora of the olive fliesBactrocera oleae larvae which could degrade the olive oil mill wastewaters polyphenols

Worldwide, wastewaters constitute a major environmental pollutant. They are very toxic against a wide range of plants and soil microorganisms. Their toxicity is due to the presence of compounds such as polyphenols. In this study, we have isolated yeast strains from the endogenous microflora of the olive fliesBactrocera oleae larvae that were capable of degrading the olive oil mill wastewater polyphenols. The results obtained showed the presence, in the digestive tract of the larvae, of yeast strains resisting to polyphenols. Two resistant strains were isolated and have shown variable capacity of polyphenols degradation that could reach up to 72%. The two isolated strains were identified by two methods: conventional technique and molecular method associating PCR amplification and DNA sequencing of the 5.8S ribosomal RNA gene. Both techniques showed that the two isolated strains corresponded to theCandida diddensiae specie. Related to its capacity to degrade polyphenols, this specie would be a potential candidate for wastewater treatment and environmental protection.     

In vitro synthesis of the cyanelle proteins of Cyanophora paradoxa by isolated cyanelles and cyanelle RNA

Cyanelles isolated from the alga Cyanophora paradoxa Korschikoff synthesized cyanelle proteins in vitro. This synthesis was stimulated by light and totally inhibited by chloramphenicol. Cycloheximide had only a small inhibitory effect. Electrophoretic separation of the labelled soluble cyanelle proteins yielded at least 20 discrete polypeptides. The RNA isolated from the cyanelles and the whole cells was successfully translated in a rabbit reticulocyte-lysate system.Abbreviations poly(A)^-RNA, poly(A)⁺RNA nonadenylated, polyadenylated RNA; - SDS sodium dodecyl sulfate     

Inhibitory effects of polyphenols toward HCV from the mangrove plant Excoecaria agallocha L

Four new polyphenols namely excoecariphenols A-D (1-4) were isolated from the Chinese mangrove plant Excoecaria agallocha L. together with 23 known phenolic compounds. The structures of new compounds were elucidated on the basis of extensive spectroscopic analyses including IR, MS, NMR, and CD data. Excoecariphenols A and B presented as the unusual flavane-based 1-thioglycosides. Part of the isolated polyphenols were tested against hepatitis C NS3-4A protease and HCV RNA in huh 7.5 cells. Excoecariphenol D, corilagin, geraniin, and chebulagic acid showed potential inhibition toward HCV NS3-4A protease with IC(50) values in a range of 3.45-9.03μM, while excoecariphenol D and corilagin inhibited HCV RNA in huh 7.5 cells significantly. A primary structure-activity relationship (SAR) is discussed.     

异硫氰酸胍法快速提取二球悬铃木组织总RNA的研究

针对二球悬铃木组织中多酚物质含量较高的特点,采用异硫氰酸胍法从二球悬铃木花序和叶片中提取到质量高、完整性好的总RNA,28S rRNA的亮度约为18S rRNA的2倍,通过RT-PCR克隆到二球悬铃木中与拟南芥Leafy基因同源的部分编码区。高质量的RNA为Northern杂交和利用同源序列法克隆二球悬铃木的相关基因提供了前提条件。     

一种高效提取猕猴桃DNA和RNA的方法

在总核酸提取方法(PS法)的基础上,经多次实践改进,得出一种以高盐低pH的HAc-NaAc缓冲体系提取总核酸的简便方法,可以从富含多糖、多酚时猕猴桃叶片和花蕾中提取同时含有DNA和RNA的总核酸.所得的总核酸在LiCl溶液中选择性沉淀RNA,从而有效地分离出DNA和RNA样品.紫外分光光度法和琼脂糖凝胶电泳分析表明,所提取的DNA和RNA具有较高的纯度和完整性.通过样品DNA的PCR和样品RNA的RT-PCR,认为所提取的DNA样品和RNA样品能够满足分子生物学试验的基本要求.     

A rapid TRIzol-based two-step method for DNA-free RNA extraction from Arabidopsis siliques and dry seeds

Extraction of high-quality RNA from Arabidopsis seeds has been a challenge. Here we report a two-step TRIzol-based procedure for RNA extraction from Arabidopsis siliques and dry seeds. This procedure employs a modified, high pH (pH 9.5) extraction buffer. High pH plus the addition of either DTT or β-mercaptoethanol in the extraction buffer effectively inhibits RNase activity during the extraction, and removes most polysaccharides, polyphenols and other insoluble material. TRIzol reagent was subsequently used to purify the RNA. Using this procedure we isolated high-quality DNA-free RNA samples without DNase I treatment from Arabidopsis seeds or siliques in less than 3 h.     

Antifungal Bromophenols from Marine Red Alga Symphyocladia latiuscula

Three new highly brominated polyphenols, 1 – 3 , together with one known bromophenol, 4 , were isolated from the EtOH extract of a marine red alga Symphyocladia latiuscula collected from the coast of Qingdao, P. R. China. Their structures were identified by extensive spectroscopic experiments (NMR and MS) and comparison with literature data. Compounds 3 and 4 showed activities against the Candida albicans with the MIC values of 25 and 12.5 μg/ml, respectively.     

Extraction of High Quality of RNA and Construction of a Suppression Subtractive Hybridization (SSH) Library from Chestnut Rose (Rosa roxburghii Tratt)

Chestnut rose (Rosa roxburghii Tratt) is a rare fruit crop of promising economical importance in fruit and ornamental exploitation in China. Isolation of high quality RNA from chestnut rose is difficult due to its high levels of polyphenols, polysaccharides and other compounds, but a modified CTAB extraction procedure without phenol gave satisfactory results. High concentrations of PVP (2%, w/v), CTAB (2%, w/v) and β-mercaptoethanol (4%, v/v) were used in the extraction buffer to improve RNA quality. The average yield was about 200 μg RNA g⁻¹ fresh leaves. The isolated RNA was of sufficient quality for construction of suppression subtraction hybridization (SSH) library, which allowed the isolation of several pathogen-induced defense genes. Qiang Xu and Xiaopeng Wen - Contribute to this work equally Revisions requested 3 November 2005; Revisions received 18 January 2006     

一株高脂土壤小球藻的分离鉴定及脂质分析

对采自山西省庞泉沟国家自然保护区的土壤中的藻种进行分离鉴定, 获得了一株优良的高脂绿藻。经显微形态观察鉴定, 该藻株的形态特征属于小球藻属Chlorella (Chlorellasp. PQG67)。进一步对其rbcL和18S rDNA基因序列进行分析并构建系统树, 结果表明基因序列与普通小球藻Ch. vulgaris同源并聚为一支, 确定其为一株普通小球藻Ch. vulgaris PQG67。在不同光照强度下连续培养后测定其油脂含量稳定在30%左右, 在不同NaCl浓度胁迫条件下可达40%以上, 并通过叶绿素荧光值测量探索该藻株生长趋势。通过傅立叶变换红外光谱图对其油脂积累过程分析, 显示该藻株脂类成分在1634/cm附近, 有vC=O伸缩振动谱带, 随着培养时间的延长, 脂质含量的相对强度也在增加。可见该藻株具有较高的生长速率及产油能力, 是一株具产业化应用潜力的优良产油藻株。     

A simple and efficient protocol for isolation of high quality functional RNA from different tissues of turmeric (Curcuma longa L.)

Many experiments in plant molecular biology require processing of a large number of RNA samples and in some cases large quantities are required for a single application. In turmeric, a major spice and medicinal plant, a protocol for RNA isolation is not available. The major difficulty encountered while using other popular protocols is the low yield and quality of RNA which hampers the downstream applications like qRT-PCR, cDNA synthesis and micro RNA isolation. Commercial kits though available are costly and were found to be unsuccessful in case of rhizomes and root tissues that are rich in polyphenols, polysaccharides and alkaloids. It was thus felt that a quick, handy and cheap protocol of total RNA isolation from different tissues of turmeric was required for day to day working in our lab. The new protocol utilizes SDS based extraction buffer including β-mercaptoethanol and PVP with sequential acid phenol:chloroform extraction to remove polyphenols and proteins, followed by the purification with sodium acetate to eliminate polysaccharides. The protocol is simple and can be completed in less than 3 h. The RNA yield from rhizome was higher by more than fivefold with both A_260/280 and A_260/230 ratio in the range of 1.8–2.0. The protocol worked well with leaf, rhizome, pseudostem and root tissues with RIN >7.0 and the isolated RNA could be successfully used for cDNA synthesis, RT-PCR, qRT-PCR and small RNA isolation including microRNA.     

Rapid and Efficient Isolation of High-Quality Small RNAs from Recalcitrant Plant Species Rich in Polyphenols and Polysaccharides

Small RNAs, including microRNAs (miRNAs) and small interfering RNAs (siRNAs), are important regulators of plant development and gene expression. The acquisition of high-quality small RNAs is the first step in the study of its expression and function analysis, yet the extraction method of small RNAs in recalcitrant plant tissues with various secondary metabolites is not well established, especially for tropical and subtropical plant species rich in polysaccharides and polyphenols. Here, we developed a simple and efficient method for high quality small RNAs extraction from recalcitrant plant species. Prior to RNA isolation, a precursory step with a CTAB-PVPP buffer system could efficiently remove compounds and secondary metabolites interfering with RNAs from homogenized lysates. Then, total RNAs were extracted by Trizol reagents followed by a differential precipitation of high-molecular-weight (HMW) RNAs using polyethylene glycol (PEG) 8000. Finally, small RNAs could be easily recovered from supernatant by ethanol precipitation without extra elimination steps. The isolated small RNAs from papaya showed high quality through a clear background on gel and a distinct northern blotting signal with miR159a probe, compared with other published protocols. Additionally, the small RNAs extracted from papaya were successfully used for validation of both predicted miRNAs and the putative conserved tasiARFs. Furthermore, the extraction method described here was also tested with several other subtropical and tropical plant tissues. The purity of the isolated small RNAs was sufficient for such applications as end-point stem-loop RT-PCR and northern blotting analysis, respectively. The simple and feasible extraction method reported here is expected to have excellent potential for isolation of small RNAs from recalcitrant plant tissues rich in polyphenols and polysaccharides.     

Decomposition of organic chemical components in relation to nitrogen dynamics in leaf litter of 14 tree species in a cool temperate forest

Decomposition of lignin, holocellulose, polyphenols and soluble carbohydrates was investigated in relation to nitrogen (N) dynamics in leaf litter of 14 tree species. The influence of organic chemical components and N on litter mass loss rate was then evaluated for 14 litter types. The study was carried out over a 3-year period on upper and lower parts of a forest slope in a cool temperate forest in Japan. The decomposition processes were divided into early and late phases based on N immobilization and mobilization. Mass loss rate of whole litter and organic chemical components was similar for the upper and lower sites. Litter mass loss was faster in the immobilization phase than in the mobilization phase in each of 14 litter types, which was ascribed to the decreased mass loss of holocellulose, polyphenols and soluble carbohydrates in the mobilization phase as compared to the immobilization phase. Mass loss rate of lignin was not different between the phases. Litter mass loss rate in the immobilization and mobilization phases was negatively correlated to lignin content and positively correlated to contents of polyphenols and soluble carbohydrates at the start of these phases, but was not correlated to holocellulose and N contents in either phase.     

一种适用于RT-PCR的杉树类植物中总RNA提取的方法

杉树类植物含大量的多糖、多酚类物质,这使得此植物的总RNA提取较困难。研究通过比较几种有代表性的提取植物总RNA的方法,建立了一种酸酚法和PEG8000沉淀法相结合的改良的CTAB法。此方法操作简单,使用的试剂均为常规试剂,成本低,能够有效去除植物组织中多糖和多酚类等次生物质,从而得到高质量的RNA。使用这种改良的方法制备的总RNA产物对P450基因成功地进行了反转录聚合酶链式反应(reverse transeriptase-polymerase chain reaction,RT—PCR),证明此方法是一种适用于RT—PCR的杉树类植物组织中总RNA提取的方法。