Compatible solutes and fungal development

Compatible solutes are components that can be quickly accumulated and degraded inside fungal cells. They do not disturb the functioning of proteins and protect the cell under adverse conditions. In this issue of the Biochemical Journal, Solomon and co-workers evaluate the role of mannitol, one of these components, in Stagonospora nodorum, a plant-pathogenic fungus, and find surprising effects on the development of spores and spore-forming structures.     

Stains Compatible with Dipping Radioautography

Paraffin sections of 13 different kinds of mouse tissues, containing tritiated thymidine, were used to test stains applied either before or after application of the nuclear emulsion by dipping. Criteria used to determine compatibility were good histological definition with moderate gelatin coloration, sharp contrast to silver granules and no artifact or bleaching. Stains which worked best when applied prior to dipping included Feulgen-fast green, chronium hematoxylin-phloxine, and aldehyde fuchsin-PAS. Stains which worked best when performed after photographic development included celestin blue-Mayer's haemalum, metanil yellow-iron hematoxylin, lithium carmine-picric acid, Weigert acid-iron hematoxylin, alum cochineal, methyl green-pyronin, indigo carmine-picric acid, methylene blue-azure A, toluidine blue, Nissl and Cason. “Combination” stains which worked well when tissues were partially stained before dipping and completed after development included trichrome-PAS, luxol fast blue-PAS, hematoxylin-eosin, and aniline blue-carbol fuchsin.     

Toward Clinically Compatible Phase-Contrast Mammography

Phase-contrast mammography using laboratory X-ray sources is a promising approach to overcome the relatively low sensitivity and specificity of clinical, absorption-based screening. Current research is mostly centered on identifying potential diagnostic benefits arising from phase-contrast and dark-field mammography and benchmarking the latter with conventional state-of-the-art imaging methods. So far, little effort has been made to adjust this novel imaging technique to clinical needs. In this article, we address the key points for a successful implementation to a clinical routine in the near future and present the very first dose-compatible and rapid scan-time phase-contrast mammograms of both a freshly dissected, cancer-bearing mastectomy specimen and a mammographic accreditation phantom.     

Compatible solute biosynthesis in cyanobacteria

Compatible solutes are a functional group of small, highly soluble organic molecules that demonstrate compatibility in high amounts with cellular metabolism. The accumulation of compatible solutes is often observed during the acclimation of organisms to adverse environmental conditions, particularly to salt and drought stress. Among cyanobacteria, sucrose, trehalose, glucosylglycerol and glycine betaine are used as major compatible solutes. Interestingly, a close correlation has been discovered between the final salt tolerance limit and the primary compatible solute in these organisms. In addition to the dominant compatible solutes, many strains accumulate mixtures of these compounds, including minor compounds such as glucosylglycerate or proline as secondary or tertiary solutes. In particular, the accumulation of sucrose and trehalose results in an increase in tolerance to general stresses such as desiccation and high temperatures. During recent years, the biochemical and molecular basis of compatible solute accumulation has been characterized using cyanobacterial model strains that comprise different salt tolerance groups. Based on these data, the distribution of genes involved in compatible solute synthesis among sequenced cyanobacterial genomes is reviewed, and thereby, the major compatible solutes and potential salt tolerance of these strains can be predicted. Knowledge regarding cyanobacterial salt tolerance is not only useful to characterize strain-specific adaptations to ecological niches, but it can also be used to generate cells with increased tolerance to adverse environmental conditions for biotechnological purposes.     

Transport of Compatible Solutes in Extremophiles

Salt-tolerant as well as moderately halophilic and halophilic organisms have to maintain their turgor. One strategy is to accumulate small organic compounds, compatible solutes, by de novo synthesis or uptake. From a bioenergetic point of view, uptake is preferred over biosynthesis. The transport systems catalyzing uptake of compatible solutes are of primary or secondary nature and coupled to ATP hydrolysis or ion (H+, Na+) symport. Expression of the transporter genes as well as the activity of the transporters is regulated by salinity/osmolarity and one of the key questions is how salinity or osmolarity is sensed and the signal transmitted as far as to gene expression and transporter activation. Recent studies shed light on the nature and the activation mechanisms of solute transporters in extremophiles, and this review summarizes current knowledge on the structure, function and osmo- or salt-regulation of transporters for compatible solutes in extremophiles.     

相容性溶质四氢嘧啶及其羟基化衍生物的研究进展

四氢嘧啶类化合物是嗜盐以及耐盐菌胞内合成的一类能够抵御外界高盐胁迫的相容性溶质,概述了四氢嘧啶及其衍生物的理化特征以及在嗜盐微生物中抵御外界高渗透压的作用机理,主要阐述了四氢嘧啶类相容性溶质的生物合成途径、膜运输机理、分泌释放机制、高密度发酵生产等方面在细胞、分子水平上的最新研究进展以及前景展望。并且综述了四氢嘧啶类在精细化工、生物医药及生物制造等行业的应用研究以及发展前景,探讨了未来的研究方向。     

Compatible solutes in new moderately halophilic isolates

Abstract Using high performance liquid chromatography and nuclear magnetic resonance techniques, the compatible solutes of some moderately halophilic bacteria were studied. The following accepted species of moderately halophilic bacteria were included: Volcaniella eurihalina and Deleya salina among Gram-negative rods, and Salinicoccus roseus and Salinicoccus hispanicus among Gram-positive cocci. Besides these strains we have also screened other new isolates, including Marinomonas species and Gram-positive cocci and rods. The tetrahydropyrimidine carboxylic acid 'ectoine' was found to be the main compatible solute in the Gram-negative strains tested when these were grown in glucose-mineral medium. In addition, betaine was accumulated from complex media containing yeast extract. Among the Gram-positive strains investigated, the solutes proline (bacillus 30, Salinicoccus ) and hydroxyectoine (coccus 28) also played an important role, while alanine, glucose, glutamate, glutamine and trehalose occurred as minor components. We also detected two recently described compatible solutes: Nδ -acetylornithine and a homologous compound, Nε -acetyllysine. Representatives of distinct phenotypic groups of Gram-positive cocci and rods were clearly distinguished by their solute pattern.     

兼容性立木生物量非线性模型研究

1　引　言资源和环境问题,是人类社会面临的严峻挑战。森林作为一种再生资源和重要的环境资源,不仅可持续提供社会发展所必不可少的林产品,而且在全球环境保护方面占有独一无二的地位。因此,在当今森林资源监测中,森林生物量作为重要监测项目已在全球范围内得到普遍承认,并被国际林联(ＩＵＦＲＯ)在《国际森林资源监测大纲》中列为最主要的监测项目之一[1]。由于生物量测定的难度大,对于区域性的生物量清查,最切实可行的方法是将其作为清查项目兼容于已有的森林资源监测体系中。就我国情况而言,首先应建立能与立木材积模型兼容且生物总量与…     

Compatible solutes as protectants for zymogens against proteolysis

Compatible solutes are small organic osmoprotectants that have the capability to stabilize proteins. In coupled assays, the effect of the solutes ectoine, hydroxyectoine and betaine on the activation of the zymogens trypsinogen and chymotrypsinogen, catalyzed by enteropeptidase and trypsin, respectively, was studied. To different extents, all solutes protected the zymogens against activation. Ectoine (800 mM) was the most potent solute in reducing the formation of trypsin to 4% of the control value and of chymotrypsin to 23%. In separate experiments, the ability of the solutes to preserve proteolytic activity during incubation was investigated. After 4 h, trypsin and chymotrypsin completely lost their activity, but in the presence of ectoine, approximately 50% residual activity was maintained. It is proposed that a conformational shift of the protein towards folded, native-like states induced by preferential exclusion of the solute is responsible for the stabilizing and chaperone-like effects.     

Compatible limb patterning mechanisms in urodeles and anurans

We have experimentally tested the similarity of limb pattern-forming mechanisms in urodeles and anurans. To determine whether the mechanisms of limb outgrowth are equivalent, we compared the results of two kinds of reciprocal limb bud grafts between Xenopus and axolotls: contralateral grafts to confront anterior and posterior positions of graft and host, and ipsilateral grafts to align equivalent circumferential positions. Axolotl limb buds grafted to Xenopus hosts are immunologically rejected at a relatively early stage. Prior to rejection, however, experimental (but not control) grafts form supernumerary digits. Xenopus limb buds grafted to axolotl hosts are not rejected within the time frame of the experiment and therefore can be used to test the ability of frog cells to elicit responses from axolotl tissue that are similar to those that are elicited by axolotl tissue itself. When Xenopus buds were grafted to axolotl limb stumps so as to align circumferential positions, the majority of limbs did not form any supernumerary digits. However, in experimental grafts, where anterior and posterior of host and graft were misaligned, supernumerary digits formed at positional discontinuities. These results suggest that Xenopus/axolotl cell interactions result in responses that are similar to axolotl/axolotl cell interactions. Furthermore, axolotl and Xenopus cells can cooperate to build recognizable skeletal elements, despite large differences in cell size and growth rate between the two species. We infer from these results that urodeles and anurans share the same limb pattern-forming mechanisms, including compatible positional signals that allow appropriate localized cellular interactions between the two species. Our results suggest an approach for understanding homology of the tetrapod limb based on experimental cellular interactions.     

Compatible solutes reduce ROS-induced potassium efflux in Arabidopsis roots

Reactive oxygen species (ROS) are known to be primarily responsible for the impairment of cellular function under numerous abiotic and biotic stress conditions. In this paper, using non-invasive microelectrode ion flux measuring (MIFE) system, we show that the application of a hydroxyl radical (OH*)-generating Cu2+/ascorbate (Cu/a) mixture to Arabidopsis roots results in a massive, dose-dependent efflux of K+ from epidermal cells in the elongation zone. Pharmacological experiments suggest that both outward-rectifying K+ channels and non-selective cation channels (NSCCs) mediate such effluxes. Low (5 mM) concentrations of compatible solutes (glycine betaine, proline, mannitol, trehalose or myo-inositol) significantly reduces OH*-induced K+ efflux, similar to our previous reports for NaCl-induced K+ efflux. Importantly, a significant reduction in K+ efflux was found using osmolytes with no reported free radical scavenging activity, as well as those for which a role in free radical scavenging has been demonstrated. This indicates that compatible solutes must play other (regulatory) roles, in addition to free radical scavenging, in mitigating the damaging effects of oxidative stress.     

真菌营养亲和群鉴定方法的改进

真菌营养不亲和鉴定的通常方法是将菌株两两对接,观察它们之间是否产生拮抗反应,此方法简单且成本低,但是因每个菌株要与其余菌株配对,若测试菌株多,则工作量大。为了减少工作量,提高效率,将配对方式加以优化,仅利用3个培养皿即可得到7个菌株之间的营养亲和关系,结果直观清晰,可以大大减少工作量,节省了材料和时间,并且降低了接种过程中污染风险。     

Characterization of Two Compatible Small Plasmids from Sphingobium yanoikuyae

We isolated and characterized two small cryptic indigenous plasmids, pYAN-1 (4,896 bp) and pYAN-2 (4,687 bp), from Sphingobium yanoikuyae, and developed a versatile system that permitted genetic manipulation of the genus Sphingomonas. Nucleotide sequencing of both plasmids revealed that they contained mobA, mobs, and repA genes, which are predicted to encode proteins associated with mobilization and replication, in common. Transformation with each plasmid harboring the antibiotic resistance gene by electroporation was fully successful, using Novosphingobium capsulatum as a host.     

适用于Nimble Cloning系统的pCambia载体改造

为了适用于Nimble Cloning这种新型的DNA分子克隆技术,本研究以pCambia1304载体作为改造对象,采用突变碱基的方式去除载体中的5个Sfi I酶切位点,并且对改造后的载体在农杆菌中的稳定性以及在植物中的表达进行分析,结果表明5个Sfi I位点突变对载体的稳定性和表达没有影响。本研究为Nimble Cloning系统提供了配套载体,也为其他pCambia系列载体改造成Nimble Cloning系统载体提供了模板和参考。     

Compatible ionic liquid-cellulases system for hydrolysis of lignocellulosic biomass

Ionic liquids (ILs) have been increasingly recognized as novel solvents for dissolution and pretreatment of cellulose. However, cellulases are inactivated in the presence of ILs, even when present at low concentrations. To more fully exploit the benefits of ILs it is critical to develop a compatible IL‐cellulases system in which the IL is able to effectively solubilize and activate the lignocellulosic biomass, and the cellulases possess high stability and activity. In this study, we investigated the stability and activity of a commercially available cellulases mixture in the presence of different concentrations of 1‐ethyl‐3‐methylimidazolium acetate ([Emim][OAc]). A mixture of cellulases and β‐glucosidase (Celluclast1.5L, from Trichoderma reesei, and Novozyme188, from Aspergillus niger, respectively) retained 77% and 65% of its original activity after being pre‐incubated in 15% and 20% (w/v) IL solutions, respectively, at 50°C for 3 h. The cellulases mixture also retained high activity in 15% [Emim][OAc] to hydrolyze Avicel, a model substrate for cellulose analysis, with conversion efficiency of approximately 91%. Notably, the presence of different amounts of yellow poplar lignin did not interfere significantly with the enzymatic hydrolysis of Avicel. Using this IL‐cellulase system (15% [Emim][OAc]), the saccharification of yellow poplar biomass was also significantly improved (33%) compared to the untreated control (3%) during the first hour of enzymatic hydrolysis. Together, these findings provide compelling evidence that [Emim][OAc] was compatible with the cellulase mixture, and this compatible IL‐cellulases system is promising for efficient activation and hydrolysis of native biomass to produce biofuels and co‐products from the individual biomass components. Bioeng. 2011; 108:1042–1048. © 2010 Wiley Periodicals, Inc.     

Multi-Platform Compatible Software for Analysis of Polymer Bending Mechanics

Cytoskeletal polymers play a fundamental role in the responses of cells to both external and internal stresses. Quantitative knowledge of the mechanical properties of those polymers is essential for developing predictive models of cell mechanics and mechano-sensing. Linear cytoskeletal polymers, such as actin filaments and microtubules, can grow to cellular length scales at which they behave as semiflexible polymers that undergo thermally-driven shape deformations. Bending deformations are often modeled using the wormlike chain model. A quantitative metric of a polymer''s resistance to bending is the persistence length, the fundamental parameter of that model. A polymer''s bending persistence length is extracted from its shape as visualized using various imaging techniques. However, the analysis methodologies required for determining the persistence length are often not readily within reach of most biological researchers or educators. Motivated by that limitation, we developed user-friendly, multi-platform compatible software to determine the bending persistence length from images of surface-adsorbed or freely fluctuating polymers. Three different types of analysis are available (cosine correlation, end-to-end and bending-mode analyses), allowing for rigorous cross-checking of analysis results. The software is freely available and we provide sample data of adsorbed and fluctuating filaments and expected analysis results for educational and tutorial purposes.     

Compatible plant-aphid interactions: How aphids manipulate plant responses

To access phloem sap, aphids have developed a furtive strategy, their stylets progressing towards sieve tubes mainly through the apoplasmic compartment. Aphid feeding requires that they overcome a number of plant responses, ranging from sieve tube occlusion and activation of phytohormone-signalling pathways to expression of anti-insect molecules. In addition to bypassing plant defences, aphids have been shown to affect plant primary metabolism, which could be a strategy to improve phloem sap composition in nutrients required for their growth. During compatible interactions, leading to successful feeding and reproduction, aphids cause alterations in their host plant, including morphological changes, modified resource allocation and various local as well as systemic symptoms. Repeated salivary secretions injected from the first probe in the epidermal tissue up to ingestion of sieve-tube sap may play a crucial role in the compatibility between the aphid and the plant.