Hemiascomycetous yeasts at the forefront of comparative genomics

With more than a dozen species fully sequenced, as many as this partially sequenced, and more in development, yeasts are now used to explore the frontlines of comparative genomics of eukaryotes. Innovative procedures have been developed to compare and annotate genomes at various evolutionary distances, to identify short cis-acting regulatory elements, to map duplications, or to align syntenic blocks. Human and plant pathogens, in addition to yeasts that show a variety of interesting physiological properties, are included in this multidimensional comparative survey, which encompasses a very broad evolutionary range. As major steps of the evolutionary history of hemiascomycetous genomes emerge, precise questions on the general mechanisms of their evolution can be addressed, using both experimental and in silico methods.     

Ubiquitination of pattern recognition receptors in plant innate immunity

Lacking an adaptive immune system, plants largely rely on plasma membrane‐resident pattern recognition receptors (PRRs) to sense pathogen invasion. The activation of PRRs leads to the profound immune responses that coordinately contribute to the restriction of pathogen multiplication. Protein post‐translational modifications dynamically shape the intensity and duration of the signalling pathways. In this review, we discuss the specific regulation of PRR activation and signalling by protein ubiquitination, endocytosis and degradation, with a particular focus on the bacterial flagellin receptor FLS2 (flagellin sensing 2) in Arabidopsis.     

Anion transporters in plant mitochondria

The swelling of potato (Solanum tuberosum L.) mitochondria in isosmotic ammonium salts of phosphate, chloride, malate, succinate, and citrate was investigated by measuring light scattering. Potato mitochondria swell spontaneously in ammonium phosphate, and this swelling can be inhibited in N-ethylmaleimide. They swell in ammonium malate or succinate only after the addition of inorganic phosphate and in ammonium citrate only after the addition of both phosphate and a dicarboxylic acid. Pentylmalonate inhibits swelling in ammonium citrate solutions by competing for dicarboxylate entry. The results indicate that potato mitochondria possess a phosphate-hydroxyl carrier, a dicarboxylate carrier, and a tricarboxylate carrier.     

Exposing the hidden half: root research at the forefront of science

Plant and Soil - Soil organic matter (SOM) supports multiple soil ecosystem functions, underpinned by processes such as C sequestration, N mineralization, aggregation, promotion of plant health and...     

Sugar transporters in plant biology.

Sugar transporters are key players in many fundamental processes in plant growth and development. Recent results have identified several new transporters that contribute to a wide array of physiological activities, and detailed molecular analysis has provided exciting insights into the structure and regulation of these essential membrane proteins.     

Molecular physiology of higher plant sucrose transporters

Sucrose is the primary product of photosynthetic CO(2) fixation that is used for the distribution of assimilated carbon within higher plants. Its partitioning from the site of synthesis to different sites of storage, conversion into other storage compounds or metabolic degradation involves various steps of cell-to-cell movement and transport. Many of these steps occur within symplastic domains, i.e. sucrose moves passively cell-to-cell through plasmodesmata. Some essential steps, however, occur between symplastically isolated cells or tissues. In these cases, sucrose is transiently released into the apoplast and its cell-to-cell transport depends on the activity of plasma membrane-localized, energy dependent, H(+)-symporting carrier proteins. This paper reviews the current knowledge of sucrose transporter physiology and molecular biology.     

Effects of wheat plant inoculation with cytokinin-producing microorganisms on plant growth at increasing level of mineral nutrition

Triticum durum Desf. plants were grown for 11 days in sand culture on nutrient solutions with optimum or lowered content of mineral nutrients. Thereafter, the level of mineral nutrition was increased in some portion of deficient plants. Two days before, plants were inoculated with cytokinin-producing microorganisms of the Bacillus genus. Nutrition deficiency resulted in a decrease in the rate of plant biomass accumulation, which was correlated with the level of active cytokinins in both roots and shoots. After improving the mineral nutrition of noninoculated plants, the rate of their biomass accumulation increased and, by the end of experiment, their shoot fresh weight was 1.5-fold higher than in deficient plants; however, it was still by 20% lower than in plants continuously growing at optimum mineral nutrition. Inoculation resulted in the considerable increase in the cytokinin content in shoots as compared with all other treatments. In this case, after the improvement of plant mineral nutrition, the rates of growth and relative biomass accumulation increased sharply; as a result, these plants had the highest dry and fresh weights. Thus, inoculation with cytokinin-producing bacteria was beneficial for plant growth after their transfer from deficient to sufficient mineral nutrition.     

ABC transporters involved in the transport of plant secondary metabolites

Plants produce a large number of secondary metabolites, such as alkaloids, terpenoids, polyphenols, quinones and many further compounds having combined structures of those groups. Physiological roles of those metabolites for plants are still under investigation, but they play, at least in part, important functions as protectants for plant bodies against herbivores and pathogens, as well as from physical stresses like ultraviolet light and heat. In order to accomplish these functions, biosyntheses and accumulation of secondary metabolites are highly regulated in a temporal and spatial manner in plant organs, where they can appropriately accumulate. In this mini-review, I introduce the mechanism of accumulation and membrane transport of these metabolites, in particular, focusing on ATP-binding cassette transporters involved.     

液泡膜转运蛋白在植物细胞代谢中的作用

液泡是植物细胞的一个多功能细胞器,其主要通过膜运输系统执行功能。液泡膜转运蛋白可以控制细胞内物质的储存和运输,参与细胞内的应答胁迫反应,隔离毒性离子,防止细胞质受害,调节Ca^2＋浓度和pH,维持细胞内环境的稳定。本文主要对液泡膜转运蛋白在营养储存、逆境胁迫、细胞内环境稳态中发挥的作用进行综述,以期为进一步阐释液泡复杂生理功能提供一些借鉴。     

Ectomycorrhiza of Kobresia myosuroides at a primary successional glacier forefront

The bog sedge Kobresia myosuroides is among the first ectomycorrhizal (EM) plants forming dense pads on receding glacier forefronts of the Austrian Alps. This is the only Cyperaceae species known to form EM. To date, little is known about fungal species involved in these EM associations. Therefore, the main aim of this study was to detect EM fungal communities of K. myosuroides (1) by describing mycorrhizal morphotypes (MT) and (2) by identifying the mycobionts by rDNA internal transcribed spacer (ITS) sequencing. Furthermore, seasonal dynamics of Kobresia mycobionts were investigated. Sampling was performed in all four seasons (also under snow cover) during the years 2005 and 2006 at the Rotmoos glacier forefront, a well-characterized alpine primary successional habitat in the Austrian alps (2,300 m above sea level). The degree of EM infection of K. myosuroides roots was high (95%). Ten MTs were described and sequences of 18 fungal taxa were obtained. This was the highest mycobiont diversity ever reported for this plant. Cenococcum geophilum was the most abundant mycobiont (37-46%) and shared dominancy with Sebacina incrustans (16-44%) and Tomentella spp. (7-37%). Tomentella (including Thelephora) was the most species-rich mycobiont genus with five taxa, followed by Cortinarius, Inocybe, and Sebacina with two taxa each and one Hebeloma species. Other ascomycete mycobionts beside C. geophilum were Helvella sp., Lecythophora sp., and one Pezizales species. Due to high interannual differences in the EM fungal community, no significant seasonal changes could be detected. The importance of fungal mycobionts in alpine habitats is discussed.     

Ubiquitination of p53 at multiple sites in the DNA-binding domain

The tumor suppressor p53 is negatively regulated by the ubiquitin ligase MDM2. The MDM2 recognition site is at the NH2-terminal region of p53, but the positions of the actual ubiquitination acceptor sites are less well defined. Lysine residues at the COOH-terminal region of p53 are implicated as sites for ubiquitination and other post-translational modifications. Unexpectedly, we found that substitution of the COOH-terminal lysine residues did not diminish MDM2-mediated ubiquitination. Ubiquitination was not abolished even after the entire COOH-terminal regulatory region was removed. Using a method involving in vitro proteolytic cleavage at specific sites after ubiquitination, we found that p53 was ubiquitinated at the NH2-terminal portion of the protein. The lysine residue within the transactivation domain is probably not essential for ubiquitination, as substitution with an arginine did not affect MDM2 binding or ubiquitination. In contrast, several conserved lysine residues in the DNA-binding domain are critical for p53 ubiquitination. Removal of the DNA-binding domain reduced ubiquitination and increased the stability of p53. These data provide evidence that in addition to the COOH-terminal residues, p53 may also be ubiquitinated at sites in the DNA-binding domain.     

Estimates of root system topology of five plant species grown at steady-state nutrition

Results from a controlled growth-analysis experiment were used to illustrate some methods for measuring and describing root system topology. The experiment was performed in a nutrient solution system with an exponential nutrient supply and steady-state growth, to achieve well-defined levels of whole-plant nutrient status. Five naturally coexisting grassland species were included: The slow-growing forbs Polygala vulgaris L. and Crepis praemorsa (L.) F. L. Walth., and the grass Danthonia decumbens (L.) DC. were compared with the more common, fast-growing grasses Agrostis capillaris L. and Dactylis glomerata L. The most marked difference in morphological indices was a much higher specific root length in the grasses than in the forbs, which implies thinner roots. In contrast to the conclusions of previous studies, an index of the topology for the grasses was very similar to that for the forbs. The specific root lenght and link length apparently vary more between species and nutrient levels than topology does, and may therefore be more ecologically important. The only clear plastic response to growth-limiting nitrogen supply was a markedly increased link length in P. vulgaris. There were also indications that nitrogen limitation led to more herringbone-like root systems in P. vulgaris and C. praemorsa. In general, there was a clear tendency for the estimates of topology to change with plant size, which may make many topological indices, especially those based on regression slopes, very difficult to interpret. Until interactions with plant size, other morphological parameters and among-plant competition can be properly understood, the relevance of root topology for plant performance remains unclear. This revised version was published online in June 2006 with corrections to the Cover Date.     

Fungal colonization of shrub willow roots at the forefront of a receding glacier

Shrub willows (Salix spp.) form associations with arbuscular mycorrhizal (AM), ectomycorrhizal (EM) and dark septate endophytic (DSE) fungi. Willow root colonization by these three types of fungi was studied on a deglaciated forefront of Lyman Glacier, Washington, USA. Root colonization was low; less than 1% of the root length was colonized by AM and 25.6% by DSE. EM colonized 25% of the root tips and 19.4% of the root length. AM and DSE colonization were not related to distance from the present glacier terminus or to canopy cover. EM colonization increased with distance from the glacier terminus based on gridline intercept data but not on root tip frequency data. Availability of propagules in the substrate was low, but numbers of propagules increased with distance from the glacier terminus. The EM communities were dominated by three ascomycetes showing affinity to Sordariaceae in BLAST analyses. Other frequent taxa on the glacier forefront included species of Cortinariaceae, Pezizaceae, Russulaceae, Thelephoraceae and Tricholomataceae. When occurrence of individual taxa was used as a response variable to canopy cover, distance from the glacier terminus, and their interaction, four different fungal guilds were identified: 1) fungi that did not respond to these environmental variables; 2) fungi that occurred mainly in intercanopy areas and decreased with distance from the glacier terminus; 3) fungi that were insensitive to canopy cover but increased with distance from the glacier terminus; 4) fungi that occurred mainly under willow canopies and increased with distance from the glacier terminus. We suggest that fungal colonization is mainly limited by fungal propagule availability. Environmental conditions may also limit successful establishment of plant-fungus associations. We propose that the four EM guilds partly explain successional dynamics. The initial EM community comprises fungi that tolerate low organic matter and nitrogen environment (first and second guilds above). During later community development, these fungi are replaced by those that benefit from an increased organic matter and nitrogen environment (third and fourth guilds above).     

Mineral nutrition and plant morphogenesis

Summary Plant morphogenesis in vitro can be achieved via two pathways, somatic embryogenesis or organogenesis. Relationships between the culture medium and explant leading to morphogenesis are complex and, despite extensive study, remain poorly understood. Primarily the composition and ratio of plant growth regulators are manipulated to optimize the quality and numbers of embryos or organs initiated. However, many species and varieties do not respond to this classical approach and require further optimization by the variation of other chemical or physical factors. Mineral nutrients form a significant component of culture media but are often overlooked as possible morphogenic elicitors. The combination of minerals for a particular plant species and developmental pathway are usually determined by the empirical manipulation of one or a combination of existing published formulations. Often only one medium type is used for the duration of culture even though this formulation may not be optimal for the different stages of explant growth and development. Furthermore, mineral studies have often focused on growth rather than morphogenesis with very little known of the relationships between mineral uptake and morphogenesis. This article examines the present knowledge of the main effects that mineral nutrients have on plant morphogenesis in vitro. In particular, the dynamics of nitrogen, phosphorus, and calcium supply during development are discussed.     

Whole-genome analysis of transporters in the plant pathogen Xylella fastidiosa.

The transport systems of the first completely sequenced genome of a plant parasite, Xylella fastidiosa, were analyzed. In all, 209 proteins were classified here as constitutive members of transport families; thus, we have identified 69 new transporters in addition to the 140 previously annotated. The analysis lead to several hints on potential ways of controlling the disease it causes on citrus trees. An ADP:ATP translocator, previously found in intracellular parasites only, was found in X. fastidiosa. A P-type ATPase is missing-among the 24 completely sequenced eubacteria to date, only three (including X. fastidiosa) do not have a P-type ATPase, and they are all parasites transmitted by insect vectors. An incomplete phosphotransferase system (PTS) was found, without the permease subunits-we conjecture either that they are among the hypothetical proteins or that the PTS plays a solely metabolic regulatory role. We propose that the Ttg2 ABC system might be an import system eventually involved in glutamate import rather than a toluene exporter, as previously annotated. X. fastidiosa exhibits fewer proteins with > or =4 alpha-helical transmembrane spanners than any other completely sequenced prokaryote to date. X. fastidiosa has only 2.7% of all open reading frames identifiable as major transporters, which puts it as the eubacterium having the lowest percentage of open reading frames involved in transport, closer to two archaea, Methanococcus jannaschii (2.4%) and Methanobacterium thermoautotrophicum (2.4%).