The interplay between siderophore secretion and coupled iron and copper transport in the heterocyst-forming cyanobacterium Anabaena sp. PCC 7120

Iron uptake is essential for Gram-negative bacteria including cyanobacteria. In cyanobacteria, however, the iron demand is higher than in proteobacteria due to the function of iron as a cofactor in photosynthesis and nitrogen fixation, but our understanding of iron uptake by cyanobacteria stands behind the knowledge in proteobacteria. Here, two genes involved in this process in the heterocyst-forming cyanobacterium Anabaena sp. PCC 7120 were identified. ORF all4025 encodes SchE, a putative cytoplasmic membrane-localized transporter involved in TolC-dependent siderophore secretion. Inactivation of schE resulted in an enhanced sensitivity to high metal concentrations and decreased secretion of hydroxamate-type siderophores. ORF all4026 encodes a predicted outer membrane-localized TonB-dependent iron transporter, IacT. Inactivation of iacT resulted in decreased sensitivity to elevated iron and copper levels. Expression of iacT from the artificial trc promoter (P_trc) resulted in sensitization against tested metals. Further analysis showed that iron and copper effects are synergistic because a decreased supply of iron induced a significant decrease of copper levels in the iacT insertion mutant but an increase of those levels in the strain carrying P_trc-iacT. Our results unravel a link between iron and copper homeostasis in Anabaena sp. PCC 7120.     

Regional Assessment of N Saturation using Foliar and Root \varvec {\delta}^{\bf 15}{\bf N}

N saturation induced by atmospheric N deposition can have serious consequences for forest health in many regions. In order to evaluate whether foliar may be a robust, regional-scale measure of the onset of N saturation in forest ecosystems, we assembled a large dataset on atmospheric N deposition, foliar and root and N concentration, soil C:N, mineralization and nitrification. The dataset included sites in northeastern North America, Colorado, Alaska, southern Chile and Europe. Local drivers of N cycling (net nitrification and mineralization, and forest floor and soil C:N) were more closely coupled with foliar than the regional driver of N deposition. Foliar increased non-linearly with nitrification:mineralization ratio and decreased with forest floor C:N. Foliar was more strongly related to nitrification rates than was foliar N concentration, but concentration was more strongly correlated with N deposition. Root was more tightly coupled to forest floor properties than was foliar . We observed a pattern of decreasing foliar values across the following species: American beech>yellow birch>sugar maple. Other factors that affected foliar included species composition and climate. Relationships between foliar and soil variables were stronger when analyzed on a species by species basis than when many species were lumped. European sites showed distinct patterns of lower foliar , due to the importance of ammonium deposition in this region. Our results suggest that examining values of foliage may improve understanding of how forests respond to the cascading effects of N deposition.     

Optimization of physical parameters for exo-biopolymer production in submerged mycelial cultures of two entomopathogenic fungi Paecilomyces japonica and Paecilomyces tenuipes

AIMS: In the present study, two different optimization techniques were used to determine the suitable operating parameters for exo-biopolymer production in submerged mycelial cultures of two entomopathogenic fungi Paecilomyces japonica and Paecilomyces tenuipes. METHODS AND RESULTS: First, the rotating simplex method, a nonstatistical optimization technique, was employed to obtain the best combination of physical parameters (viz. pH, agitation intensity, aeration rate) for maximum exo-biopolymer production by P. japonica in a batch bioreactor. The optimal combination was determined to be a pH of 8.06, an aeration of 3 vvm, without any impeller agitation, producing a 17-time increase in exopolymer production (34.5 g l(-1)) when compared with that achieved in unoptimized flask cultures. Second, the uniform design method, a statistical optimization technique, was employed to determine the best operating parameters for submerged culture of P. tenuipes. The optimal combination for mycelial growth was determined to be a pH of 4.88, an aeration of 2 vvm and an agitation of 350 rpm, while a pH of 4, an aeration of 2 vvm and an agitation of 150 rpm was best for exo-biopolymer production. CONCLUSIONS: The exo-biopolymer production in P. japonica optimized by the rotating simplex method was strikingly improved (max. 34.5 g l(-1)), and the exo-biopolymer production in P. tenuipes optimized by the uniform design method was also significantly increased (max. 3.4 g l(-1)). SIGNIFICANCE AND IMPACT OF THE STUDY: The successful application of these two different optimization techniques in this study implies that these methods are worthy of applying to other fermentation systems for the production of bioactive mycelial biomass and exo-biopolymers in liquid culture of higher fungi.     

Exploration of genes showing intramuscular fat deposition-associated expression changes in musculus longissimus muscle

Marbling, as defined by the amount of intramuscular fat, is an economically important trait in beef cattle. Intramuscular fat deposition is postulated to arise mainly from a series of adipogenic events in intramuscular adipocyte-lineage cells and in the physiological or anatomical milieux surrounding them. This study was designed to investigate gene-expression patterns associated with fat deposition in musculus longissimus muscle, including adipocyte-lineage cells and part of the milieux. Differential-display PCR (ddPCR) was used to examine expression differences between low-marbled and high-marbled steer groups at 8, 10, 12 and 14 months of age, encompassing the time that marbling starts to appear. Seventy-four of 2114 total bands on ddPCR gel-bands were significant (P < 0.05) for the group effect, the interaction effect between group and age, or both the group and the interaction effects. Sequence analysis of 72 of these bands revealed 77 genes, including 35 annotated genes and 42 novel sequences. Among the 35 annotated genes, 6 (BTG2, PDHB, SORBS1, TRDN, TTN and MGP) have been related to changes in intramuscular fat deposition, possibly by exerting effects on adipocyte-lineage cells or on the milieux surrounding them.     

Response of Oxidative Enzyme Activities to Nitrogen Deposition Affects Soil Concentrations of Dissolved Organic Carbon

Recent evidence suggests that atmospheric nitrate (NO ₃ ⁻ ) deposition can alter soil carbon (C) storage by directly affecting the activity of lignin-degrading soil fungi. In a laboratory experiment, we studied the direct influence of increasing soil NO ₃ ⁻ concentration on microbial C cycling in three different ecosystems: black oak–white oak (BOWO), sugar maple–red oak (SMRO), and sugar maple–basswood (SMBW). These ecosystems span a broad range of litter biochemistry and recalcitrance; the BOWO ecosystem contains the highest litter lignin content, SMRO had intermediate lignin content, and SMBW leaf litter has the lowest lignin content. We hypothesized that increasing soil solution NO ₃ ⁻ would reduce lignolytic activity in the BOWO ecosystem, due to a high abundance of white-rot fungi and lignin-rich leaf litter. Due to the low lignin content of litter in the SMBW, we further reasoned that the NO ₃ ⁻ repression of lignolytic activity would be less dramatic due to a lower relative abundance of white-rot basidiomycetes; the response in the SMRO ecosystem should be intermediate. We increased soil solution NO ₃ ⁻ concentrations in a 73-day laboratory incubation and measured microbial respiration and soil solution dissolved organic carbon (DOC) and phenolics concentrations. At the end of the incubation, we measured the activity of β-glucosidase, N-acetyl-glucosaminidase, phenol oxidase, and peroxidase, which are extracellular enzymes involved with cellulose and lignin degradation. We quantified the fungal biomass, and we also used fungal ribosomal intergenic spacer analysis (RISA) to gain insight into fungal community composition. In the BOWO ecosystem, increasing NO ₃ ⁻ significantly decreased oxidative enzyme activities (−30% to −54%) and increased DOC (+32% upper limit) and phenolic (+77% upper limit) concentrations. In the SMRO ecosystem, we observed a significant decrease in phenol oxidase activity (−73% lower limit) and an increase in soluble phenolic concentrations (+57% upper limit) in response to increasing NO ₃ ⁻ in soil solution, but there was no significant change in DOC concentration. In contrast to these patterns, increasing soil solution NO ₃ ⁻ in the SMBW soil resulted in significantly greater phenol oxidase activity (+700% upper limit) and a trend toward lower DOC production (−52% lower limit). Nitrate concentration had no effect on microbial respiration or β-glucosidase or N-acetyl-glucosaminidase activities. Fungal abundance and basidiomycete diversity tended to be highest in the BOWO soil and lowest in the SMBW, but neither displayed a consistent response to NO ₃ ⁻ additions. Taken together, our results demonstrate that oxidative enzyme production by microbial communities responds directly to NO ₃ ⁻ deposition, controlling extracellular enzyme activity and DOC flux. The regulation of oxidative enzymes by different microbial communities in response to NO ₃ ⁻ deposition highlights the fact that the composition and function of soil microbial communities directly control ecosystem-level responses to environmental change.     

Microbial Cycling of C and N in Northern Hardwood Forests Receiving Chronic Atmospheric NO 3 − Deposition

Sugar maple (Acer saccharum Marsh.)-dominated northern hardwood forests in the upper Lakes States region appear to be particularly sensitive to chronic atmospheric NO₃⁻ deposition. Experimental NO₃⁻ deposition (3 g NO₃⁻ N m⁻² y⁻¹) has significantly reduced soil respiration and increased the export of DOC/DON and NO₃⁻ across the region. Here, we evaluate the possibility that diminished microbial activity in mineral soil was responsible for these ecosystem-level responses to NO₃⁻ deposition. To test this alternative, we measured microbial biomass, respiration, and N transformations in the mineral soil of four northern hardwood stands that have received 9 years of experimental NO₃⁻ deposition. Microbial biomass, microbial respiration, and daily rates of gross and net N transformations were not changed by NO₃⁻ deposition. We also observed no effect of NO₃⁻ deposition on annual rates of net N mineralization. However, NO₃⁻ deposition significantly increased (27%) annual net nitrification, a response that resulted from rapid microbial NO₃⁻ assimilation, the subsequent turnover of NH₄⁺, and increased substrate availability for this process. Nonetheless, greater rates of net nitrification were insufficient to produce the 10-fold observed increase in NO₃⁻ export, suggesting that much of the exported NO₃⁻ resulted directly from the NO₃⁻ deposition treatment. Results suggest that declines in soil respiration and increases in DOC/DON export cannot be attributed to NO₃⁻-induced physiological changes in mineral soil microbial activity. Given the lack of response we have observed in mineral soil, our results point to the potential importance of microbial communities in forest floor, including both saprotrophs and mycorrhizae, in mediating ecosystem-level responses to chronic NO₃⁻ deposition in Lake States northern hardwood forests.     

Coupled Nitrogen and Calcium Cycles in Forests of the Oregon Coast Range

Nitrogen (N) is a critical limiting nutrient that regulates plant productivity and the cycling of other essential elements in forests. We measured foliar and soil nutrients in 22 young Douglas-fir stands in the Oregon Coast Range to examine patterns of nutrient availability across a gradient of N-poor to N-rich soils. N in surface mineral soil ranged from 0.15 to 1.05% N, and was positively related to a doubling of foliar N across sites. Foliar N in half of the sites exceeded 1.4% N, which is considered above the threshold of N-limitation in coastal Oregon Douglas-fir. Available nitrate increased five-fold across this gradient, whereas exchangeable magnesium (Mg) and calcium (Ca) in soils declined, suggesting that nitrate leaching influences base cation availability more than soil parent material across our sites. Natural abundance strontium isotopes (⁸⁷Sr/⁸⁶Sr) of a single site indicated that 97% of available base cations can originate from atmospheric inputs of marine aerosols, with negligible contributions from weathering. Low annual inputs of Ca relative to Douglas-fir growth requirements may explain why foliar Ca concentrations are highly sensitive to variations in soil Ca across our sites. Natural abundance calcium isotopes (δ⁴⁴Ca) in exchangeable and acid leachable pools of surface soil measured at a single site showed 1 per mil depletion relative to deep soil, suggesting strong Ca recycling to meet tree demands. Overall, the biogeochemical response of these Douglas-fir forests to gradients in soil N is similar to changes associated with chronic N deposition in more polluted temperate regions, and raises the possibility that Ca may be deficient on excessively N-rich sites. We conclude that wide gradients in soil N can drive non-linear changes in base-cation biogeochemistry, particularly as forests cross a threshold from N-limitation to N-saturation. The most acute changes may occur in forests where base cations are derived principally from atmospheric inputs.     

植物对Si的吸收、运输和沉积

本文综述了植物中的S i及其吸收、运输和沉积的研究进展:(1)植物含S i量因植物种、品种甚至无性系与器官的不同而有较大差异,S i在细胞中呈现区隔化分配;(2)植物中沉积的S i主要是非晶态的S iO2.nH2O(又称硅胶、植物蛋白石、植硅石等),是有机物质矿质化的产物,不同植物所形成的S i化结构及其形态不同,可用于植物分类、鉴定及古气候与环境变化的研究;(3)硅藻和高等植物主要吸收S i(OH)4,高等植物中存在S i主动吸收机制;(4)有机大分子物质(包括多胺、碳水化合物、纤维素)作为有机衬质参与了植物的S i沉积过程;(5)突变体的鉴定和应用,对S i营养研究具有重要作用.     

Loss of forb diversity in relation to nitrogen deposition in the UK: regional trends and potential controls

In this study we investigate the impact of nitrogen (N) deposition on the diversity of three different vegetation functional groups – forbs, grasses and mosses – using a field survey of acid grasslands across Great Britain. Our aim is to identify the vegetation types that are most vulnerable to enhanced N deposition, and to shed light on the mechanisms that may be driving N‐initiated species changes in the UK. Sixty‐eight randomly selected grasslands belonging to the UK National Vegetation Classification group U4 (Festuca ovina–Agrostis capillaris–Galium saxatile grassland) were studied along a gradient of atmospheric N deposition ranging from 6 to 36 kg N ha^?1 yr^?1. At each site, vegetation was surveyed and samples were taken from the topsoil and subsoil. Aboveground plant material was collected from three species: a forb, grass and moss. Both the species richness and cover of forbs declined strongly with increasing N deposition, from greater than eight species/20% cover per m² quadrat at low levels of N to fewer than two species/5% cover at the highest N deposition levels. Grasses showed a weak but significant decline in species richness, and a trend toward increasing cover with increasing N input. Mosses showed no trends in either species richness or cover. Most of the decline in plant species richness could be accounted for by the level of ammonium deposition. Soil KCl‐extractable ammonium concentration showed a significant positive correlation with N input, but there was no relationship between N deposition and extractable nitrate. In the soil O/A horizon, there was no relationship between N deposition and %N, and only a very weak positive relationship between the level of N deposition and the C : N ratio. Finally, in the vegetation, there was no relationship between N deposition and either shoot tissue N concentration or N : P ratio for any of the three reference species. Combining our regional survey with the results of published N‐addition experiments provides compelling evidence that there has been a significant decline in the species richness and cover of forbs across Great Britain, and that the primary cause is competition due to an increase in the cover of grasses in response to enhanced deposition of reactive N, primarily NH₄⁺.     

?2\sqrt 2 Rule for Controlling the Tree Pattern in Forest Cut

A forest’s productivity can be optimized by the application of rules derived from monopolized circles. A monopolized circle is defined as a circle whose center is a tree and whose radius is half of the distance between the tree itself and its nearest neighbor. Three characteristics of monopolized circle are proved. (1) Monopolized circles do not overlay each other, the nearest relationship being tangent. (2) “Full uniform pattern” means that the grid of trees (a×b=N) covers the whole plot, so that the distance between each tree in a row is the same as the row spacing. The total monopolized circle area with a full uniform pattern is independent on the number of trees and times the plot area. (3) If a tree is removed, the area of some trees’ monopolized circle will increase without decreasing the monopolized circles of the other trees. According to the above three characteristics, “uniform index” is defined as the total area of monopolized circles in a plot divided by the total area of the monopolized circles, arranged in a uniform pattern in the same shaped plot. According to the definition of monopolized circle, the distribution of uniform index for a random pattern and the variance of L is . It is evident that E(L) is independent on N and the plot area; hence, L is a relative index. L can be used to compare the uniformity among plots with different areas and the numbers of trees. In a random pattern, where L is equivalent to the tree density of the plot in which the number of trees is 1 and the area is π, the influence of tree number and plot area to L is eliminated. When n→∞, D(L)→0 and it indicates that the greater the number of tree is in the plots, the smaller the difference between the uniform indices will be. There are three types of patterns for describing tree distribution (aggregated, random, and uniform patterns). Since the distribution of L in the random pattern is accurately derived, L can be used to test the pattern types. The research on Moarshan showed that the whole plot has an aggregated pattern; the first, third, and sixth parts have an aggregated pattern; and the second, fourth, and fifth parts have a random pattern. None of the uniform indices is more than 0.318 (1/∏), which indicates that uniform patterns are rare in natural forests. The rules of uniform index can be applied to forest thinning. If you want to increase the value of uniform index, you must increase the total area of monopolized circles, which can be done by removing select trees. “Increasing area trees” are the removed trees and can increase the value of the uniform index. A tree is an increasing area tree if the distance between the tree and its second nearest neighbor is times longer than that between the tree itself and its first nearest neighbor, which is called the rule. It was very interesting to find that when six plots were randomly separated from the original plot, the proportion of increasing area trees in each plot was always about 0.5 without exception. In random pattern, the expected proportion of increasing area trees is about 0.35–0.44, which is different from the sampling value of 0.5. The reason is very difficult to explain, and further study is needed. Two criteria can be used to identify which trees should be removed to increase the uniform index during forest thinning. Those trees should be (1) trees whose monopolized circle areas are on the small side and (2) increasing area trees, which are found via the rule. Translated from Acta Ecologica Sinica, 2005, 25(1) (in Chinese)