Assessment of a model for intron RNA secondary structure relevant to RNA self-splicing--a review

A widespread class of introns is characterized by a particular RNA secondary structure, based upon four conserved nucleotide sequences. Among such "class I" introns are found the majority of introns in fungal mitochondrial genes and the self-splicing intron of the large ribosomal RNA of several species of Tetrahymena. A model of the RNA secondary structure, which must underlie the self-splicing activity, is here evaluated in the light of data on 16 further introns. The main body or "core structure" of the intron always consists of the base-paired regions P3 to P9 with the associated single-stranded loops, with P2 present also in most cases. Two minority sub-classes of core structure occur, one of which is typical of introns in fungal ribosomal RNA. Introns in which the core structure is close to the 5' splice site all have an internal guide sequence (IGS) which can pair with exon sequences adjacent to the 5' and 3' splice sites to align them precisely, as proposed by Davies et al. [Nature 300 (1982) 719-724]. In these cases, the internal guide model allows us to predict correctly the exact location of splice sites. All other introns probably use other mechanisms of alignment. This analysis provides strong support for the RNA splicing model which we have developed.     

Peptide models of four possible insulin folding intermediates with two disulfides

The single-chain insulin (PIP) can spontaneously fold into native structure through preferred kinetic intermediates. During refolding, pairing of the first disulfide A20-B19 is highly specific, whereas pairing of the second disulfide is likely random because two two-disulfide intermediates have been trapped. To get more details of pairing property of the second disulfide, four model peptides of possible folding intermediates with two disulfides were prepared by protein engineering, and their properties were analyzed. The four model peptides were named [A20-B19, A7-B7]PIP, [A20-B19, A6-B7]PIP, [A20-B19, A6-A11]PIP, and [A20-B19, A7-A11]PIP according to their remaining disulfides. The four model peptides all adopt partially folded structure with moderate conformational differences. In redox buffer, the disulfides of the model peptides are more easily reduced than those of the wild-type PIP. During in vitro refolding, the reduced model peptides share similar relative folding rates but different folding yields: The refolding efficiency of the reduced [A20-B19, A7-A11]PIP is about threefold lower than that of the other three peptides. The present results indicate that the folding intermediates corresponding to the present model peptides all adopt partially folded conformation, and can be formed during PIP refolding, but the chance of forming the intermediate with disulfide [A20-B19, A7-A11] is much lower than that of forming the other three intermediates.     

Growth of Fagus sylvatica saplings in an old-growth forest as affected by soil and light conditions

Abstract. Studies were conducted on 41 five yr-old common beech (Fagus sylvatica) saplings collected in an old-growth beech wood (Fontainebleau forest, biological reserve of La Tillaie, France), under varying humus and light conditions, following gypsy moth (Lymantria dispar) caterpillar injuries. Aerial and subterranean parts of each sapling were described by means of 34 parameters and environmental conditions at the microsite, where each sapling was excavated, were characterized by 23 parameters. The development of beech saplings is strongly affected by microsite conditions. An increase in sapling size was associated with darkness of the A-horizon, typical of zones with poor mineralization of organic matter. Light conditions were more important in influencing the development of the root system than that of the aerial parts. Rooting depth was shallower and rate of mycorrhiza development by the black ascomycete Cenococcum geophilum was lower in microsites receiving incident light during the morning than in those never receiving incident light during this period. Results are discussed in the frame of survival of young beech individuals in varying environmental conditions, when submitted to competition by other vegetation and adverse climate conditions.     

烧伤病房不动杆菌属无硝生物型感染流行病学调查

本文通过对烧伤病室隔离区不动杆菌无硝生物型感染流行病学调查,发现烧伤病人创面本菌的定植或感染高达４２．５９％,均为耐药菌株;对氨苄青霉素,头孢唑啉耐花分别达１００％、９５．７％。通过质粒图谱及限制性内切酶指纹图分析确定流行株菌质粒为２２Ｋ、ｂ２６ｋｂ两种、是通过手接触与空气传播的。     

Dopamine release from nerve endings induced by polysialogangliosides

Polysialogangliosides but not monosialoganlioside or a neutral glycosphingolipid induce release of [³H] -dopamine from synaptosomes in presence of Ca⁺⁺, presumably by exocytosis. This effect is discussed in relation to the ability of polysialogangliosides to induce membrane fusion in chicken erythrocytes and to their behaviour in lipid monolayers. It is suggested that characteristic interactions with phosphatidylcholine involving decreases of surface potential are participating in the polysialoganglioside-induced neurotransmitter release.     

无融合生殖油菜AMR—1花托离体培养的研究

报道了不同激素浓度对无融合生殖没菜花托器官分化效果的研究,结果显示：（１）以ＭＳ为基本培养基,以带有子房和花柄的花托为外植体离体培养,花托、花柄切口部位直接芽诱导的最佳激素配比为４．０ｍｇ／Ｌ６－ＢＡ＋０．０１ｍｇ／Ｌ ＮＡＡ,频率为５８．８２％,花托、花柄部位先形成愈伤组织,继而分化出丛生芽的最佳激素配比为５．０ｍｇ／Ｌ ６－ＢＡ＋０．５ｍｇ／Ｌ ＮＡＡ,频率为８４．００％;（２）腋芽增殖的最佳     

Effects of repeated burning on species richness in a Florida pine savanna: A test of the intermediate disturbance hypothesis

Abstract. We studied the effect of burning frequency on the density and species richness of understory flowering stems in a Florida sandhill. Flowering stems were censused weekly for 54 weeks in six sites that had been burned one to six times in the previous 16 years. We concurrently measured overstory characteristics such as species composition, density and basal area. We used maximum likelihood and Akaike's Information Criterion to compare linear, quadratic, saturating, and null models of community response to repeating burning. We did not find a relationship between species richness, diversity or flowering stem density and fire frequency. Tree density was related to fire frequency and may represent an indirect pathway for fire effects on understory characteristics. While we found no support for the Intermediate Disturbance Hypothesis, an analysis of our experimental design indicated that we had low statistical power. We develop the hypothesis that a saturating model of response to fire best describes understory species richness in our system. We test this hypothesis using the most extensive published fire data set we are aware of and find support for a saturating model.     

Characterization of the solution structure of the M intermediate of photoactive yellow protein using high-angle solution x-ray scattering

It is widely accepted that PYP undergoes global structural changes during the formation of the biologically active intermediate PYP(M). High-angle solution x-ray scattering experiments were performed using PYP variants that lacked the N-terminal 6-, 15-, or 23-amino-acid residues (T6, T15, and T23, respectively) to clarify these structural changes. The scattering profile of the dark state of intact PYP exhibited two broad peaks in the high-angle region (0.3 A(-1) < Q < 0.8 A(-1)). The intensities and positions of the peaks were systematically changed as a result of the N-terminal truncations. These observations and the agreement between the observed scattering profiles and the calculated profiles based on the crystal structure confirm that the high-angle scattering profiles were caused by intramolecular interference and that the structure of the chromophore-binding domain was not affected by the N-terminal truncations. The profiles of the PYP(M) intermediates of the N-terminally truncated PYP variants were significantly different from the profiles of the dark states of these proteins, indicating that substantial conformational rearrangements occur within the chromophore-binding domain during the formation of PYP(M). By use of molecular fluctuation analysis, structural models of the chromophore-binding region of PYP(M) were constructed to reproduce the observed profile of T23. The structure obtained by averaging 51 potential models revealed the displacement of the loop connecting beta4 and beta5, and the deformation of the alpha4 helix. High-angle x-ray scattering with molecular fluctuation simulation allows us to derive the structural properties of the transient state of a protein in solution.     

强化生物除磷系统的微生物种群及其表征技术

详细介绍了强化生物除磷系统(enhanced biological phosphate removal,简称EBPR)中的微生物种群及其表征技术,提出了研究EBPR中微生物种群及其表征技术的发展方向。     

Species response curves along environmental gradients. A case study from SE Norwegian swamp forests

Abstract. Vegetation science has relied on untested paradigms relating to the shape of species response curves along environmental gradients. To advance in this field, we used the HOF approach to model response curves for 112 plant species along six environmental gradients and three ecoclines (as represented by DCA ordination axes) in SE Norwegian swamp forests. Response curve properties were summarized in three binary response variables: (1) model unimodal or monotonous (determinate) vs. indeterminate; (2) for determinate models, unimodal vs. monotonous and (3) for unimodal models, skewed vs. symmetric. We used logistic regression to test the influence, singly and jointly, of seven predictor variables on each of three response variables. Predictor variables included gradient type (environmental or ecocline) and length (compositional turnover); species category (vascular plant, moss, Sphagnum or hepatic), species frequency and richness, tolerance (the fraction of the gradient along which the species occurs) and position of species along each gradient. The probability for fitting a determinate model increased as the main occurrence of species approached gradient extremes and with increasing species tolerance and frequency and gradient length. Appearance of unimodal models was favoured by low species tolerance and disfavoured by closeness of species to gradient extremes. Appearance of skewed models was weakly related to predictors but was slightly favoured by species optima near gradient extremes. Contrary to the results of previous studies, species category, gradient type and variation in species richness along gradients did not contribute independently to model prediction. The overall best predictors of response curve shape were position along the gradient (relative to extremes) and tolerance; the latter also expressing gradient length in units of compositional turnover. This helps predicting species responses to gradients from gradient specific species properties. The low proportion of skewed response curves and the large variation of species response curves along all gradients indicate that skewed response curves is a smaller problem for the performance of ordination methods than often claimed. We find no evidence that DCA ordination increases the unimodality, or symmetry, of species response curves more than expected from the higher compositional turnover along ordination axes. Thus ordination axes may be appropriate proxies for ecoclines, applicable for use in species response modelling.