Fatty Acids in the Species of Several Zygomycete Taxa

The composition of fatty acids synthesized de novo by thirty strains of zygomycetes from various taxa was studied. The qualitative fatty acid compositions of the fungal lipids were found to be virtually identical, but there were significant differences in the contents of individual acids. Highly active producers of essential C₁₈ fatty acids, with their content exceeding 30–40% of total fatty acids, were discovered among the fungi of the families Mucoraceae, Pilobolaceae, and Radiomycetaceae. Linoleic acid was found to predominate in the fungi of the genera Radiomyces, Mycotypha, and Circinella, and linolenic acid (identified as its -isomer by gas-liquid chromatography), in the fungi of the genera Absidia, Circinella, Pilaira, and Hesseltinella. The total yield (mg/l) of bioactive acids (C_18:3, C_18:2, C_18:1) varied from 761.4 in Pilaira anomala to 3477.9 in Syncephalastrum racemosum; the total yield of essential acids, from 520.7 in Pilaira anomala to 1154.5 in Hesseltinella vesiculosa; of linoleic acid, from 279.7 in Pilaira anomala to 836.3 in Mycotypha indica; and of linolenic acid, from 120.8 in Mycotypha indica to 708.0 in Hesseltinella vesiculosa. The data on the efficient synthesis of these acids make the actively producing strains promising for biotechnological synthesis of commercially valuable lipids. Linderina pennispora VKM F-1219, a zygomycete of the family Kickxellaceae, which was earlier singled out into the order Kickxellales, was shown to differ from zygomycetes of the order Mucorales in having a high content of cis-9-hexadecenoic (palmitoleic) acid, reaching 37.0% of the fatty acid total.     

The Limited Role of Nonnative Contacts in the Folding Pathways of a Lattice Protein

Models of protein energetics that neglect interactions between amino acids that are not adjacent in the native state, such as the Gō model, encode or underlie many influential ideas on protein folding. Implicit in this simplification is a crucial assumption that has never been critically evaluated in a broad context: Detailed mechanisms of protein folding are not biased by nonnative contacts, typically argued to be a consequence of sequence design and/or topology. Here we present, using computer simulations of a well-studied lattice heteropolymer model, the first systematic test of this oft-assumed correspondence over the statistically significant range of hundreds of thousands of amino acid sequences that fold to the same native structure. Contrary to previous conjectures, we find a multiplicity of folding mechanisms, suggesting that Gō-like models cannot be justified by considerations of topology alone. Instead, we find that the crucial factor in discriminating among topological pathways is the heterogeneity of native contact energies: The order in which native contacts accumulate is profoundly insensitive to omission of nonnative interactions, provided that native contact heterogeneity is retained. This robustness holds over a surprisingly wide range of folding rates for our designed sequences. Mirroring predictions based on the principle of minimum frustration, fast-folding sequences match their Gō-like counterparts in both topological mechanism and transit times. Less optimized sequences dwell much longer in the unfolded state and/or off-pathway intermediates than do Gō-like models. For dynamics that bridge unfolded and unfolded states, however, even slow folders exhibit topological mechanisms and transit times nearly identical with those of their Gō-like counterparts. Our results do not imply a direct correspondence between folding trajectories of Gō-like models and those of real proteins, but they do help to clarify key topological and energetic assumptions that are commonly used to justify such caricatures.     

Differential effects of egg albumen content on barn swallow nestlings in relation to hatch order

In diverse animal taxa, egg mass variation mediates maternal effects with long-term consequences for offspring ontogeny and fitness. Patterns of egg mass variation with laying order differ considerably among birds, but no study has experimentally investigated the function of variation in albumen or yolk egg content in the wild. In barn swallows (Hirundo rustica), absolute and relative albumen mass increased with egg laying order. Experimental albumen removal delayed hatching, had larger negative effects on growth of late-hatched nestlings, and reduced nestling survival. Laying order positively predicted hatch order. Because nestling competitive ability depends on size, and albumen egg content influences hatchling size, present results suggest that by increasing albumen content of late eggs mothers reduce hatching asynchrony and enhance growth particularly of late-hatched nestlings. Thus, variation in albumen mass with laying order may function to mitigate the negative phenotypic consequences of hatching late in species that adopt a 'brood-survival' strategy.     

The complete structure of the cucumber (<Emphasis Type="Italic">Cucumis sativus</Emphasis> L.) chloroplast genome: Its composition and comparative analysis

The complete nucleotide sequence of the cucumber (C. sativus L. var. Borszczagowski) chloroplast genome has been determined. The genome is composed of 155,293 bp containing a pair of inverted repeats of 25,191 bp, which are separated by two single-copy regions, a small 18,222-bp one and a large 86,688-bp one. The chloroplast genome of cucumber contains 130 known genes, including 89 protein-coding genes, 8 ribosomal RNA genes (4 rRNA species), and 37 tRNA genes (30 tRNA species), with 18 of them located in the inverted repeat region. Of these genes, 16 contain one intron, and two genes and one ycf contain 2 introns. Twenty-one small inversions that form stem-loop structures, ranging from 18 to 49 bp, have been identified. Eight of them show similarity to those of other species, while eight seem to be cucumber specific. Detailed comparisons of ycf2 and ycf15, and the overall structure to other chloroplast genomes were performed.     

Raman spectroscopy and order in biological systems

The Raman spectra in the low 5–200 cm⁻¹ frequency region of metabolically activeE. coli cells have been analyzed to determine whether they are indicators of a possible in vivo underlying order by applying standard concepts derived from the Raman spectroscopy of crystalline systems with varying degrees of order. The analysis suggests that in-vivo space-time ordered structures involving amino acids associated with DNA exist since the low frequency lines of metabolically active cells can be assigned to lines seen in the spectra of crystals of given amino acids known to associated with DNA early in the lifetime of a cell.     

蛋白质折叠速度与其拓扑结构关系的研究

以6种不同的方式来定义蛋白质内存在的接触,进而运用分子动力学模拟等不同方法,对10个小蛋白进行分析,研究了不同的接触定义及不同的拓扑参数计算方法下,蛋白质的折叠速度与其拓扑参数的关系.结果表明,用含主链重原子的方式定义接触,所计算的拓扑参数与蛋白质折叠速度的相关性较好;用含侧链原子的方式定义接触,得到的拓扑参数与β型蛋白质的折叠速度的相关性较好.对不同的蛋白质,其拓扑结构与相应折叠速度间的相关程度不同。     

A generalized nonparametric test for lattice-ordered means

Treatment means in factorial experiments are lattice ordered when there is an increase in mean response as the level of any factor is increased while holding the other factors fixed. Such means occur naturally in many experiments. A nonparametric test for lattice-ordered means involving a Kendall-type statistic will be summarized for k-factor factorial experiments. Specifically, the form of the test statistic and variance under the null hypothesis will be presented. In addition, a normalized version of the test statistic will be discussed and applied to relevant data.     

Tests for Order Restrictions in Binary Data

In this article, a general procedure is presented for testing for equality of k independent binary response probabilities against any given ordered alternative. The proposed methodology is based on an estimation procedure developed in Hwang and Peddada (1994, Annals of Statistics 22, 67-93) and can be used for a very broad class of order restrictions. The procedure is illustrated through application to two data sets that correspond to three commonly encountered order restrictions: simple tree order, simple order, and down turn order.     

Mixtures of Distributions by the Poisson Distribution of Order K

The Poisson-binomial, the Poisson-negative binomial (or Pascal) and Neyman's Type A distribution, which are Poisson mixtures of the binomial, the negative binomial and the Poisson distribution, respectively, have received a lot of attention in statistical literature [see e.g. Katti and Gurland (1961, 1962), Anscombe (1950), and Neyman (1939)]. In the present paper, their respective generalizations are introduced and briefly studied, when the Poisson distribution of order k [see Philippou (1983), Philippou, Georghiou and Philippou (1983), and Charalambides (1986)] replaces the Poisson distribution in its mixing role.     

Protein sequences of linked genes are highly conserved in two bacterial species

It has been shown that proteins encoded by linked genes have similar rates of evolution and that clusters of essential genes are found in regions with low recombination rates. We show here that proteins encoded by linked genes in two closely related bacterial species, namely Escherichia coli K12 and Salmonella typhimurium LT2, evolve more slowly when compared with proteins encoded by genes that are not linked as assessed by protein sequence similarity. The proteins encoded by the identified linked genes share an average sequence identity of 82.5% compared with a 46.5% identity of proteins encoded by genes that are not linked.     

Voluntary progression order in captive rhesus macaques

The sequence in which 14 laboratory rhesus macaques left their home enclosure during a routine catching procedure was recorded on 30 occasions during 6 weeks. The animals were trained to voluntarily exit one by one and enter a transport cage for weighing and/or treatment. Mean weekly exit orders cross-correlated significantly, and individuals retained their exit positions with remarkable consistency throughout the study period. An animal's position did not depend on its sex, age, or dominance rank. The oldest female never failed to enter the transport cage as number 1. When she was prevented from taking the lead, the group was hesitant but eventually proceeded in the usual order. Food was a strong, yet not absolute, incentive for the monkeys to cooperate. If they could not expect a reward, they took more time before proceeding, but did so in the habitual order. The predictability of the exit sequence has practical managerial value because it makes it possible for a single person to quickly catch a selected group member when necessary.     

The first complete chloroplast genome sequence of a lycophyte, Huperzia lucidula (Lycopodiaceae)

We used a unique combination of techniques to sequence the first complete chloroplast genome of a lycophyte, Huperzia lucidula. This plant belongs to a significant clade hypothesized to represent the sister group to all other vascular plants. We used fluorescence-activated cell sorting (FACS) to isolate the organelles, rolling circle amplification (RCA) to amplify the genome, and shotgun sequencing to 8× depth coverage to obtain the complete chloroplast genome sequence. The genome is 154,373 bp, containing inverted repeats of 15,314 bp each, a large single-copy region of 104,088 bp, and a small single-copy region of 19,657 bp. Gene order is more similar to those of mosses, liverworts, and hornworts than to gene order for other vascular plants. For example, the Huperzia chloroplast genome possesses the bryophyte gene order for a previously characterized 30 kb inversion, thus supporting the hypothesis that lycophytes are sister to all other extant vascular plants. The lycophyte chloroplast genome data also enable a better reconstruction of the basal tracheophyte genome, which is useful for inferring relationships among bryophyte lineages. Several unique characters are observed in Huperzia, such as movement of the gene ndhF from the small single copy region into the inverted repeat. We present several analyses of evolutionary relationships among land plants by using nucleotide data, inferred amino acid sequences, and by comparing gene arrangements from chloroplast genomes. The results, while still tentative pending the large number of chloroplast genomes from other key lineages that are soon to be sequenced, are intriguing in themselves, and contribute to a growing comparative database of genomic and morphological data across the green plants.     

The ordering of corneal collagen fibrils with increasing ionic strength

The fixed stromal charge of bovine corneas, osmotically clamped at physiological hydration, was altered by regulating the amount of chloride ions bound to the matrix. We measured the local fibrillar collagen order using X-ray diffraction methods. As the bound anions increased up to physiological values, the local fibrillar order increased to an optimal value. The coherence distance (t) approximately doubles to a maximum value (409 nm) from 10 mM NaCl to 154 mM NaCl. This then slowly decreased as the bathing solution increased to 1000 mM. In contrast the diameter of the collagen fibrils were minimal at physiological NaCl.     

Fine-scale biogeographic differences in the crustacean fauna of a cave system in West Virginia,USA

We examined the distribution patterns of four amphipod and one isopod crustaceans in 23 cave stream segments within a subterranean drainage basin. The patterns indicate that invasion history is a strong determinant of the species' distributions. One set of species likely has invaded the cave system from the zone of interstitial water, and thus is distributed mainly in headwater streams throughout the drainage. One species probably invaded through upstream migration from the resurgence of the cave system, and thus is strongly associated with the larger, higher-order streams. The effect of interspecific interactions on the patterns of distribution is not apparent at our scale of analysis.     

二阶运动条件下闪现滞后现象的研究

闪现滞后现象(flash—lag effect)是指运动物体旁闪现的物体在知觉中物体落后于运动物体的现象。对这个现象,有一种解释认为视网膜上对运动刺激的外推机制对闪现滞后现象有相当的贡献．用视网膜外推机制不再有效的二阶运动刺激取代前人实验中的一阶运动刺激来研究闪现滞后现象,发现在视网膜推断机制失效的情况下,闪现滞后现象并没有减小,而是和一阶运动刺激条件下的量相当。结果表明,视网膜上的加工机制并不是闪现滞后现象的主要原因,并提示闪现滞后现象的机制可能位于一、二阶运动加工通道的汇合阶段以上。     

G_2期后期染色质结构及染色体高级结构形成的研究

用适量BrdU处理中华大蟾蜍外周血淋巴细胞,能以较高频率得到形态多样的染色质(体)结构。本文以两栖类和人类细胞为材料,采用Feulgen染色、Ag-NOR染色、DAPI荧光染色及放射自显影等方法,证实了其染色质性质,初步讨论了其产生原因,并将其命名为:“G,期后期染色质”。在此基础上,进一步从形态学角度初步分析了从G_2期后期到M期染色质转变为染色体的动态过程,提出不同染色体形成其高级结构是非同步的,有可能存在染色体包裹顺序的设想。     

Increased lifetime reproductive success of first‐hatched siblings in Common Kestrels Falco tinnunculus

Order of birth has profound consequences on offspring across taxa during development and can have effects on individuals later in life. In birds, differential maternal allocation and investment in their progeny lead to variance in the environmental conditions that offspring experience during growth within the brood. In particular, laying and hatching order have been proposed to influence individual quality during the growing period, but little is known about the fitness consequences that these two factors have for offspring from a lifetime perspective. We explored the effect of laying and hatching order on post‐fledgling survival (measured as recruitment probability) and lifetime reproductive success (LRS) in Common Kestrels Falco tinnunculus, using a long‐term and individual‐based dataset. First‐hatched chicks showed higher survival probability and LRS than their siblings. This effect was not due to body condition of the individuals at adulthood, the quality of their mates or the reproductive outcome compared with later‐hatched individuals. Instead, first‐hatched chicks had a higher recruitment probability. This could be explained by the higher body condition attained by first‐hatched chicks at the end of the nesting period, perhaps due to an enhanced competitive advantage for food over their siblings at the time of hatching. Laying order, in contrast to hatching order, appeared to have little or no effect on LRS. Our results suggest that hatching order within siblings predicts fitness, and that better early‐life conditions during growth experienced by first‐hatched chicks improve first survival and then recruitment, resulting in an enhanced LRS.