Prediction of the tertiary structure of the alpha-subunit of tryptophan synthase

The tertiary structure of the alpha-subunit of tryptophan synthase was proposed using a combination of experimental data and computational methods. The vacuum-ultraviolet circular dichroism spectrum was used to assign the protein to the alpha/beta-class of supersecondary structures. The two-domain structure of the alpha-subunit (Miles et al.: Biochemistry 21:2586, 1982; Beasty and Matthews: Biochemistry 24:3547, 1985) eliminated consideration of a barrel structure and focused attention on a beta-sheet structure. An algorithm (Cohen et al.: Biochemistry 22:4894, 1983) was used to generate a secondary structure prediction that was consistent with the sequence data of the alpha-subunit from five species. Three potential secondary structures were then packed into tertiary structures using other algorithms. The assumption of nearest neighbors from second-site revertant data eliminated 97% of the possible tertiary structures; consideration of conserved hydrophobic packing regions on the beta-sheet eliminated all but one structure. The native structure is predicted to have a parallel beta-sheet flanked on both sides by alpha-helices, and is consistent with the available data on chemical cross-linking, chemical modification, and limited proteolysis. In addition, an active site region containing appropriate residues could be identified as well as an interface for beta 2-subunit association. The ability of experimental data to facilitate the prediction of protein structure is discussed.     

Comparison of the three-dimensional structure of two human rhinoviruses (HRV2 and HRV14)

An attempt has been made to build a model of human rhinovirus 2 (HRV2) based on the known human rhinovirus 14 (HRV14) structure. HRV2 was selected because its amino acid sequence is known and because it belongs to the minor rhinovirus receptor class as compared to HRV14, which belongs to the major class. Initial alignment of HRV2 with HRV14 based on the primary sequence and the knowledge of the three-dimensional structure of HRV14 showed that the most probable position of the majority of insertions and deletions occurred in the vicinity of the neutralizing immunogenic sites (NIm). Out of a total of 855 amino acids present in one copy of each of the capsid proteins VP1 through VP4 of HRV14, 411 are different between the two viruses. There are also 6 amino acid residues inserted and 14 residues deleted in HRV2 relative to HRV14. Examination of amino acid interactions showed several cases of conservation of function, e.g., salt bridges or the filling of restricted space. The largest variation amongst the residues lining the canyon, the putative receptor binding site, was in the carboxy-terminal residues of VP1.     

Tree form in a mixed dipterocarp forest in Indonesian Borneo

The form of tropical trees was studied with reference to the production structure of the component individuals of a tropical rain forest stand in Sebulu, East Kalimantan in Indonesian Borneo, since the production structure as a physical or bio-economical basis of tree form still remains obscure in tropical rain forests. The pipe model theory successfully explained the crown shapes of different trees, and its parameter, designated as specific pipe length, suggested an increase in the cost of leaf mass growth with an increase in crown size. A mathematical model consisting of exponential functions of aboveground height was applied for describing stem form, and its properties were examined through changes in its coefficients and by adopting an assumption of the geometrical similarity of individual stem form as a criterion for comparing differences in stem form among individual trees. Furthermore, the cost of buttersses was discussed using the relation between bole- and buttress weight calculated from the mathematical model.     

Changes in gill histology of fathead minnows and yellow perch transferred to soft water or acidified soft water with particular reference to chloride cells

Summary Fathead minnows, Pimephales promelas, and yellow perch, Perca flavescens, were transferred from moderately soft Lake Superior water (hardness 45mg/l as CaCO₃) to very soft diluted Lake Superior water (hardness 4.5mg/l). Sulfuric acid was added in some treatments by means of a multichannel diluter. In very soft water, chloride cells proliferated in the gills, especially in the epithelium of the secondary lamellae. When exposed to acid, chloride cells were damaged and less abundant in the secondary lamellae, and blood osmolality was reduced at pH 5.0 (x = 188 mOsm/kg, 9 days exposure; normal 280 mOsm/kg) for the minnows and pH 4.1 (x = 218 mOsm/kg, 58 days exposure; normal 329 mOsm/kg) for the perch. Certain chloride cells which form gland-like clusters in the primary lamellae of perch gills showed little damage even at pH 4.1. The present study supports the view that chloride cells proliferate in very soft fresh water to help maintain ionic balances, and that damage to these cells in acidified soft water may be related to diminished ionoregulatory capacity. The greater acid tolerance of chloride cells of, and the higher blood osmolality maintained by, perch could help to explain the greater tolerance of this species to low pH. In some cases, a species' ability to acclimate to very soft water and acidified soft water may depend upon the number, distribution, and physiology of its chloride cells.     

初期采脂对马尾松木材构造的影响

广东省韶关林场采用标准的采脂工艺,在其马尾松人工林进行了两年的初期采脂试验。 在这些马尾松的采脂树的采脂盘上,主要呈现泌脂和木材增生,而在其下方距离0.5m的影响盘上。仅有一些创伤轴向树脂道和树脂囊。创伤树脂道使其邻近的轴向管胞的形状不规则,又与树轴倾斜近45°。 从山中试验区不同的松树林分,在其对照盘(对照树的)、影响盘上,自髓向外每隔一个生长轮的离析材料;另在采脂盘上密切邻近采脂面两侧,自圆盘周围向内各选4轮材料;分别测定轴向管胞的长度,得知这些30(20)年生的马尾松树仍在幼态期间,其管胞长度一般是增加的;至于采脂面两侧的管胞却显出不同程度的减短,其中一些管胞呈现种种不规则形状。     

光质对一品红叶离体培养中形态发生及生化变化的影响

本文讨论了将光质应用于一品红(Euphorbia pulcherrima)大规模细胞繁殖及形态发生调控的可行性,并测定了一些形态及生化指标作为这种调控的参数。 以一品红试管苗的叶片作为外植体,置于MS培养基中并分别培养于白(W)、红(R)、黄(Y)、蓝(B)、绿(G)色光及黑暗(D)下,一个月后进行测定。蓝光和黄光明显促进出苗。而愈伤组织形成的情况则正相反,红光利于愈伤组织的形成,黄光效果最差。过氧化物酶、过氧化氢酶活力及蛋白质、RNA、碳水化合物的含量与愈伤组织形成有较为一致的关系,但与分化不直接相关。 实验中还测定了叶绿素a、叶绿素b及类胡萝卜素的含量。白光与蓝光均能促进叶绿素及类胡萝卜素的合成,但蓝光中chl b/chl a的比率较高。此外,本文尚涉及暗处理中的晶质化现象(vitrification)及其成因。     

Genetic characterization of the mei-41 locus in Drosophila melanogaster

Summary The mutagen-sensitive mutant mus(1)104 ^D1 of Drosophila melanogaster maps to a position on the X chromosome very close to the meiotic mutant mei-41 ^D5 . Both mutants have been characterized as mutagen-sensitive and defective in post-replication repair. In the present report we show by complementation studies that mus(1)104 and mus(1)103 are allelic with mei-41. In addition, two reported alleles of mus(1)104 lie between the mei-41 alleles A10 and D5. The size of the mei-41 locus is estimated to be about 0.1 centimorgans (cM). Because several alleles of mei-41 have been shown to reduce recombination and increase meiotic chromosome loss and nondisjunction, mus(1)104 ^D1 females were examined for defects in meiosis. Although there was no evidence for reduced recombination on the second chromosome in homozygous mus(1)104 ^D1 females, heterozygous mus(1)104 ^D1 /mei-41 ^>D5 and mus(1)104 ^D1 /deficiency females showed reduced levels of recombination. However, there was no evidence of an increase in nondijunction in these females.We dedicate this article to the memory of Larry Sandler, who passed away suddenly on February 7, 1987     

The organization of repetitive sequences in the albumin and alpha-fetoprotein gene loci in the rat

Summary The distribution of middle repetitive sequences in the genic and extragenic regions of the rat albumin and -fetoprotein genes was analyzed. Their presence was determined by probing Southern blots of restriction fragments of albumin and -fetoprotein genomic subclones with ³²P-labeled total rat DNA. Repetitive sequences were detected in both genes. They were classified as weak, moderate and intense hybridizing elements according to the intensity of hybridization. Weak repetitive sequences were characterized as dG·dT repeats by using ³²P-labeled poly-(dG·dT)(dC·dA) oligomer probe. They occurred in 5 and 3 extragenic regions of the two genes and in introns 4 and 5 of the albumin gene. The moderate repetitive sequence present in intron 6 of the albumin gene was identified as the rat SINES element, 4D12. The intense repetitive sequence, localized in the 3 non-coding region of the albumin gene, corresponded to the terminal segment of a rat high repeat long interspersed DNA family, L1Rn. 4D12 and L1Rn sequences were also scattered throughout the -fetoprotein locus as moderate and intense repetitive elements, respectively, but their distribution was different from that of the albumin genomic region. These results indicate that repetitive sequences invaded the two loci in a non-conservative manner.     

Why are there so many species of bumble bees at Dungeness?

WILLIAMS, P. H., 1989. Why are there so many species of bumble bees at Dungeness? Dungeness is unique in the British Isles in that it has more species of bumble bees than any other locality. Three ideas about what governs the number of species at a locality are examined by locking at patterns of flower visits at Dungeness in comparison with those at Shoreham, a species-poor locality also in Kent. The species of bumble bees that are present at Dungeness but absent from Shoreham show no association in their distributions among 2 km grid-squares in Kent with the species of food-plants that they prefer at Dungeness, nor is there any correlation between the diversity of bees and diversity of food-plants at Dungeness and Shoreham. From the information available, Dungeness is most likely to have more species of bumble bees because it has a particularly high density of the more nectar-rich flowers that bumble bees can use. Bumble bees feed most profitably from deep flowers because these contain more nectar than shallow flowers, although direct access to deeper flowers is ultimately limited by the length of each bee's proboscis. The distribution of worker proboscis lengths among species in the species-pool in Kent is clumped about a median of 7.9 mm. The best foraging conditions for the maximum number of species should be provided when flowers of similar depths are present in sufficiently large numbers for all foragers to make near-optimal flower choices. Although there is no difference in median between the distributions of the bees' proboscis lengths and the depths of the flowers they use at Dungeness, at Shoreham the flower depths used are shorter than the proboscis lengths. Among the food-plants at Dungeness, high densities of Teucrium scorodonia and Echium vulgare are likely to be especially important.     

Structural analysis of the phytophagous insect guilds associated with the roots of Centaurea maculosa Lam. C. diffusa Lam., and C. vallesiaca Jordan in Europe:

Summary During extensive field surveys in central and eastern Europe, 21 herbivorous root insect species were found on Centaurea maculosa ssp. rhenana Boreau, 12 species on C. diffusa Lam. and 11 species on C. vallesiaca Jordan, representing 12 families in 4 orders. The large geographic distribution (species-area function), the high number of Centaurea spp. present (host speciation rate), and the high apparency of the rosettes and the rich food resources offered by the roots during winter, together with their poor accessibility, correlate with the high number of specialist feeders associated with the roots of C. maculosa and C. diffusa. The members of the taxonomically diverse root entomofauna exploit specific structures of the tap root (food niches). Interspecific competition among members of food niches, as well as species-specific responses to different phenological stages (for oviposition) and tissues (for larval development) are thought to be responsible for the high predictability in guild structure. The relatively low levels of host plant attack (two thirds of the roots were unattacked) and the fact that food niches remained unoccupied in most of the regions suggest, however, that the majority of the studied guilds do not represent equilibrium assemblages. Ecological (different habitats), climatic (transitional zone) and historical (ancient pre-Pleistocene communities) factors could account for the highest values of species diversity, infestation levels, species packing and food niche utilization, which are found on C. maculosa in E. Austria/NW. Hungary, compared to other regions. A positive correlation between species packing (number of root-feeding species per population) and infestation rates (percent of roots attacked) was only found for the more stable, semi-natural habitats. A comparative analysis of the regional root insect guilds of C. maculosa with corresponding data for the phytophagous insects associated with the flower heads revealed distinct taxonomical differences, but a high degree of numerical and structural similarity. The different geographical regions are similarly ranked for host plant attack, herbivore pressure, average species packing and level of food niche utilization.