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  • Triticum aestivum  (158)
  • Evolution  (153)
  • Springer  (310)
  • Elsevier  (1)
  • 2015-2019  (1)
  • 2010-2014
  • 1985-1989  (294)
  • 1970-1974  (16)
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  • 1
    Electronic Resource
    Electronic Resource
    Springer
    Acta biotheoretica 35 (1986), S. 77-106 
    ISSN: 1572-8358
    Keywords: Evolution ; nonequilibrium thermodynamics ; boundary conditions models ; initial conditions models
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract Proponents of two axioms of biological evolutionary theory have attempted to find justification by reference to nonequilibrium thermodynamics. One states that biological systems and their evolutionary diversification are physically improbable states and transitions, resulting from a selective process; the other asserts that there is an historically constrained inherent directionality in evolutionary dynamics, independent of natural selection, which exerts a self-organizing influence. The first, the Axiom of Improbability, is shown to be nonhistorical and thus, for a theory of change through time, acausal. Its perception of the improbability of living states is at least partially an artifact of closed system thinking. The second, the Axiom of Historically Determined Inherent Directionality, is supported evidentially and has an explicit historical component. Historically constrained dynamic populations are inherently nonequilibrium systems. It is argued that living, evolving systems, when considered to be historically constrained nonequilibrium systems, do not appear improbable at all. Thus, the two axioms are not compatible. Instead, the Axiom of Improbability is considered to result from an unjustified attempt to extend the contingent proximal actions of natural selection into the area of historical, causal explanations. It is thus denied axiomatic status, and the effects of natural selection are subsumed as an additional level of constraint in an evolutionary theory derived from the Axiom of Historically Determined Inherent Directionality.
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  • 2
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    Cellular and molecular life sciences 41 (1985), S. 1080-1082 
    ISSN: 1420-9071
    Keywords: Evolution ; evolutionary rate ; stasis ; brain ; encephalization ; body size ; fitness
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Medicine
    Notes: Summary Constant evolutionary rates are possible only in verylarge populations, where natural selection does not exhaust varition because mutation supplies fresh variability. In a small population where a small number of genes influence an integrated system like brain and body size which have an allometric relationship, variation is removed rapidly under natural selection, This occurs even when the final fitness of the population is not optimal.
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  • 3
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    Cellular and molecular life sciences 43 (1987), S. 202-205 
    ISSN: 1420-9071
    Keywords: Evolution ; substrate specificity ; serological homologies ; flavone biosynthesis ; Silene ; glycosyltransferases
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Medicine
    Notes: Summary The variation in flavone glycosylation patterns inSilene is the result of the expression of six genetic loci, which control either the presence of allozymes differing in substrate specificity or isozymes regulated differently during development. Serological studies showed that at least three of these six loci are evolutionarily related. The genetic mechanisms leading to these complicated variation patterns and the role of this polymorphism for the plant in its interaction with the environment are discussed.
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  • 4
    ISSN: 1432-0789
    Keywords: Wheat ; Paddy straw compost ; N and P enrichment ; Rock phosphate ; Pyrite ; Triticum aestivum ; Nutrient uptake
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Geosciences , Agriculture, Forestry, Horticulture, Fishery, Domestic Science, Nutrition
    Notes: Summary A nutrient-rich compost from paddy straw was prepared using urea and Mussoorie rock phosphate for N and P enrichment respectively. Inorganic N was partly conserved in the compost by the addition of pyrite. Citric-acid-soluble P also increased with the addition of pyrite. Compost containing about 1.6% total N and 3.3% total P was found to be a good source of P for a wheat crop and also supplied a significant amount of N to the plants.
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  • 5
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    Biology and fertility of soils 3 (1987), S. 199-204 
    ISSN: 1432-0789
    Keywords: Phosphatases ; Rhizosphere ; Organic phosphorus ; Allium cepa ; Brassica oleracea ; Triticum aestivum ; Trifolium alexandrinum
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Geosciences , Agriculture, Forestry, Horticulture, Fishery, Domestic Science, Nutrition
    Notes: Summary The distribution of phosphatase activity and of phosphate fractions of the soil in the proximity of roots was studied in order to evaluate the significance of phosphatases in P nutrition of various plants (Brassica oleracea, Allium cepa, Triticum aestivum, Trifolium alexandrinum). A considerable increase in both acid and alkaline phosphatase activity in all the four soil-root interfaces was observed. Maximum distances from the root surface at which activity increases were observed ranged from 2.0 mm to 3.1 mm for acid phosphatase and from 1.2 mm to 1.6 mm for alkaline phosphatase. The increase in phosphatase activity depended upon plant age, plant species and soil type. A significant correlation was noticed between the depletion of organic P and phosphatase activity in the rhizosphere soil of wheat (r = 0.99**) and clover (r = 0.97**). The maximum organic P depletion was 65% in clover and 86% in wheat, which was observed within a distance from the root of 0.8 mm in clover and 1.5 mm in wheat. Both the phosphatases in combination appear to be responsible for the depletion of organic P.
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  • 6
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    Biology and fertility of soils 5 (1987), S. 76-82 
    ISSN: 1432-0789
    Keywords: Biomass accumulation ; Decomposition ; Litter ; Soil organic matter ; Soil respiration ; 14C deposition ; Triticum aestivum
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Geosciences , Agriculture, Forestry, Horticulture, Fishery, Domestic Science, Nutrition
    Notes: Summary In a field experiment with 14C-labeled winter wheat conducted in the north-central region of the United States, crop-accumulated carbon (grain excluded) returned to the soil was found to be 542 g m−2 year−1. Almost half of the carbon from the underground compartment was released in the form of CO2 during the first 3 months after harvest due to very favorable conditions for biological activity. After 18 months, no less than 80% of the carbon from the plant residues was mineralized. About 16% of straw carbon and 24% of root carbon was transferred into soil organic matter. The annual rate of soil organic matter decomposition was approximated as 1.7%.
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  • 7
    ISSN: 1432-0789
    Keywords: Triticum aestivum ; T. turgidum ; Nitrogen fixation ; Field inoculation ; Acetylene reduction assay (ARA)
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Geosciences , Agriculture, Forestry, Horticulture, Fishery, Domestic Science, Nutrition
    Notes: Summary Eight commercial Israeli spring wheat cultivars (six Triticum aestivum and two T. turgidum) grown with 40 and 120 kg N/ha were tested for responses to inoculation with Azospirillum brasilense. At the low level of N fertilization (40 kg/ha), five cultivars showed significant increases in plant dry weight measured at the milky ripe stage; however, by maturation only the cultivar “Miriam” showed a significant increase in grain yield. Two cultivars, which had shown a positive inoculation effect at the earlier stages, had a significant decrease in grain yield. No significant effect of inoculation was found at the high N level. To confirm those results, four wheat (T. aestivum) cultivars were tested separately over 4 years in 4 different locations under varying N levels. Only Miriam showed a consistently positive effect of Azospirillum inoculation on grain yield. Inoculation increased the number of roots per plant on Miriam compared with uninoculated plants. This effect was found at all N levels. Nutrient (N, P and K) accumulation and number of fertile tillers per unit area were also enhanced by Azospirillum, but these parameters were greatly affected by the level of applied N. It is suggested that the positive response of the spring wheat cultivar “Miriam” to Azospirillum inoculation is due to its capacity to escape water stresses at the end of the growth season.
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  • 8
    ISSN: 1432-0789
    Keywords: Azospirillum brasilense ; Triticum aestivum ; Inoculation ; N and dry matter yield ; N percentages in plant parts ; Associative N2 fixation
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Geosciences , Agriculture, Forestry, Horticulture, Fishery, Domestic Science, Nutrition
    Notes: Summary Wheat plants (Triticum aestivum) grown in pots and in the field under the Mediterranean climate of the south of France were inoculated with a strain of Azospirillum brasilense. Comparisons with non-inoculated plants grown under the same conditions showed significant responses to inoculation with an increase in the number of fertile tillers, shoot and root dry weight, and root to shoot biomass ratio. The roots of inoculated plants attracted relatively more assimilates than those of the control plants until a late stage of growth (heading stage) but the rhizosphere respiration expressed per unit of root growth was not increased by inoculation. Nitrogen yield, both total and in grains, was also enhanced; however, N percentages of all aerial parts of the plants grown in pots were always statistically lower after inoculation than in the control. At maturity, the N % in seeds was 1.81 and 2.45, respectively. The possible mechanisms of this effect of inoculation under the experimental conditions of this study are discussed.
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  • 9
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    Biology and fertility of soils 7 (1988), S. 67-70 
    ISSN: 1432-0789
    Keywords: Root activity ; Soil C mineralization ; 14C-labelled plant material ; Decomposition stages ; Wheat ; Triticum aestivum
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Geosciences , Agriculture, Forestry, Horticulture, Fishery, Domestic Science, Nutrition
    Notes: Summary Two different soils were amended with 14C-labelled plant material and incubated under controlled laboratory conditions for 2 years. Half the samples were cropped with wheat (Triticum aestivum) 10 times in succession. At flowering, the wheat was harvested and the roots removed from the soil, and a new crop was started. Thus, the soil was continuously occupied by predominantly active root systems. The remaining samples were maintained without plants under the same conditions. The aim of the experiment was to study the effects of active roots on C-mineralization rates during different stages of decomposition and during long-term incubation. During the first 200 days, corresponding to the active decomposition stages, the roots weakly reduced 14C mineralization. With a lower level of decomposition, when more than 60% of the initial 14C was mineralized and when the available nutrients were markedly exhausted by plant uptake, the roots stimulated 14C mineralization.[/ p]
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  • 10
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    Biology and fertility of soils 7 (1988), S. 71-78 
    ISSN: 1432-0789
    Keywords: Root activity ; Rhizosphere ; C metabolism ; Microbial biomass ; Microbial activity ; Wheat ; Triticum aestivum
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Geosciences , Agriculture, Forestry, Horticulture, Fishery, Domestic Science, Nutrition
    Notes: Summary Two different soils were amended with 14C-labelled plant material and incubated under controlled laboratory conditions for 2 years. Half the samples were cropped with wheat (Triticum aestivum) 10 times in succession. At flowering, the wheat was harvested and the old roots removed from the soil, so that the soil was continuously occupied by predominantly active root systems. The remaining samples were maintained without plants under the same conditions. During the initial stages of high microbial activity, due to decomposition of the labile compounds, the size of the total microbial biomass was comparable for both treatments, and the metabolic quotient (qCO2-C = mg CO2-C·mg−1 Biomass C·h−1) was increased by the plants. During the subsequent low-activity decomposition stages, after the labile compounds had been progressively mineralized, the biomass was multiplied by a factor of 2–4 in the presence of plants compared to the bare soils. Nevertheless, qCO2-C tended to reach similar low values with both treatments. The 14C-labelled biomass was reduced by the presence of roots and qCO2-14C was increased. The significance of these results obtained from a model experiment is discussed in terms of (1) the variation in the substrate originating from the roots and controlled by the plant physiology, (2) nutrient availability for plants and microorganisms, (3) soil biotic capacities and (4) increased microbial turnover rates induced by the roots.
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  • 11
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    Biology and fertility of soils 4 (1987), S. 37-40 
    ISSN: 1432-0789
    Keywords: Azospirillum brasilense ; Azospirillum amazonense ; rate reductase ; Inoculation ; Wheat ; Triticum aestivum
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Geosciences , Agriculture, Forestry, Horticulture, Fishery, Domestic Science, Nutrition
    Notes: Summary Three field experiments with wheat were conducted in 1983, 1984, and 1985 in Terra Roxa soil in Paraná, the major Brazilian wheat-growing region, to study inoculation effects of various strains of Azospirillum brasilense and A. amazonense. In all three experiments inoculation with A. brasilense Sp 245 isolated from surface-sterilized wheat roots in Paraná produced the highest plant dry weights and highest N% in plant tops and grain. Grain yield increases with this strain were up to 31 % but were not significant. The application of 60 or 100 kg N ha−1 to the controls increased N accumulation and produced yields less than inoculation with this strain. Another A. brasilense strain from surface-sterilized wheat roots (Sp 107st) also produced increased N assimilation at the lower N fertilizer level but reduced dry weights at the high N level, while strain Sp 7 + Cd reduced dry weights and N% in the straw at both N levels. The A. amazonense strain isolated from washed roots and a nitrate reductase negative mutant of strain Sp 245 were ineffective. Strains Sp 245 and Sp 107st showed the best establishment within roots while strain Cd established only in the soil.
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  • 12
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    Biology and fertility of soils 4 (1987), S. 41-46 
    ISSN: 1432-0789
    Keywords: Competition ; Migration ; Colonization potential ; Replica printing ; Triticum aestivum ; Pseudomonas fluorescens ; Bacillus subtilis
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Geosciences , Agriculture, Forestry, Horticulture, Fishery, Domestic Science, Nutrition
    Notes: Summary Colonization patterns of Pseudomonas fluorescens and Bacillus subtilis on roots of wheat seedlings growing on water agar were studied qualitatively by replica printing and quantitatively by the plate count method. The results indicated a stronger colonization potential for P. fluorescens (up to 107 cfu/cm root) than for B. subtilis (up to 105 cfu/cm root). Although the numbers of both species were lower when inoculated together, the observed colonization patterns on the roots were comparable to those found with single inoculations. For none of these bacteria was active migration along the root surface in any direction observed, indicating that distal positions are reached mainly by a passive displacement on the root tip and elongating cells. Ecological implications of the observed phenomena are discussed.
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  • 13
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    Biology and fertility of soils 5 (1987), S. 31-35 
    ISSN: 1432-0789
    Keywords: Gaeumannomyces graminis ; VegVetative growth ; Pathogenicity ; Herbicides ; Diquat+paraquat ; Glyphosate ; Dicamba ; Trifluralin ; Chlorsulfuron ; Chlorthal dimethyl ; Triticum aestivum
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Geosciences , Agriculture, Forestry, Horticulture, Fishery, Domestic Science, Nutrition
    Notes: Summary The effects of Spray Seed (diquat + paraquat), Roundup (glyphosate), Banvel-D (dicamba), Treflan (trifluralin), Glean (chlorsulfuron) and Dacthal (chlorthal dimethyl) at concentrations of 0–500 ppm product on the vegetative growth, vigour and pathogenicity of Gaeumannomyces graminis var. tritici (Ggt) on wheat were examined. All herbicides with the exception of dicamba and chlorsulfuron inhibited fungal growth on potato dextrose agar (PDA) at concentrations 10–500-fold of rates recommended for use in the field. The vegetative growth of the pathogen growing out of straw colonized on PDA supplemented with 100 ppm diquat + paraquat or glyphosate was reduced by 47.4% and 42.4%, respectively. When portions of these colonies were subcultured onto unamended PDA, their growth and the pathogenicity of straw pieces colonized by these subcultures were found to be unaltered. Straw colonized by Ggt on agar amended with concentrations of diquat + paraquat or at all concentrations of glyphosate produced less root disease in wheat seedlings in comparison to those colonized on unamended agar. It is proposed that the reduced pathogenicity of inocula prepared on agar amended with these two herbicides is due to poor colonization by the pathogen of straw on these media, and that a similar effect on saprophytic colonization in the field could lead to a reduction in the field inocula of the pathogen.
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  • 14
    ISSN: 1432-0789
    Keywords: Biopores ; Root growth ; Transpiration ; Simulations ; Mechanical impedance ; Triticum aestivum
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Geosciences , Agriculture, Forestry, Horticulture, Fishery, Domestic Science, Nutrition
    Notes: Summary The use of vertical biopores by wheat (Triticum aestivum) seminal roots for easy access to the subsoil and the consequences for plant water supply and yield has been investigated by computer simulation. Parameters included were: biopore density and diameter, depth of cultivation and strength of the subsoil — all under a wide range of seasonal weather conditions. The model predicts that biopores add significantly to root penetration at depth, even at a density of 0.1% v/v of small, vertical pores, while 1.5% to 2.0% v/v can ensure maximum root penetration. When the growing season is shorter a larger number of biopores is needed to ensure timely root penetration to depth. With shallow tillage, biopores occur closer to the soil surface, and their importance is increased. Deeper root penetration invariably gives greater water uptake and transpiration, but may have a negative effect on grain yield, especially under the driest climatic conditions. An increase in early water use may result in less soil water being available during the grain-filling period. The effect of biopores on plant transpiration varies from year to year, depending on the amount of rain and its distribution in time, and on the amount of soil water stored at time of sowing.
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  • 15
    ISSN: 1432-0983
    Keywords: psbA ; Cyanelle ; Cyanophora paradoxa ; Evolution ; Sequence analysis
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Summary The psbA gene is part of the reaction center of photosystem II in cyanobacteria and the plastids of higher plants. Its primary sequence is highly conserved among all species investigated so far and its sequence shows homologies with the L and M subunits of the reaction center of photosynthetic bacteria. We have analyzed the psbA homolog from a eukaryotic alga, Cyanophora paradoxa, where the gene is encoded on cyanelle DNA. These cyanelles are surrounded by a murein sacculus and resemble cyanobacteria in many other characteristics, although they are genuine organelles that functionally replace plastids. Analysis of the gene revealed a psbA protein identical in length (360 codons) with the cyanobacterial counterpart. The overall sequence identity is, however, more pronounced between cyanelle psbA and the shorter (353 amino acids) psbA product found in higher plants. These data strongly support the postulated bridge position of cyanelles between chloroplasts and free-living cyanobacteria.
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  • 16
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    Current genetics 10 (1986), S. 931-941 
    ISSN: 1432-0983
    Keywords: T. aestivum ; Chloroplast DNA ; Repeat DNA ; Evolution
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Summary Low-stringency hybridisation between recombinant plasmids representing the complete T. aestivum chloroplast genome has revealed small repeated DNA segments dispersed through the molecule. Thirty-two repeated DNA segments were detected, and they could be divided into 12 unrelated sets; no repeat was detected as multiple copies. The longest of the small repeats mapped just within the large inverted repeat in spinach and mung-bean ctDNAs. It was found to have been duplicated after the divergence of a cereal progenitor to generate a third, dispensible copy, 0.2 kbp downstream of rbcL. In maize at least, this copy has also become integrated, with rbcL, in the mitochondrial genome. Another of the repeats is thought to have mediated a chloroplast DNA inversion (Howe 1985). Thus the diverse collection of small repeats probably represents some consequences and causes of past recombination events as well as a mechanism for further intramolecular ctDNA recombination. Their possible significance in the restructuring and evolution of chloroplast genomes is discussed.
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  • 17
    ISSN: 1432-0983
    Keywords: Triticum aestivum ; Plant mitochondrial DNA ; Ribosomal genes ; Sequence rearrangements
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Summary The nucleotide sequence of the wheat mitochondrial 26S ribosomal RNA gene and flanking regions was determined and compared with mitochondrial 26S rRNA genes from maize and Oenothera. All three genes exhibit a high degree of homology except within two variable regions. When the plant mitochondrial 26S rRNA genes are compared with Escherichia coli 23S rRNA and chloroplast 23S and 4.5S rRNA genes, a third variable region is apparent close to the 3′ end of the gene. The 5′ and 3′ ends of the wheat mitochondrial gene were determined by S1 nuclease mapping. Computer analysis of the wheat mitochondrial gene revealed several small sequences present either in the 5′ region of the 26S rRNA gene or in the 18S rRNA gene.
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  • 18
    ISSN: 1432-0983
    Keywords: Wheat chloroplast DNA ; Repeated sequences ; Ribosomal protein genes ; Evolution
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Summary Some dispersed repeated sequences and their flanking regions from wheat and maize ctDNAs have been characterized. Two sets of wheat ctDNA repeats were found to be the chloroplast ribosomal protein genesrpl2 andrpl23, plus nonfunctional segments of them, designatedrpl2′ andrpl23′. Pairwise comparisons were made between the wheatrp123 andrpl23′, and the maizerp123′ sequences. The precise patterns of homology suggest that the divergence of the wheat and maize nonfunctional (rpl23′) sequences is being retarded by nonreciprocal recombination, biased by selection for individuals with functional (rpl23) sequences. The implied involvement of these sequences in mechanisms of homologous recombination, and therefore in the creation and spread of new ctDNA variants, is discussed.
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  • 19
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    Current genetics 15 (1989), S. 99-106 
    ISSN: 1432-0983
    Keywords: Yeast ; Isoleucyl-tRNA synthetase ; Isoleucine ; Evolution
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Summary The isoleucyl-tRNA synthetase gene (ILS1) from the yeast Saccharomyces cerevisiae was cloned and sequenced. This gene was initially cloned because it cross-hybridizated to what is now presumed to be the isoleucyl-tRNA synthetase gene (cupC) from the protozoan Tetrahymena hhermophila. The ILS1 gene was determined to be 1,072 amino acids in length. A comparison with a recently published sequence of ILS1 1 from another laboratory (Englisch et al. 1987) was made and differences noted. Two promoter elements were detected, one for general amino acid control and one for constitutive transcription. A heat shock protein (hsp70) gene (probably SSA3) was found 237 by upstream from the ILS1 translation start site. The ILS1 amino acid sequence was compared to isoleucyl-tRNA synthetases from other organisms, as well as to valyl-, leucyl- and methionyl-tRNA synthetases. Regions of conservation between these enzymes were found.
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  • 20
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    Current genetics 15 (1989), S. 221-229 
    ISSN: 1432-0983
    Keywords: Chloroplast DNA ; Chlorophyll a/c alga ; Evolution ; Ribosomal operon
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Summary There are almost no data describing chloroplast genome organization in chromophytic (chlorophyll a/c) plants. In this study chloroplast ribosomal operon placement and gene organization has been determined for the golden-brown alga Olisthodiscus luteus. Ribosomal RNA genes are located on the chloroplast DNA inverted repeat structure. Nucleotide sequence analysis, demonstrated that in contrast to the larger spacer regions in land plants, the 16S–23S rDNA spacer of O. luteus is only 265 by in length. This spacer contains tRNAIle and tRNAAla genes which lack introns and are separated by only 3 bp. The sequences of the tRNA genes and 16S and 23S rDNA termini flanking the spacer were examined to determine homology between O. luteus, chlorophytic plant chloroplast DNA, and prokaryotes.
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  • 21
    ISSN: 1432-0983
    Keywords: Comparative restriction site mapping ; Gene mapping ; Deletions and additions ; Chloroplast genome ; Evolution
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Summary The chloroplast genomes from the interfertile green algae Chlamydomonas eugametos and C. moewusii have been compared in their overall sequence organization. Physical mapping of Aval, BstEII and EcoRI restriction sites on the C. moewusii chloroplast genome revealed that this 292 kilobase-pair (kbp) genome is 49 kbp larger than the C. eugametos genome. Heterologous fragment hybridizations indicated the same order of common sequence elements on the two algal genomes. Almost all of the 49 kbp size difference is accounted for by the presence of two large extra sequences in C. moewusii: a 21 kbp sequence in the inverted repeat and a 5.8 kbp sequence in the single copy-region bordering the 16S ribosomal RNA (rRNA) genes. In addition to these two major deletion/addition differences, 42 restriction site and fragment length differences (ranging from 100 to 500 base pairs) were mapped on the two algal genomes. Surprisingly, the greatest density of these differences was found to be confined within the inverted repeat, one of the most conserved regions of land plant chloroplast genomes.
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  • 22
    ISSN: 1432-0983
    Keywords: Physarum polycephalum ; rRNA ; Sequence ; Evolution
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Summary The nucleotide sequence of the Physarum polycephalum small subunit ribosomal RNA (SSU rRNA) gene has been determined. Sequence data indicate that the mature 19S SSU rRNA is 1,964 nucleotides long. A complete secondary structure model for P. polycephalum SSU rRNA has been constructed on the basis of the Escherichia coli 16S rRNA model and data from comparative analyses of 28 different eukaryotic sequences. A “four-helix” model is presented for the central domain variable region. This model can be applied both to vertebrate and most lower eukaryotic SSU rRNAs. The increased size of P. polycephalum SSU rRNA relative to the smaller SSU rRNAs from such other lower eukaryotes, as Dictyostelium, Tetrahymena or Saccharomyces is due mainly to three G+C-rich insertions found in two regions known to be of variable length in eukaryotes. In a phylogenetic tree constructed from pairwise comparisons of eukaryotic SSU rRNA sequences, the acellular myxomycete P. polycephalum is seen to diverge before the appearance of the cellular mycomycete Dictyostelium discoideum.
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  • 23
    ISSN: 1432-0983
    Keywords: Triticum aestivum ; Genomic variability ; Mitochondrial DNA ; Somatic tissue culture ; Regeneration ability
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Summary Embryogenic and non-embryogenic long-term callus cultures of hexaploid wheat exhibit differences in the organization of their mitochondrial genome. Embryogenic and non-embryogenic fractions of callus cultures initiated from immature embryos of the wheat cultivar “Chinese Spring” have been isolated and subsequently subcultured. DNA-DNA hybridization experiments using labelled cloned wheat mitochondrial DNA fragments have shown that the mitochondrial DNA organization of embryogenic subcultures derived from embryogenic parts of “Chinese Spring” calli is closely related to that of the initial “Chinese Spring” calli, while non-embryogenic subcultures derived from non-embryogenic fragments of “Chinese Spring” calli exhibit a mitochondrial DNA organization similar to that found in non-embryogenic calli derived from cultivar “Aquila”. In addition, somatic tissue cultures initiated from three other non-embryogenic wheat cultivars (“Talent”, “Thésée” and “Capitole”) display mitochondrial DNA arrangements similar to those found in cultivar “Aquila”. These results strongly suggest that, in wheat callus cultures, a particular mitochondrial genome organization is correlated with the ability of cultured cells to regenerate whole plants.
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  • 24
    ISSN: 1432-0983
    Keywords: Evolution ; Sequence comparison ; RUBISCO ; Transit peptide
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Summary We have isolated and characterized a full-length cDNA clone encoding the precursor of the small subunit (pSU) of ribulose-1,5-bisphosphate carboxylase/oxygenase (RUBISCO) from the green alga, Chlamydomonas moewusii. Comparison with the C. reinhardtii rbcS1 gene sequence reveals that both small subunit (SS) coding regions are 75% homologous and that their predicted mature polypeptide chains are each composed of 140 amino acids. In contrast, their transit peptides appear to be divergent. We also show that transcription of the C. moewusii rbcS gene(s) which generates a 1,230 and a 930 base mRNA species are light-stimulated/or accumulated during the light period of the cell cycle. Finally, the SS polypeptide sequences of fifteen different photosynthetic organisms are compared; this analysis reveals at least five well-conserved polypeptide domains.
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  • 25
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    Journal of molecular evolution 25 (1987), S. 141-150 
    ISSN: 1432-1432
    Keywords: 20S particle ; Prosome ; Evolution ; Small cytoplasmic RNAs ; Heat shock proteins
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Summary We have purified and characterized a particle sedimenting at 20S from the postribosomal fraction of yeast, wheat germ,Drosophila melanogaster tissue culture cells, chicken embryo fibroblasts, rabbit reticulocyte lysate, and HeLa cells. Most of the protein constituents of the 20S particle have molecular weights of 20–35 kd and differ between species; however, some do have similar molecular weights and isoelectric points, suggesting they are related. Several low-molecular-weight RNAs, distinct from tRNAs, co-purify with the particle isolated from all these species and show increasingly more complex patterns ascending the arbitrary order from yeast to human (yeast, plant, insect, bird, and mammals). InDrosophila, we present evidence that these small RNAs are tightly associated with this 20S structure.
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  • 26
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    Journal of molecular evolution 28 (1988), S. 98-112 
    ISSN: 1432-1432
    Keywords: rRNA ; Evolution ; Sequence comparison ; Parsimony ; Bootstrap
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    Notes: Summary Sequences of small subunit (SSU) and large subunit (LSU) ribosomal RNA genes from archaebacteria, eubacteria, and the nucleus, chloroplasts, and mitochondria of eukaryotes have been compared in order to identify the most conservative positions. Aligned sets of these positions for both SSU and LSU rRNA have been used to generate tree diagrams relating the source organisms/organelles. Branching patterns were evaluated using the statistical bootstrapping technique. The resulting SSU and LSU trees are remarkably congruent and show a high degree of similarity with those based on alternative data sets and/or generated by different techniques. In addition to providing insights into the evolution of prokaryotic and eukaryotic (nuclear) lineages, the analysis reported here provides, for the first time, an extensive phylogeny of the mitochondrial lineage.
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  • 27
    ISSN: 1432-1432
    Keywords: Aspergillus nidulans ; 5S rRNA ; Pseudogenes ; Evolution
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    Notes: Summary AllAspergillus nidulans 5S rRNA pseudogenes known so far are the result of integration of an approx. 0.2-kbp-long DNA sequence into the 5S rRNA genes. This sequence, called block C, is present in at least five copies in theA. nidulans genome and seems to be associated either with 5S rRNA genes or pseudogenes. In contrast to the 78% sequence conservation of the C-block in pseudogenes, the truncated 5′ halves of the pseudogenes are very highly conserved (96.9–100%). We postulate that the 5S rRNA pseudogenes are still a subject of concerted evolution. The C-block sequence shows similarity to the switch region of the mouse heavy chain immunoglobulin gene. A characteristic motif GGGTGAG is repeated several times in both sequences; the sequence conservation is 63%.
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  • 28
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    Journal of molecular evolution 28 (1989), S. 175-184 
    ISSN: 1432-1432
    Keywords: Sheep ; Globin genes ; Evolution ; Gene duplication
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    Topics: Biology
    Notes: Summary Domestic sheep have two common alleles at the adult β-globin locus,β A andβ B. Here we report the structure of the β-globin locus of A-haplotype sheep. The locus consists of 12 genes, organized as a triplicated 4-gene set: 5′ ∈I-∈II-ΨβI-βC-∈III-∈IV-ΨβII-βA-∈V-∈VI-ΨβIII-βF 3′. This arrangement is identical to that of the closely related goat locus. Sheep with the B haplotype have a locus arrangement consisting of a duplicated four-gene set, lacking the βC gene as well as three other genes present in A sheep and goats. In order to understand the evolutionary history of the B sheep locus, we have sequenced the βB gene from these sheep, and the βB gene from A-haplotype sheep, and compared the sequences to those of the sheep βA, goat βC, and βA, and cow adult β genes. Our results indicate that the βB gene has diverged recently from the βA gene, and therefore the βB locus structure may have resulted from a recent deletion from a triplicated locus.
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  • 29
    ISSN: 1432-1432
    Keywords: Evolution ; Multiple sequence alignment ; NTP binding ; Phylogenetic analysis ; Positive-strand RNA viruses
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    Notes: Summary NTP-motif, a consensus sequence previously shown to be characteristic of numerous NTP-utilizing enzymes, was identified in nonstructural proteins of several groups of positive-strand RNA viruses. These groups include picorna-, alpha-, and coronaviruses infecting animals and como-, poty-, tobamo-, tricorna-, hordei-, and furoviruses of plants, totalling 21 viruses. It has been demonstrated that the viral NTP-motif-containing proteins constitute three distinct families, the sequences within each family being similar to each other at a statistically highly significant level. A lower, but still valid similarity has also been revealed between the families. An overall alignment has been generated, which includes several highly conserved sequence stretches. The two most prominent of the latter contain the socalled “A” and “B” sites of the NTP-motif, with four of the five invariant amino acid residues observed within these sequences. These observations, taken together with the results of comparative analysis of the positions occupied by respective proteins (domains) in viral multidomain proteins, suggest that all the NTP-motif-containing proteins of positive-strand RNA viruses are homologous, constituting a highly diverged monophyletic group. In this group the “A” and “B” sites of the NTP-motif are the most conserved sequences and, by inference, should play the principal role in the functioning of the proteins. A hypothesis is proposed that all these proteins posses NTP-binding capacity and possibly NTPase activity, performing some NTP-dependent function in viral RNA replication. The importance of phylogenetic analysis for the assessment of the significance of the occurrence of the NTP-motif (and of sequence motifs of this sort in general) in proteins is emphasized.
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  • 30
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    Journal of molecular evolution 1 (1971), S. 112-114 
    ISSN: 1432-1432
    Keywords: Nucleotides ; Imidazole ; Condensation ; Evolution ; Prebiotic ; Oligonucleotides ; Phosphodiester
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    Topics: Biology
    Notes: Summary The condensation of thymidine-5′-monophosphate was carried out in the presence of imidazole in aqueous solutions at neutral pH. Formation of oligo-deoxyribonucleotides up to four units was observed.
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    Journal of molecular evolution 1 (1972), S. 258-262 
    ISSN: 1432-1432
    Keywords: Calcitonin ; Evolution ; Genetic Code ; Mutation ; Amino Acid Sequences ; Base Changes ; Phylogeny
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    Notes: Summary The amino acid replacements in the calcitonins from five different species (human, bovine, ovine, porcine and salmon) have been analyzed according to the genetic code. More mutations separate the presumed common mammal from the artiodactyls than from either salmon or man.
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  • 32
    ISSN: 1432-1432
    Keywords: Tropomyosin ; Differential splicing ; Evolution ; Isochore ; Codon usage ; Sequence convergence ; Functional constraints
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    Notes: Summary We have cloned and determined the nucleotide sequence of a complementary DNA (cDNA) encoded by a newly isolated human tropomyosin gene and expressed in liver. Using the leastsquare method of Fitch and Margoliash, we investigated the nucleotide divergences of this sequence and those published in the literature, which allowed us to clarify the classification and evolution of the tropomyosin genes expressed in vertebrates. Tropomyosin undergoes alternative splicing on three of its nine exons. Analysis of the exons not involved in differential splicing showed that the four human tropomyosin genes resulted from a duplication that probably occurred early, at the time of the amphibian radiation. The study of the sequences obtained from rat and chicken allowed a classification of these genes as one of the types identified for humans. The divergence of exons 6 and 9 indicates that functional pressure was exerted on these sequences, probably by an interaction with proteins in skeletal muscle and perhaps also in smooth muscle; such a constraint was not detected in the sequences obtained from nonmuscle cells. These results have led us to postulate the existence of a protein in smooth muscle that may be the counterpart of skeletal muscle troponin. We show that different kinds of functional pressure were exerted on a single gene, resulting in different evolutionary rates and different convergences in some regions of the same molecule. Codon usage analysis indicates that there is no strict relationship between tissue types (and hence the tRNA precursor pool) and codon usage. G+C content is characteristic of a gene and does not change significantly during evolution. These results are in good agreement with an isochore composition of the genome, and thus suggest a similar chromosomal environment in chicken, rat, and human.
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    Journal of molecular evolution 27 (1988), S. 291-297 
    ISSN: 1432-1432
    Keywords: P1 P2 protamines ; Evolution ; Regulatory sequence ; Primordial sequence ; Similarity ; Alignment
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    Notes: Summary With the recent availability of the primary structural data for the trout, bovine, and mouse protamine genes, a detailed comparison of their structures has been made. This has revealed extensive conservation of potentially biologically significant regions. An inverse correlation is apparent between gene copy number and the number of sequence-distinct protamines synthesized with the number of CP-box-like (CCYPCCC) putative transcription modulating sequences situated 5′ to these genes. A common nucleotide sequence 5′ to the CP-box-like putative transcription modulating sequence(s) at the end of a common region has been identified. It is postulated that this is the testis-specific protamine P1 transcription regulator sequence. Evidence based on sequence similarity is also provided for the existence of a primordial protamine gene and a scheme for the evolution of vertebrate protamine genes is proposed.
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  • 34
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    Journal of molecular evolution 29 (1989), S. 28-39 
    ISSN: 1432-1432
    Keywords: Transposable elements ; Zea mays ; Evolution ; Inverted repeats
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    Notes: Summary The Robertson's Mutator stock of maize exhibits a high mutation rate due to the transposition of theMu family of transposable elements. All characterizedMu elements contain similar ≈200-bp terminal inverted repeats, yet the internal sequences of the elements may be completely unrelated. Non-Mutator stocks of maize have a 20–100-fold lower mutation rate relative to Mutator stocks, yet they contain multiple sequences that hybridize to theMu terminal inverted repeats. Most of these sequences do not cohybridize to internal regions of previously clonedMu elements. We have cloned two such sequences from the maize line B37, a non-Mutator inbred line. These sequences, termedMu4 andMu5, have an organization characteristic of transposable elements and possess ≈200-bpMu terminal inverted repeats that flank internal DNA, which is unrelated to other clonedMu elements.Mu4 andMu5 are both flanked by 9-bp direct repeats as has been observed for otherMu elements. However, we have no direct evidence that they have recently transposed because they have not been found in known genes. Although the internal regions ofMu4 andMu5 are not related by sequence similarity, both elements share an unusual structural feature: the terminal inverted repeats extend more than 100 bp internally fromMu-similar termini. The distribution of these elements in maize lines and related species suggests thatMu elements are an ancient component of the maize genome. Moreover, the structure of theMu termini and the fact thatMu termini are found flanking different internal sequences leads us to speculate thatMu termini once may have been capable of transposing as independent entities.
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  • 35
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    Journal of molecular evolution 3 (1974), S. 109-113 
    ISSN: 1432-1432
    Keywords: “Custom Fitting” ; Development ; Evolution ; Antibody response ; Genetic Redundancy ; Perturbation
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    Notes: Summary When the complexity of a developmental system evolves to a certain point, appreciable variation must occur in the process. The problem the biologist faces is whether this point constitutes a limit to the evolution of complexity in developmental systems. If not, what mechanisms are employed to cope with the problem ? The problem—essentially one in “custom fitting” of parts, — and the possible solution(s) to it that have evolved are discussed. The antibody producing system appears to be one that “solves” the custom-fitting problem.
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  • 36
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    Journal of molecular evolution 3 (1974), S. 121-140 
    ISSN: 1432-1432
    Keywords: Genetic Code ; Stereospecificity ; NMR-Measurements ; Evolution
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    Notes: Summary A sterical correlation of the amino acids to their anticodon nucleotides is given. The main principle is the intercalation of the amino acid and the binding of the aliphatic amino acid hydrogen atoms through hydrogen bonds to the π-electrons of the bases. The amino groups of the bases and the ribose phosphate chain are additional binding sites for the amino acid. The strength of these hydrogen-π bonds is considerably increased by the protonation of the carboxyl group of the amino acid. Such a protonation occurs in esterification processes and gives in these reactions the possibility of an activated complex where the proposed complementarity is also energetically favoured. Evolutionary considerations show an uncomplicated way from the chemical reactions of prebiologically formed organic molecules to a living system.
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    Journal of molecular evolution 2 (1973), S. 123-136 
    ISSN: 1432-1432
    Keywords: Nucleotide Substitutions ; Evolution ; Codons ; Cytochromesc ; Hemoglobins ; Fibrinopeptides A
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    Topics: Biology
    Notes: Summary The distribution among the three nucleotide positions of the codons of 642 mutations fixed during the descent of 49 sequences of cytochromec was examined. This was compared to the distribution expected if the number of ways of getting a selectively acceptable amino acid alternative from a single nucleotide replacement at each coding position were random,i.e. proportional to the total number of ways of changing the encoded amino acid by a single nucleotide replacement at each coding position. It was found that the observed distribution was significantly different from random, there being 40% more mutations in the first coding position than in the second whereas one would have expected 10% more in the second than in the first. The probability of the result occurring by chance is 〈 10−6. The same test was made on the distribution of 347 mutations fixed in the descent of 19 sequences of alpha hemoglobin and 286 mutations fixed in the descent of 16 beta and 4 delta hemoglobins. The result for the alpha hemoglobins was a similar non-randomness but the probability of its occurring by chance rose to 0.005. The result for the beta-delta hemoglobins was in the same direction but was not significant (p = 0.3). The degree of non-randomness among the three genes in the distribution of fixations over the three nucleotide positions of their codons appears to be correlated (negatively) with their rates of evolution, the plasticity required of the molecule to adapt to new environments, and the recency of exploitation of opportunities for change in functional specificity provided by such processes as gene duplication.
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  • 38
    ISSN: 1432-1432
    Keywords: Xenopus tropicalis ; Xenopus borealis ; Globin cDNAs ; Evolution
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    Notes: Summary Globin mRNAs ofXenopus borealis andXenopus tropicalis have been cloned and sequenced. The nucleotide and derived amino acid sequences were compared with each other and with already available data fromXenopus laevis. This analysis rendered clear evidence that the common ancestor ofX. laevis andX. borealis, but not ofX. tropicalis, had lost one amino acid of the β-globins prior to a genome duplication event that preceded the segregation of the former two species. Replacement-site substitutions were used to calculate a rough time scale of genome duplication and species segregation. The results suggest an ancient separation between theX. laevis and theX. tropicalis groups occurring approximately 110–120 million years ago. Analysis of the amino acid chains demonstrated various alterations. However, some functional domains, like heme-binding sites andα1β2 contact sites, were subject to a high degree of conservation, indicating the existence of functional constraints on them also in the genusXenopus.
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  • 39
    ISSN: 1432-1432
    Keywords: Symbiosis ; Plant mitochondria ; 5S RNA ; Evolution ; Purple bacteria
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    Notes: Summary The complete nucleotide sequences of 5S ribosomal RNAs fromRhodocyclus gelatinosa, Rhodobacter sphaeroides, andPseudomonas cepacia were determined. Comparisons of these 5S RNA sequences show that rather than being phylogenetically related to one another, the two photosynthetic bacterial 5S RNAs share more sequence and signature homology with the RNAs of two nonphotosynthetic strains.Rhodobacter sphaeroides is specifically related toParacoccus denitrificans andRc. gelatinosa is related toPs. cepacia.These results support earlier 16S ribosomal RNA studies and add two important groups to the 5S RNA data base. Unique 5S RNA structural features previously found inP. denitrificans are present also in the 5S RNA ofRb. sphaeroides; these provide the basis for subdivisional signatures. The immediate consequence of our obtaining these new sequences is that we are able to clarify the phylogenetic origins of the plant mitochondrion. In particular, we find a close phylogenetic relationship between the plant mitochondria and members of the alpha subdivision of the purple photosynthetic bacteria, namely,Rb. sphaeroides, P. denitrificans, andRhodospirillum rubrum.
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    Journal of molecular evolution 22 (1985), S. 91-94 
    ISSN: 1432-1432
    Keywords: Primitive atmosphere ; Self-organization ; Evolution ; Prebiological chemistry ; Primordial soup ; Oparin thesis
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    Notes: Summary A recently proposed model for the origin of prebiotic progenitors of life in particles suspended in a primitive, specially organized atmosphere is considered critically. It is concluded that the physical and chemical framework of the new hypothesis conflicts with the conditions necessary for the evolution of the progenitors of life in the atmosphere of the early Earth. Therefore this model seems not to be a reasonable alternative to the Oparin thesis.
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  • 41
    ISSN: 1432-1432
    Keywords: Nucleotide sequence ; Evolution ; Methanogens ; Extreme halophiles ; Eubacteria ; Eukaryotes
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    Notes: Summary The sequence of the small-subunit rRNA from the thermoacidophilic archaebacteriumSulfolobus solfataricus has been determined and compared with its counterparts from halophilic and methanogenic archaebacteria, eukaryotes, and eubacteria. TheS. solfataricus sequence is specifically related to those of the other archaebacteria, to the exclusion of the eukaryotic and eubacterial sequences, when examined either by evolutionary distance matrix analyses or by the criterion of minimum change (maximum parsimony). The archaebacterial 16S rRNA sequences all conform to a common secondary structure, with theS. solfataricus structure containing a higher proportion of canonical base pairs and fewer helical irregularities than the rRNAs from the mesophilic archaebacteria.S. solfataricus is unusual in that its 16S rRNA-23S rRNA intergenic spacer lacks a tRNA gene.
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  • 42
    ISSN: 1432-1432
    Keywords: Actin-coding regions ; Sequence divergence ; Conversion ; Codon usage ; Evolution
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    Notes: Summary We have determined the sequences of three recombinant cDNAs complementary to different mouse actin mRNAs that contain more than 90% of the coding sequences and complete or partial 3′ untranslated regions (3′UTRs): pAM 91, complementary to the actin mRNA expressed in adult skeletal muscle (αsk actin); pAF 81, complementary to an actin mRNA that is accumulated in fetal skeletal muscle and is the major transcript in adult cardiac muscle (αc actin); and pAL 41, identified as complementary to a β nonmuscle actin mRNA on the basis of its 3′UTR sequence. As in other species, the protein sequences of these isoforms are highly (〉93%) conserved, but the three mRNAs show significant divergence (13.8–16.5%) at silent nucleotide positions in their coding regions. A nucleotide region located toward the 5′ end shows significantly less divergence (5.6–8.7%) among the three mouse actin mRNAs; a second region, near the 3′ end, also shows less divergence (6.9%), in this case between the mouse β and αsk actin mRNAs. We propose that recombinational events between actin sequences may have homogenized these regions. Such events distort the calculated evolutionary distances between sequences within a species. Codon usage in the three actin mRNAs is clearly different, and indicates that there is no strict relation between the tissue type, and hence the tRNA precursor pool, and codon usage in these and other muscle mRNAs examined. Analysis of codon usage in these coding sequences in different vertebrate species indicates two tendencies: increases in bias toward the use of G and C in the third codon position in paralogous comparisons (in the order αc), and in orthologous comparisons (in the order chicken 〈 rodent 〈 man). Comparison of actin-coding sequences between species was carried out using the Perler method of analysis. As one moves backward in time, changes at silent sites first accumulate rapidly, then begin to saturate after −(30–40) million years (MY), and actually decrease between −400 and −500 MY. Replacements or silent substitutions therefore cannot be used as evolutionary clocks for these sequences over long periods. Other phenomena, such as gene conversion or isochore compartmentalization, probably distort the estimated divergence time.
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    Journal of molecular evolution 25 (1987), S. 248-254 
    ISSN: 1432-1432
    Keywords: Intervening sequence ; Evolution ; Archaebacteria
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    Notes: Summary Nucleotide sequences of four tRNA genes from the archaebacteriumSulfolobus solfataricus have been determined. Based upon DNA sequence analysis, three of the four genes contain presumptive intervening sequences (introns) in their anticodon loops. The three introns can form similar, but not identical, secondary structures. The cleavage site at the 3′ end of all three introns occurs in a three-base bulge loop. All four genes lack an encoded 3′ CCA terminus and are flanked by A+T-rich DNA sequences. Two of the genes are located on antiparallel DNA strands, with their 3′ termini separated by 414 bp of sequence. Including two previously published sequences, a total of five introns have now been detected among sixS. solfataricus tRNA genes. Occurrence of introns at corresponding locations in both archaebacterial and eukaryotic tRNA genes suggests that the intron/exon form of gene structure predates the evolutionary divergence of the archaebacteria and the eukaryotes.
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    Journal of molecular evolution 25 (1987), S. 261-269 
    ISSN: 1432-1432
    Keywords: Fimbriae ; Pili ; Protein structure ; Microbial phylogeny ; Evolution
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    Notes: Summary We have analyzed and compared the amino acid sequences of the type 4 fimbrial subunits fromPseudomonas aeruginosa, Moraxella bovis, M. nonliquefaciens, Bacteroides nodosus, Neisseria gonorrhoeae, andN. meningitidis. We propose a consensus sequence for the highly conserved aminoterminal regions of these proteins. In the variable regions, a domain corresponding to an epitope common toN. gonorrhoeae andN. meningitidis fimbriae is conserved, both in sequence and in environment, in fimbrial subunits fromB. nodosus. The subunits fromM. bovis andP. aeruginosa do not show any homologies to this sequence. In all of the subunits, the carboxy-terminal half of the molecule consists of a series of fairly hydrophobic domains. The last three domains, two of which include the cysteines of the disulfide bridge inN. gonorrhoeae, P. aeruginosa, andM. bovis, are more or less conserved in sequence in all of the proteins including that ofB. nodosus. We propose that these conserved hydrophobic regions, which have the potential to form a series of beta-sheets, form a structural framework around which more variable hydrophilic sequences determining immunological profile are arranged. The evolutionary relationships of the contemporary proteins and the distribution of type 4 fimbriae are also discussed.
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    Journal of molecular evolution 26 (1987), S. 274-283 
    ISSN: 1432-1432
    Keywords: Cardiotoxin ; Circular dichroism ; Cytotoxin ; Evolution ; Protein
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    Notes: Summary In order to analyze the evolutionary behavior of the cobra venom cytotoxins, their probable tertiary structure was predicted using computer graphics. The 41 amino acid sequences known show that the major evolutionary changes have taken place in two particularly exposed areas of the molecular surface. In each area, neighboring residue positions seem to have evolved interdependently, but there is no obvious interdependence between the two areas. Indeed, the relative evolution of these two areas prompts a subdivision of the sequence set into four groups. According to the known cytotoxin circular dichroism spectra, one of these four groups could be characterized by a difference in molecular secondary structure. Sine the two variable areas have functional associations, it is suggested that their evolution may be governed by a target with several similar binding sites.
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    Journal of molecular evolution 26 (1987), S. 341-346 
    ISSN: 1432-1432
    Keywords: Evolution ; tRNA ; Recognition sites ; Statistics
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    Notes: Summary A compilation of known tRNA, and tRNA gene sequences from archaebacteria, eubacteria, and eukaryotes permits the construction of tRNA cloverleafs which show conserved structural elements for each tRNA family. Positions conserved across the three kingdoms are thought to represent archetypical features of tRNAs which preceded the divergence of these kingdoms.
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  • 47
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    Journal of molecular evolution 27 (1988), S. 17-28 
    ISSN: 1432-1432
    Keywords: Actin genes ; Evolution ; 5′ and 3′ untranslated regions
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    Notes: Summary We have sequenced the coding and leader regions, as well as part of the 3′ untranslated region, of aXenopus borealis type 1 cytoskeletal actin gene [defined according to the arrangement of acidic residues at the N-terminus; Vandekerckhove et al. (1981) J Mol Biol 152:413–426]. The encoded amino acid sequence is the same as the avian and mammalian β (type 1) cytoskeletal actins, except for an isoleucine at position 10 (as found in the mammalian γ cytoskeletal actins), and an extra amino acid, alanine, after the N-terminal methionine. Five introns were found, in the same positions as those of the rat and chicken β-actin genes. The 5′ and 3′ untranslated regions resemble those of the human γ (type 8) cytoskeletal actin gene more closely than the mammalian β genes. Primer extension showed that this type 1 gene is transcribed in ovary and tadpole. Sequencing of primer extension products demonstrated two additional mRNA species inX. borealis, encoding type 7 and 8 isoforms. This contrasts with the closely related speciesXenopus laevis, where type 4, 5, and 8 isoforms have been found. The type 7 isoform has not previously been found in any other species. The mRNAs of theX. borealis type 1 and 8 andX. laevis type 5 and 8 isoforms contain highly homologous leaders. TheX. borealis type 7 mRNA has no leader homology with the other mRNA species and, unlike them, has no extra N-terminal alanine codon. The evolutionary implications of these data are discussed.
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  • 48
    ISSN: 1432-1432
    Keywords: Histone genes ; Sea stars ; Echinoderms ; Evolution
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    Notes: Summary The arrangement of core histone genes and their transcriptional polarity has been determined for three species of sea stars (Pisaster ochraceus, P. brevispinus, andDermasterias imbricata) representing two orders which diverged over 500 million years ago. Each species has approximately 500 core histone cluster repeats per haploid genome. The close phylogenetic relationship between thePisaster species is evident from the correspondence of restriction sites in the repeat element, identical arrangement of core histones, and high degree of sequence homology in both the coding and spacer regions of the H3 gene. TheDermasterias repeat has the same gene order and transcriptional polarity of core histones, but its restriction map is significantly different. Moreover, theDermasterias H3 gene has the same amino acid sequence, but in comparison toPisaster nucleotide sequences, shows a high level of silent substitutions. Analyses of the nucleotide sequence of the 5′ and 3′ regions surrounding the H3 gene from each species demonstrate the presence of appropriately spaced consensus and processing signal segments. The 3′ spacer segment of theDermasterias H4 gene contains an unusual, threefold tandemly repeated, 21-nucleotide, AT-rich sequence. No similar sequence is seen in theP. brevispinus H4 3′ region, but these two species show a striking regularity of distribution of five different homologous oligomers in the 3′ spacer.
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    Journal of molecular evolution 27 (1988), S. 102-108 
    ISSN: 1432-1432
    Keywords: Hemopexin ; Evolution ; Gene structure ; Recombination ; Sequence homology
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    Notes: Summary The human hemopexin gene was isolated and its structure determined. The gene spans approximately 12 kb and is interrupted by nine introns. When the intron/exon pattern was examined with respect to the polypeptide segments they encode, a direct correspondence between exons and the 10 repeating units in the protein was observed. The introns are not randomly placed; they fall in the middle of the region of amino acid sequence homology in strikingly similar locations in 6 of the 10 units and in a symmetrical position in the two halves of the coding sequence. These features strongly support the hypothesis that the gene evolved through intron-mediated duplications of a primordial sequence to a five-exon cluster. A more recent gene duplication led to the present-day gene organization.
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    Journal of molecular evolution 29 (1989), S. 52-62 
    ISSN: 1432-1432
    Keywords: Genome organization ; Evolution ; Plant virus ; RNA recombination ; Sequence similarity
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Summary The relationships of genome organization among elongated (rod-shaped and filamentous) plant viruses have been analyzed. Sequences in coding and noncoding regions of barley stripe mosaic virus (BSMV) RNAs 1, 2, and 3 were compared with those of the monopartite RNA genomes of potato virus X (PVX), white clover mosaic virus (WClMV), and tobacco mosaic virus, the bipartite genome of tobacco rattle virus (TRV), the quadripartite genome of beet necrotic yellow vein virus (BNYVV), and icosahedral tricornaviruses. These plant viruses belong to a supergroup having 5′-capped genomic RNAs. The results suggest that the genomic elements in each BSMV RNA are phylogenetically related to those of different plant RNA viruses. RNA 1 resembles the corresponding RNA 1 of tricornaviruses. The putative proteins encoded in BSMV RNA 2 are related to the products of BNYVV RNA 2, PVX RNA, and WClMV RNA. Amino acid sequence comparisons suggest that BSMV RNA 3 resembles TRV RNA 1. Also, it can be proposed that in the case of monopartite genomes, as a rule, every gene or block of genes retains phylogenetic relationships that are independent of adjacent genomic elements of the same RNA. Such differential evolution of individual elements of one and the same viral genome implies a prominent role for gene reassortment in the formation of viral genetic systems.
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  • 51
    ISSN: 1432-1432
    Keywords: Carcinoembryonic antigen ; Evolution ; Gene family ; Human ; Rat ; Synonymous substitutions ; Silent molecular clock ; Evolutionary trees
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    Topics: Biology
    Notes: Summary Various rodent and primate DNAs exhibit a stronger intra- than interspecies cross-hybridization with probes derived from the N-terminal domain exons of human and rat carcinoembryonic antigen (CEA)-like genes. Southern analyses also reveal that the human and rat CEA gene families are of similar complexity. We counted at least 10 different genes per human haploid genome. In the rat, approximately seven to nine different N-terminal domain exons that presumably represent different genes appear to be present. We were able to assign the corresponding genomic restriction endonuclease fragments to already isolated CEA gene family members of both human and rat. Highly similar subgroups, as found within the human CEA gene family, seem to be absent from the rat genome. Hybridization with an intron probe from the human nonspecific cross-reacting antigen (NCA) gene and analysis of DNA sequence data indicate the conservation of noncoding regions among CEA-like genes within primates, implicating that whole gene units may have been duplicated. With the help of a computer program and by calculating the rate of synonymous substitutions, evolutionary trees have been derived. From this, we propose that an independent parallel evolution, leading to different CEA gene families, must have taken place in, at least, the primate and rodent orders.
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  • 52
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    Journal of molecular evolution 29 (1989), S. 180-187 
    ISSN: 1432-1432
    Keywords: Divergence ; Mitochondrial DNA ; Molecular evolution ; Constraints ; Two-parameter model ; Evolutionary distance ; Evolution ; Mutation ; Neutral space ; Variable positions
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    Topics: Biology
    Notes: Summary Selective constraints on DNA sequence change were incorporated into a model of DNA divergence by restricting substitutions to a subset of nucleotide positions. A simple model showed that both mutation rate and the fraction of nucleotide positions free to vary are strong determinants of DNA divergence over time. When divergence between two species approaches the fraction of positions free to vary, standard methods that correct for multiple mutations yield severe underestimates of the number of substitutions per site. A modified method appropriate for use with DNA sequence, restriction site, or thermal renaturation data is derived taking this fraction into account. The model also showed that the ratio of divergence in two gene classes (e.g., nuclear and mitochondrial) may vary widely over time even if the ratio of mutation rates remains constant. DNA sequence divergence data are used increasingly to detect differences in rates of molecular evolution. Often, variation in divergence rate is assumed to represent variation in mutation rate. The present model suggests that differing divergence rates among comparisons (either among gene classes or taxa) should be interpreted cautiously. Differences in the fraction of nucleotide positions free to vary can serve as an important alternative hypothesis to explain differences in DNA divergence rates.
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  • 53
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    Journal of molecular evolution 29 (1989), S. 233-245 
    ISSN: 1432-1432
    Keywords: Mitochondrial DNA ; Salmonids ; Nucleotide sequence ; Transitions ; Transversions ; Evolution
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    Topics: Biology
    Notes: Summary Sequence comparisons were made from 2214 bp of mitochondrial DNA cloned from six Pacific salmonid species. These sequences include the genes for ATPase subunit 6, cytochrome oxidase subunit 3, NADH dehydrogenase subunit 3, NADH dehydrogenase subunit 4L, tRNAGLY, and tRNAARG. Variation is found at 338 silent and 12 nonsilent positions of protein coding genes and 10 positions in the two tRNA sequences. A single 3-bp length difference was also detected. In all pairwise comparisons the sequence divergence observed in the fragment was higher than that previously predicted by restriction enzyme analysis of the entire molecule. The inferred evolutionary relationship of these species is consistent between methods. The distribution of silent variation shows a complex pattern with greatly reduced variation at the junctions of genes. The variation in the tRNA sequences is concentrated in the DHU loop. The close relationship of these species and extensive sequence analyzed allows for an analysis of the spectrum of substitutions that includes the frequencies of all 12 possible substitutions. The observed spectrum of substitutions is related to potential pathways of spontaneous substitution. The salmonid sequences show an extremely high ratio of silent to replacement substitutions. In addition the amino acid sequences of the four proteins coded in this fragment show a consistently high level of identity with theXenopus sequences. Taken together these data are consistent with a slower rate of amino acid substitution among the cold-blooded vertebrates when compared to mammals.
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  • 54
    ISSN: 1432-1432
    Keywords: α-Conotoxin ; α-Neurotoxin ; Erabutoxin b ; Evolution ; Venom
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    Topics: Biology
    Notes: Summary α-neurotoxins from elapid snake venoms andα-conotoxins from marine snails bind specifically and with high affinity to nicotinic cholinoceptors. Although both types of toxin are polypeptides, there is more than a fourfold difference in size between the two and no clear sequence homology is evident. A systematic computer search of the three-dimensional structure of erabutoxin b (anα-neurotoxin from the false sea snakeLaticauda semifasciata) was performed to identify the locality that most closely matched the amino acid compositions of the smallerα-conotoxins (from the marine snailsConus magus andConus geographus). The area of greatest similarity centered on residue position 25 of erabutoxin b, a locale that is conserved throughout the snakeα-neurotoxins and their homologues. Six Proteins unrelated to erabutoxin b were compared to theα-conotoxins to show that the extent of the erabutoxin b/α-conotoxin match was too high to be coincidental. Homologues of erabutoxin b, namelyα-cobratoxin fromNaja naja siamensis and cytotoxin VII4 fromNaja mossambica mossambica, were also analyzed. The extent of the matching with theα-conotoxins decreased in the series erabutoxin b〉α-cobratoxin〉cytotoxin VII4, and this also relates the order of similarity to the pharmacological properties of theα-conotoxins. Theα-conotoxin-like area of the snakeα-neurotoxins is peripheral to the site previously considered important for binding to the cholinoceptor, even though it seems to represent the focus of evolutionary convergence between the two types of neurotoxin. The area of resemblance does, however, have strong associations with the conformational behavior of the snake toxins. Hence, the outcome of this study has important consequences for the current ideas on snakeα-neurotoxin structure/activity relationships and the evolutionary origins of neurotoxicity.
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    Journal of molecular evolution 1 (1972), S. 270-272 
    ISSN: 1432-1432
    Keywords: DNA Sequences ; Evolution ; Repetition ; Phylogenesis ; Ageing
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    Journal of molecular evolution 2 (1973), S. 181-186 
    ISSN: 1432-1432
    Keywords: Hemoglobin ; Evolution ; Mutation ; Fixation
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    Notes: Summary The distribution of human hemoglobin variants has previously been studied by Vogel (1972) who concluded that the distribution was random although no statistical analysis was presented. This work points out that there are four biases in the data, one in the manner in which the number of variants is counted, another in the method by which they are detected and which favors charge changes, a third in the fact that for a few codons the same amino acid replacement may be brought about by two or three single nucleotide replacements, and a fourth in the non-random sampling procedure which favors variants producing clinical symptoms. Nevertheless, the distribution of beta hemoglobin variants is confirmed to be random as Vogel suggests. The alpha hemoglobin variants are distinctly non-randomly distributed, the best fit requiring that 69 of the alpha positions be considered invariable. The above biases could account for this result but other considerations combine to suggest the following: 1, about half of all alterations of alpha hemoglobin will not survive to sampling whereas nearly all beta variants can; 2, deleterious mutants that survive to sampling but are destined to be eliminated by selection are more likely to be observed in beta than in alpha hemoglobin; and 3, mutations destined to go to fixation are more likely to occur in beta than in alpha hemoglobin.
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    Journal of molecular evolution 2 (1972), S. 17-27 
    ISSN: 1432-1432
    Keywords: Proteins, periodic ; Origin ; Evolution
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    Notes: Summary Silk fibroin, collagen, “freezing point depressing” glycoproteins, keratin and protamines have periodic amino acid sequences which are unlikely to have arisen by amino acid replacements and internal duplications of non-periodic DNA. Evidence here discussed suggests that such proteins arise by a single evolutionary event, an iterativede novo synthesis of DNA.
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    Journal of molecular evolution 2 (1972), S. 44-55 
    ISSN: 1432-1432
    Keywords: rRNA-Base Composition ; Evolution
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    Notes: Summary Base composition analysis has been carried out for the two major ribosomal RNA components extracted from ribosomes of plants and animals of various taxonomic position. The high degree of change undergone by these molecules during evolution is evident from the results obtained. Moreover, the evolutionary pattern of therRNA base composition well reflects the phylogenetic relationships of the various taxonomic groups.
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    Journal of molecular evolution 2 (1973), S. 205-208 
    ISSN: 1432-1432
    Keywords: Nucleic Acid ; Evolution ; Growing Point ; Templating ; Alternating Sequence Polypeptide
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    Topics: Biology
    Notes: Summary Our concept of nucleic acid replication does not explain the movement in that process—i.e., the existence of a socalled “growing point”. This omission may manifest itself in a failure to understand primitive nucleic acid replication. The latter may not be merely a “templating” process. Primitive nucleic acid replication is postulated to involve a particular type of peptide that establishes a “growing point”—a polypeptide in whichalternate amino acid residues are basic. Possible interactions of such a peptide with single and double stranded nucleic acid and its possible mode(s) of synthesis in a primitive environment are discussed.
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  • 60
    ISSN: 1432-1432
    Keywords: Evolution ; 5S Ribosomal RNA sequences ; Arthropoda ; Secondary structure
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    Notes: Summary 5S Ribosomal RNA sequences have proven to be useful tools in the study of evolutionary relationships among species. However, in reviewing previously published trees constructed from alignments of metazoan 5S RNAs, we noticed several discrepancies with classical evolutionary views. One such discrepancy concerned the phylum Arthropoda, where a crustacean,Artemia salina, seemed to be evolutionarily very remote from four insects. The cause of this phenomenon was studied by determining the 5S RNA sequences of additional arthropods, viz.Limulus polyphemus, Eurypelma californica, Lasiodora erythrocythara, Areneus diadematus, Daphnia magna, Ligia oceanica, Homarus gammarus, Cancer pagurus, Spirobolus sp.,Locusta migratoria, andTenebrio molitor. A tree was then constructed from a dissimilarity matrix by a clustering method known as weighted pair grouping. Application of a correction for unequal evolutionary rates improved the apparent evolutionary position of the arthropods and of some other metazoan species. However, neither the uncorrected nor the corrected tree permitted a completely acceptable reconstruction of metazoan evolution. We presume that this phenomenon is due to random deviations in the evolutionary rate of 5S RNA.
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  • 61
    ISSN: 1432-1432
    Keywords: Glycoprotein ; Evolution ; Ribonuclease
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    Notes: Summary The glycosylation characteristics of the digestive enzyme ribonuclease are summarized. The evolutionary role of this posttranslational modification is discussed and evidence is presented that selection has much influence on the presence or absence of carbohydrate in glycoproteins and on the positions of the carbohydrate attachment sites.
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  • 62
    ISSN: 1432-1432
    Keywords: Ribosomal RNAs ; Cross-hybridization ; Hybridization yield ; Fractional hybridization ; Hybridization homology ; Phylogenetic tree ; Phylogeny ; Evolution ; Archaebacteria
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    Notes: Summary Ribosomal RNAs of 17 species of archaebacteria were hybridized to corresponding and non-corresponding nitrocellulose bound DNAs. The temperature stability of these hybrids and the amount of bound rRNA were determined. A formula was derived to correct the hybridization yields for the different genome lengths and numbers of rRNA operons per genome. This correction made it possible to determine hybridization homologies, as functions of velocity constants, which could then be used in a similar way as sequence homologies. The results were consistent with those from 16S rRNA total sequence data. No correlation was found between the hybridization homologies and the temperature stabilities of the hybrids. This new method is faster and simpler than the method based on total 16S rRNA sequence determination although it provides less total information. Its application to archaebacterial phylogeny has shown theThermococcales to represent a third branch of the kingdom beside the branch of the methanogens + halophiles, and that of theThermoproteales + Sulfolobales. The method has also provided a detailed description of the phylogeny of theSulfolobales showing their origin within theThermoproteales.
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    Journal of molecular evolution 24 (1987), S. 228-235 
    ISSN: 1432-1432
    Keywords: 5S RNA ; Correspondence analysis ; Multivariate statistics ; Evolution ; Phylogeny
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    Topics: Biology
    Notes: Summary Correspondence analysis (a form of multivariate statistics) applied to 74 5S ribosomal RNA sequences indicates that the sequences are interrelated in a systematic, nonrandom fashion. Aligned sequences are represented as vectors in a 5N-dimensional space, where N is the number of base positions in the 5S RNA molecule. Mutually orthogonal directions (called factor axes) along which intersequence variance is greatest are defined in this hyperspace. Projection of the sequences onto planes defined by these factorial directions reveals clustering of species that is suggestive of phylogenetic relationships. For each factorial direction, correspondence analysis points to regions of “importance”, i.e., those base positions at which the systematic changes occur that define that particular direction. In effect, the technique provides a rapid determination of group-specific signatures. In several instances, similarities between sequences are indicated that have only recently been inferred from visual base-to-base comparisons. These results suggest that correspondence analysis may provide a valuable starting point from which to uncover the patterns of change underlying the evolution of a macromolecule, such as 5S RNA.
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    Journal of molecular evolution 24 (1987), S. 236-251 
    ISSN: 1432-1432
    Keywords: 28S rRNA ; RNA secondary structure ; Evolution ; Ribosome ; Translation
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    Topics: Biology
    Notes: Summary We have determined the secondary structure of the human 28S rRNA molecule based on comparative analysis of available eukaryotic cytoplasmic and prokaryotic large-rRNA gene sequences. Examination of large-rRNA sequences of both distantly and closely related species has enabled us to derive a structure that accounts both for highly conserved sequence tracts and for previously unanalyzed variable-sequence tracts that account for the evolutionary differences in size among the large rRNAs. Human 28S rRNA is composed of two different types of sequence tracts: conserved and variable. They differ in composition, degree of conservation, and evolution. The conserved regions demonstrate a striking constancy of size and sequence. We have confirmed that the conserved regions of large-rRNA molecules are capable of forming structures that are superimposable on one another. The variable regions contain the sequences responsible for the 83% increase in size of the human large-rRNA molecule over that ofEscherichia coli. Their locations in the gene are maintained during evolution. They are G+C rich and largely nonhomologous, contain simple repetitive sequences, appear to evolve by frequent recombinational events, and are capable of forming large, stable hairpins. The secondary-structure model presented here is in close agreement with existing prokaryotic 23S rRNA secondary-structure models. The introduction of this model helps resolve differences between previously proposed prokaryotic and eukaryotic large-rRNA secondary-structure models.
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    Journal of molecular evolution 25 (1987), S. 15-19 
    ISSN: 1432-1432
    Keywords: β-Turns ; Secondary structures ; Chirality ; Genetic code ; Biosynthetic pathways ; Evolution
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    Topics: Biology
    Notes: Summary The physicochemical properties of β-turns suggest their biological importance prior to the formation of the genetic code. These properties include ones potentially affecting the preference for eitherl- ord-amino acids. The abundance of certain amino acids in β-turns is correlated with their assignment to a small, well-defined part of the genetic code and with their role as metabolic precursors for other amino acids. It is proposed that in the prebiotic environment, β-turns became objects of selection that influenced the evolution of the genetic code and biosynthetic pathways for amino acids.
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  • 66
    ISSN: 1432-1432
    Keywords: Balbiani rings ; Evolution ; Immunological detection ; Nucleotide sequence ; 3′ End
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    Notes: Summary Two cDNA clones representing the 3′-end regions of BR1 and BR2 75S mRNA were obtained fromChironomus pallidivittatus. The regular structure characterizing the core of these genes, consisting of tandemly arranged repeat units, changes into a more irregular structure toward the 3′ end. Distal to a standard type of repeat unit with a characteristic excess of positive charges, a new type of repeat with a high, negative charge density is interspersed among parts of the standard unit. The last 111 amino acids before the stop codon represent a unique region distinctly different in amino acid composition from upstream regions, and include two partially homologous hydrophobic regions. Sequence comparison of 3′-end regions from clones representing BR1 and BR2 genes indicates striking sequence conservation in the unique part of the region. Analysis of the level of silent site divergence shows that the homology increases in the 3′ direction up to the polyadenylation site. That the unique region is retained as a part of the secreted protein is shown by Western blotting.
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  • 67
    ISSN: 1432-1432
    Keywords: Histone genes ; Echinoderms ; Maternal mRNA ; Development ; Evolution
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    Topics: Biology
    Notes: Summary The organization and maternal expression of histone genes differ greatly between the two echinoderm classes represented by the sea stars and sea urchins. We have isolated and characterized a 5.3-kb genomic DNA fragment encoding core histone genes in the sea starPisaster ochraceus. The majority of histone genes are organized as tandem repeats of the 5.3-kb fragment, which is present in as many as 700 copies per haploid genome. The identity, precise location, and transcriptional polarity of individual core histone genes within the repeat were determined by DNA sequence analyses. The gene order in the sea star (H2B, H2A, H4, H3) is different from that in sea urchins (H2B, H3, H2A, H4). What is remarkable is the low level of maternal histone mRNA inP. ochraceus eggs relative to that in sea urchins. This observation supports a recent suggestion that major changes in mode of gene expression, rather than in gene organization or copy number, can be correlated with major events in echinoderm evolution.
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    Journal of molecular evolution 25 (1987), S. 81-88 
    ISSN: 1432-1432
    Keywords: Glutathione ; Evolution ; Phototrophic microorganisms ; Oxygen toxicity
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    Topics: Biology
    Notes: Summary Of the many roles ascribed to glutathione (GSH) the one most clearly established is its role in the protection of higher eucaryotes against oxygen toxicity through destruction of thiol-reactive oxygen byproducts. If this is the primary function of GSH then GSH metabolism should have evolved during or after the evolution of oxygenic photosynthesis. That many bacteria do not produce GSH is consistent with this view. In the present study we have examined the low-molecular-weight thiol composition of a variety of phototrophic microorganisms to ascertain how evolution of GSH production is related to evolution of oxygenic photosynthesis. Cells were extracted in the presence of monobromobimane (mBBr) to convert thiols to fluorescent derivatives, which were analyzed by highpressure liquid chromatography. Significant levels of GSH were not found in the green bacteria (Chlorobium thiosulfatophilum andChloroflexus aurantiacus). Substantial levels of GSH were present in the purple bacteria (Chromatium vinosum, Rhodospirillum rubrum, Rhodobacter sphaeroides, andRhodocyclus gelatinosa), the cyanobacteria [Anacystis nidulans, Microcoleus chthonoplastes S.G., Nostoc muscorum, Oscillatoria amphigranulata, Oscillatoria limnetica, Oscillatoria sp. (Stinky Spring, Utah),Oscillatoria terebriformis, Plectonema boryanum, andSynechococcus lividus], and eucaryotic algae (Chlorella pyrenoidsa, Chlorella vulgaris, Euglena gracilis, Scenedesmus obliquus, andChlamydomonas reinhardtii). Other thiols measured included cysteine, γ-glutamylcysteine, thiosulfate, coenzyme A, and sulfide; several unidentified thiols were also detected. Many of the organisms examined also exhibited a marked ability to reduce mBBr to syn-(methyl,methyl)bimane, an ability that was quenched by treatment with 2-pyridyl disulfide or 5,5′-bisdithio-(2-nitrobenzoic acid) prior to reaction with mBBR. These observations indicate the presence of a reducing system capable of electron transfer to mBBr and reduction of reactive disulfides. The distribution of GSH in phototrophic eubacteria indicates that GSH synthesis evolved at or around the time that oxygenic photosynthesis evolved.
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    Journal of molecular evolution 4 (1974), S. 113-120 
    ISSN: 1432-1432
    Keywords: Bioelement ; Evolution ; Sea water ; Molybdenum ; Chromium
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    Topics: Biology
    Notes: Summary Minor elements such as molybdenum and iron are essential elements or “bioelements” for microorganisms, plants, and higher animals. However, chromium is not regarded as a bioelement in the same sense. This may be explained by their relative concentrations in the sea water. Molybdenum is the most abundant of the transition elements in sea water. Its participation in different oxido-reductases such as nitrogenase, nitrate reductase, and CO2 reductase of primitive bacteria could be related to its abundance. Good correlation can be found between the biological behaviour of different elements and their concentration in sea water. This suggests the hypothesis that the composition of the present sea water reflects that of the primeval sea water at the time of the evolution of these enzyme systems. A concentration in the sea of about 1~5 nM may be regarded as “critical”. Elements with concentrations in sea water above this critical concentration could influence early evolutionary events, and so became either essential elements or neutral elements; organisms evolved independently of trace elements with concentrations less than the critical concentration.
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    Nutrient cycling in agroecosystems 20 (1989), S. 59-66 
    ISSN: 1573-0867
    Keywords: Ammonia volatilization ; nitrogen leaching ; denitrification ; time of N application ; wheat ; Triticum aestivum ; Triticale ; irrigation
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    Topics: Agriculture, Forestry, Horticulture, Fishery, Domestic Science, Nutrition
    Notes: Abstract Grain yield, nitrogen (N) assimilation, ammonia (NH3) volatilization, denitrification and fertilizer N distribution were examined in three commercially grown cereal crops; two were sown into conventionally tilled fields, while the third was direct drilled into an untilled field. The crops were top dressed with urea at establishment, tillering or ear initiation. Crop yield and N assimilation were measured in 16 m by 2.5 m plots receiving 0, 35, 70, 105, 140 or 175 kg N ha−1. A mass balance micrometeorological technique was used to measure NH3 volatilization, and other fertilizer N transformations and transfers were studied using15N labelled urea in microplots. On the conventionally tilled sites application of urea increased the grain yield of wheat from 3.9 to 5.5 t ha−1, when averaged over the five application rates, three application times and two sites. There were no site or application time effects. However, on the direct drilled site, time of application had a significant effect on grain yield. When urea was applied at establishment, grain yield was not significantly increased and the mean yield (2.81 t ha−1) was less than that obtained from treatments fertilized at tillering or ear initiation (4.09 and 4.0 t ha−1, respectively). Much of the variation in grain yield at the no-till site could be ascribed to differences in NH3 volatilization. At the no-till site, NH3 losses were equivalent to 24, 12 and 1% of the N applied at establishment, tillering and ear initiation, respectively. Negligible volatilization of NH3 occurred at the other sites. The surface soil at the no-till site had the highest urease activity and the soil was covered with alkaline ash resulting from stubble burning. Plant recovery of fertilizer N did not vary with application time on conventionally tilled sites (mean 62%). However, plant recovery of15N applied to the no-till site at establishment (35% of the applied N) was significantly less than that from plots where the application was delayed (45% at tillering and 55% at ear initiation, respectively). Leaching of N to below 300 mm depth was minimal (0 to 5% of the applied N). The calculated denitrification losses ranged from 1% to 14% of the applied N. The results show that the relative importance of NH3 volatilization, leaching and denitrification varied with site and fertilization time. The importance of the various N loss mechanisms needs to be taken into account when N fertilization strategies are being developed.
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  • 71
    ISSN: 1420-9071
    Keywords: Evolution ; receptors ; plant hormones
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    Topics: Biology , Medicine
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    Oecologia 72 (1987), S. 69-76 
    ISSN: 1432-1939
    Keywords: Cabbage butterfly ; Pieris rapae ; Evolution ; Adaptation ; Colonisation
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Summary Australian and U.K. Pieris rapae differ markedly in their oviposition behaviour; U.K. females produce a more aggregated egg distribution, and lay their eggs more quickly, than do Australian females. The adaptive reason for this divergence probably lies in the relative costs of increased flight time (more costly in the U.K.) and increased local crowding (more costly in Australia). There is also a strong relationship between juvenile developmental rate (at constant temperature) and oviposition behaviour, but the form of this relationship differed between the two populations. The adaptive reasons for the link between developmental rate and behaviour is not clear. It may be that this link represents the tip of the iceberg; i.e. that physiological, developmental, and behabioral characters all co-vary in ways and for reasons that we do not yet understand.
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    Sexual plant reproduction 1 (1988), S. 217-222 
    ISSN: 1432-2145
    Keywords: Triticum aestivum ; Cytology ; In vitroandrogenesis ; Fluorescent microscopy
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Summary Two winter wheat genotypes (‘Diószegi 200’ and ‘Mv 15’) were compared for their in vitro androgenic capacity. On average, the induction frequency of embryogenic structures was 71.7% in ‘Diószegi 200’ and only 4.3% in ‘Mv 15’. The haploid induction ability of the two genotypes differed considerably, with ‘Diószegi 200’ being much higher. The difference in the in vitro inductability of the microspores may result from genetic differences which are manifested in the survival rate of the microspores during the culture period and their adaptability to in vitro conditions. Special DNA fluorochrornes were suitable for studying the different pathways of in vitro androgenesis. Our data indicate that the repeated equal divisions of the microspore nucleus might lead to pollen embryo formation, and subsequent divisions of the vegetative portion of the pollen grain after the first asymmetric microspore mitosis can result in pollen callus formation.
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  • 74
    ISSN: 1432-2145
    Keywords: Pollen development ; Triticum aestivum ; RH0007
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Summary A study of pollen development in wheat was made using transmission electron microscopy (TEM). Microspores contain undifferentiated plastids and mitochondria that are dividing. Vacuolation occurs, probably due to the coalescence of small vacuoles budded off the endoplasmic reticulum (ER). As the pollen grain is formed and matures, the ER becomes distended with deposits of granular storage material. Mitochondria proliferate and become filled with cristae. Similarly, plastids divide and accumulate starch. The exine wall is deposited at a rapid rate throughout development, and the precursors appear to be synthesized in the tapetum. Tapetal cells become binucleate during the meiosis stage, and Ubisch bodies form on the plasma membrane surface that faces the locule. Tapetal plastids become surrounded by an electron-translucent halo. Rough ER is associated with the halo around the plastids and with the plasma membrane. We hypothesize that the sporopollenin precursors for both the Ubisch bodies and exine pollen wall are synthesized in the tapetal plastids and are transported to the tapetal cell surface via the ER. The microspore plastids appear to be involved in activities other than precursor synthesis: plastid proliferation in young microspores, and starch synthesis later in development. Plants treated with the chemical hybridizing agent RH0007 show a pattern of development similar to that shown by untreated control plants through the meiosis stage. In the young microspore stage the exine wall is deposited irregularly and is thinner than that of control plants. In many cases the microspores are seen to have wavy contours. With the onset of vacuolation, microspores become plasmolyzed and abort. The tapetal cells in RH0007-treated locules divide normally through the meiosis stage. Less sporopollenin is deposited in the Ubisch bodies, and the pattern is less regular than that of the control. In many cases, the tapetal cells expand into the locule. At the base of one of the locules treated with a dosage of RH0007 that causes 95% male sterility, several microspores survived and developed into pollen grains that were sterile. The conditions at the base of the locule may have reduced the osmotic stress on the microspores, allowing them to survive. Preliminary work showed that the extractable quantity of carotenoids in RHOOO7-treated anthers was slightly greater than in controls. We concluded that RH0007 appears to interfere with the polymerization of carotenoid precursors into the exine wall and Ubisch bodies, rather than interfering with the synthesis of the precursors.
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  • 75
    ISSN: 1432-0983
    Keywords: Crithidia fasciculata ; rRNA ; Sequence ; Evolution
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Summary We present the cloning and sequence analysis of the nuclear-encoded Crithidia fasciculata small subunit (SSU) rRNA gene, the longest (2,206 bp) such gene yet characterized by direct sequence analysis. Much of the sequence can be folded to fit a phylogenetically conserved secondary structure model, with the additional length of this gene being accommodated within discrete variable domains that are present in eukaryotic SSU rRNAs. On the basis of sequence comparisons, we conclude that Crithidia contains the most highly diverged SSU rRNA described to date among the eukaryotes, and therefore represents one of the earliest branchings within the eukaryotic primary kingdom.
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  • 76
    ISSN: 1432-0983
    Keywords: ATP synthase β ; Selective constraint ; mtDNA ; Evolution
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract We have cloned and sequenced human and bovine cDNAs for the β subunit of the ATP synthase (ATP-synß), a nuclear DNA (nDNA) encoded oxidative phosphorylation (OXPHOS) gene. The two cDNAs were found to share 99% amino acid homology and 94% nucleotide homology. The evolutionary rate of ATPsynß was then compared with that of two mitochondrial DNA (mtDNA) ATP synthase genes (ATPase 6 and 8), seven other mtDNA OXPHOS genes, and a number of nuclear genes. The synonymous substitution rate for ATPsynß proved to be 1.9 × 10−9 substitutions per site per year (substitutions × site−1 × year−1) (SSY). This is less than 1/2 that of the average nDNA gene, 1/12 the rate of ATPase 6 and 8, and 1/17 the rate of the average mtDNA gene. The synonymous and replacement substitution rates were used to calculate a new parameter, the “selective constraint ratio”. This revealed that even the most variable mtDNA protein was more constrained than the average nDNA protein. Thus, the high substitution mutation rate and strong selective constraints of mammalian mtDNA proteins suggest that mtDNA mutations may result in a disproportionately large number of human hereditary diseases of OXPHOS.
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  • 77
    ISSN: 1432-0983
    Keywords: Triticum aestivum ; Tissue culture ; Mitochondrial DNA ; Genomic variability
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Summary Wheat mitochondria) DNA has been isolated from callus cultures initiated from both immature embryos and the corresponding parental cultivar. A Sall restriction pattern study has shown that the organization of callus culture mitochondria) DNA underwent extensive change, characterized by either the disappearance or the decrease in the relative stoichiometry of several restriction bands. Hybridization of labelled mitochondrial fragments obtained from a recombinant cosmid library to Southern blots of callus and parental line restricted mitochondria) DNAs has shown that a fraction of the mitochondria) genome was lost in callus cultures. Data from a Sall + HindIII restriction map of a defined part of the wheat mitochondria) genome concerned with some of these variations strongly suggest that the observed variations correspond to the disappearance of at least one mitochondria) DNA subgenomic molecule in callus cultures.
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  • 78
    ISSN: 1432-0789
    Keywords: Rhizosphere bacteria ; Nitrogenase activity ; Triticum aestivum ; Inoculation
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Geosciences , Agriculture, Forestry, Horticulture, Fishery, Domestic Science, Nutrition
    Notes: Summary Wheat seedlings were inoculated with rhizosphere nitrogen-fixing bacteria and grown gnotobiotically for 15 days. The growth medium consisted of semisolid agar with or without plant nutrients. The bacteria, isolated from roots of field-grown wheat, were three unidentified Gram-negative rods (A1, A2, E1), one Enterobacter agglomerans (C1) and two Bacillus polymyxa (B1, B2). A strain of Azospirillum brasilense (USA 10) was included for comparison. Nitrogenase activity (acetylene reduction activity, ARA) was tested on intact plants after 8 and 15 days of growth. In semisolid agar without plant nutrients, five isolates showed ARA of 0.01–0.9 nmol C2H4 plant−1 h−1, while the two strains of B. polymyxa had higher ARA of 3.3–10.6 nmol C2H4 plant−1 h−1. Plant development was not affected by inoculation with bacteria, except that inoculation with B. polymyxa resulted in shorter shoots and lower root weight. Transmission electronmicroscopy of roots revealed different degrees of infection. A. brasilense, A1 and A2, occurred mainly in the mucilage on the root surface and between outer epidermal cells (low infectivity). B. polymyxa strains and E1 were found in and between epidermal cells (intermediate infectivity) while E. agglomerans invaded the cortex and was occasionally found within the stele (high infectivity).
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  • 79
    ISSN: 1432-072X
    Keywords: Sporomusa ; Sporomusa ovata ; Sporomusa sphaeroides ; Selenomonas ruminantium ; Megasphoera elsdenii ; Phylogeny of Gram-positive eubacteria ; Evolution ; 16S rRNA cataloguing
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract In order to determine the phylogenetic relationships of representatives of three Gram-negative genera, Sporomusa, Selenomonas, and Megasphaera, the 16S ribosomal RNAs were compared by oligonucleotide cataloguing. Surprisingly, Sporomusa ovata, S. sphaeroides, Selenomonas ruminantium, and Megasphaera elsdenii do not group with any of the 200 Gram-negative eubacterial species investigated so far by this method but show a distinct although remote relationship to Gram-positive eubacteria of the “Clostridium subdivision”. The presence of Gram-negative species within the radiation of the cluster defined by Gram-positive cubacteria reduces the significance the Gram-positive staining behaviour plays in taxonomic and phylogenetic studies. It furthermore supports previous findings showing the Gram-negative and phototrophic species Heliobacterium chlorum to be a member of the Clostridium-Bacillus cluster. The presence of Gram-negative endospore-containing Sporomusa species among the 16S rRNA cluster of Gram-positive endospore-forming eubacteria allow speculations about the evolutionary origin of Gram-positive eubacteria.
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  • 80
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    Archives of microbiology 151 (1989), S. 454-458 
    ISSN: 1432-072X
    Keywords: Photosynthesis ; Photosynthetic bacteria ; Evolution ; Bacteriochlorophyll ; Reaction centres ; Light harvesting
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract 1) A number of overlapping clones have been isolated from a Rhodobacter sphaeroides gene bank. Following conjugative gene transfer from Escherichia coli these clones restore a wild type phenotype to several mutants unable to synthesise bacteriochlorophyll. 2) The insert DNA was analysed by restriction mapping and together the clones form the basis of the first restriction map of the 45 kb photosynthetic gene cluster of Rb. sphaeroides. 3) This cluster is bounded on one side by puh A encoding the reaction centre H polypeptide and on the other by the puf operon encoding reaction centre L and M apoproteins and light harvesting LH1 and polypeptides. 4) DNA fragments from the 45 kb cluster were used to probe genomic DNA from other photosynthetic bacteria. Using heterologous hybridisation conditions, a significant degree of homology is shown between Rb. sphaeroides and these other bacteria, suggesting close evolutionary links with Rb. capsulatus in particular.
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  • 81
    ISSN: 1432-072X
    Keywords: Eubacteria ; Evolution ; Extreme thermophile ; Thermotoga
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract Three new strains of eubacterial hyperthermophiles were isolated from continental solfataric springs at Lac Abbé (Djibouti, Africa). Due to their morphology, lipids, and RNA polymerases they belong to the genus Thermotoga. Strains LA4 and LA10 are closely related to Thermotoga neapolitana found up to now only in the marine environment. Strain LA 3 differs from Thermotoga maritima and Thermotoga neapolitana in significant physiological and molecular properties. It is described as the new species Thermotoga thermarum.
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  • 82
    ISSN: 1432-072X
    Keywords: Evolution ; Nif genes ; Nitrogen fixation ; Nitrogenase ; Nucleotide sequence ; Phylogeny ; Rhizobium ; 16S rRNA cataloguing
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract It was known that nitrogenase genes and proteins are well conserved even though they are present in a large variety of phylogenetically diverse nitrogen fixing bacteria. This has lead to the speculation, among others, that nitrogen fixation (nif) genes were spread by lateral gene transfer relatively late in evolution. Here we report an attempt to test this hypothesis. We had previously established the complete nucleotide sequences of the three nitrogenase genes from Bradyrhizobium japonicum, and have now analyzed their homologies (or the amino acid sequence homologies of their gene products) with corresponding genes (and proteins) from other nitrogen fixing bacteria. There was a considerable sequence conservation which certainly reflects the strict structural requirements of the nitrogenase iron-sulfur proteins for catalytic functioning. Despite this, the sequences were divergent enough to classify them into an evolutionary scheme that was conceptually not different from the phylogenetic positions, based on 16S rRNA homology, of the species or genera harboring these genes. Only the relation of nif genes of slow-growing rhizobia (to which B. japonicum belongs) and fast-growing rhizobia was unexpectedly distant. We have, therefore, performed oligonucleotide cataloguing of their 16S rRNA, and found that there was indeed only a similarity of S AB=0.53 between fast- and slowgrowing rhizobia. In conclusion, the results suggest that nif genes may have evolved to a large degree in a similar fashion as the bacteria which carry them. This interpretation would speak against the idea of a recent lateral distribution of nif genes among microorganisms.
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  • 83
    ISSN: 1432-072X
    Keywords: Evolution ; Eubacteria ; Thermophile ; Anaerobe ; Thermotoga maritima
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract A novel type of bacterium has been isolated from various geothermally heated locales on the sea floor. The organisms are strictly anaerobic, rod-shaped, fermentative, extremely thermophilic and grow between 55 and 90°C with an optimum of around 80°C. Cells show a unique sheath-like structure and monotrichous flagellation. By 16S rRNA sequencing they clearly belong to the eubacteria, although no close relationship to any known group could be detected. The majority of their lipids appear to be unique in structure among the eubacteria. Isolate MSB8 is described as Thermotoga maritima, representing the new genus Thermotoga.
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  • 84
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    Archives of microbiology 150 (1988), S. 56-60 
    ISSN: 1432-072X
    Keywords: Fumarate reduction ; Quinones ; Rhodospirillaceae ; Phototrophic bacteria ; Evolution ; Taxonomy
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract Nineteen established and one undesignated species of the Rhodospirillaceae were examined for fumarate reduction in connection with their quinone systems. The fumarate reductase activity with reduced methyl viologen (MVH) or FMNH2 as electron donor was found in membrane (chromatophore) preparations from phototrophically grown cells of all species containing menaquinone (MK) and/or rhodoquinone. The species having ubiquinone as the sole quinone contained no fumarate reductase activity, except some Rhodobacter species showing the FMNH2-dependent activity. The MVH-fumarate reductase activity of the MK-type species was not inhibited by Triton X-100 or acetone treatment, suggesting the presence of a fumarate reductase reacting directly with MVH, while such an enzyme was absent in the MK-lacking strains, with few exceptions. The FMNH2-fumarate reduction system was abolished by a detergent or acetone extraction in all bacteria but differed much among species with different quinone types as to the response to respiratory inhibitors. These differences in fumarate-reducing properties and quinone systems among the phototrophic bacteria are discussed from evolutionary and taxonomic viewpoints.
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  • 85
    ISSN: 1432-072X
    Keywords: Eubacteria ; Evolution ; Extreme thermophile ; Thermotoga
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract A second species of the extremely thermophilic, eubacterial genus Thermotoga is described as clearly distinguished from the type species Thermotoga maritima by physiological and phylogenetic criteria. It is named Thermotoga neapolitana.
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  • 86
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    Ecological research 2 (1987), S. 175-183 
    ISSN: 1440-1703
    Keywords: Egg size ; Evolution ; Hesperiidae ; Host specificity ; Leaf toughness
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract The adaptive significance of egg size of skippers (Lepidoptera; Hesperiidae) in Japan was evaluated in relation to the leaf toughness of their major host grasses. The hesperids that fed on tougher grasses laid larger eggs. Hesperids that laid larger eggs were larger in body size, but lower in fecundity. They also had a wider host range. Thus, despite the lower fecundity, hesperids may benefit from large eggs by having a wider host range of larvae. Grass feeders had wider range of host plants than broadleaf feeders.
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  • 87
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    Biochemical genetics 24 (1986), S. 435-446 
    ISSN: 1573-4927
    Keywords: superoxide dismutase ; Triticum aestivum ; isozymes ; isoelectric focusing ; structural genes
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Chemistry and Pharmacology
    Notes: Abstract Extracts of mature grains of a large number of aneuploid derivatives of Triticum aestivum cv. Chinese Spring and of the members of five wheat-alien chromosome addition series were subjected to isoelectric focusing in polyacrylamide gels in order to study the genetic control of superoxide dismutase (SOD). Evidence was obtained that homologous structural genes for the mitochondrial form of SOD are located in the long arms of the homoeologous group 2 chromosomes of Chinese Spring and in chromosome 2R of Secale cereale cv. Imperial. The SOD gene loci located in chromosomes 2A, 2B, 2D, and 2R were designated Sod-A1, Sod-B1, Sod-D1, and Sod-R1, respectively. Chromosome-arm pairing data indicate that 2DL is not homoeologous to either 2AS or 2BL. The results of this study suggest, however, that 2BL is partially homoeologous to both 2AL and 2DL.
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  • 88
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    Biochemical genetics 25 (1987), S. 837-846 
    ISSN: 1573-4927
    Keywords: NADH dehydrogenase ; aromatic alcohol dehydrogenase ; Triticum aestivum ; isozymes ; structural genes
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Chemistry and Pharmacology
    Notes: Abstract The genetic control of NADH dehydrogenase-1 (NDH-1) and aromatic alcohol dehydrogenase-2 (AADH-2) was investigated in Triticum aestivum cv. Chinese Spring. Evidence was obtained that NDH-1 is active as a monomer and is encoded by genes located in the p arms of the homoeologous group 4 chromosomes. The NDH-1 gene loci located in 4 Ap, 4Bp, and 4Dp were designated Ndh-A1, Ndh-B1, and Ndh-D1, respectively. Aadh-A2 was previously reported to be located in 6Aq; in this study, Aadh-B2 and Aadh-D2 were localized in 6Bq and 6Dq, respectively. Alcohol dehydrogenase-1 is expressed on AADH-2 zymograms; the presence of a contaminating aliphatic alcohol in one or more reagents is suggested as the probable cause of this phenomenon.
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  • 89
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    Biochemical genetics 26 (1988), S. 287-301 
    ISSN: 1573-4927
    Keywords: shikimate dehydrogenase ; electrophoresis ; isoelectric focusing ; isozymest ; Triticeae ; Triticum aestivum
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Chemistry and Pharmacology
    Notes: Abstract Starch gel electrophoresis and polyacrylamide gel isoelectric focusing (IEF) were used to investigate the genetic control of Triticeae shikimate dehydrogenase-1 (SKDH-1). Studies of wheat-alien species chromosome addition lines established thatSkdh-1 ofHordeum vulgare cv. Betzes is located in chromosome 5H,Skdh-V1 ofDasypyrum villosum in 5V,Skdh-R1 ofSecale cereale cvs. Dakold and King II in 5R, andSkdh-S 11 ofTriticum longissimum in 5S1S. Also, the chromosomal locations of the genes that encode SKDH-1 inT. aestivum cv. Chinese Spring,T. umbellulatum, andS. cereale cv. Imperial, determined earlier using zone electrophoresis, were reconfirmed using IEF. Zone electrophoresis and IEF do not differ markedly in their ability to detect the expression of alienSkdh-1 genes in wheat-alien species chromosome addition lines. However, IEF may be superior to zone electrophoresis as a technique for detecting and analyzing SKDH-1 genetic variants within Triticeae species; among the species studied, IEF generally resolved two or more isozymes perSkdh-1 allele present, while zone electrophoresis resolved only one.
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  • 90
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    Plant molecular biology 11 (1988), S. 311-319 
    ISSN: 1573-5028
    Keywords: chloroplast gene ; iron-sulphur protein ; psaC ; Pisum sativum ; Triticum aestivum
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract The gene for the 8 kDa subunit of photosystem I has been located in the small single copy region of wheat chloroplast DNA by coupled transcription-translation of cloned fragments of DNA and by DNA sequence analysis. The pea gene for this subunit was located in pea chloroplast DNA by using the wheat gene as a probe. The location was confirmed by immunoprecipitation of the products of coupled transcription-translation of cloned DNA with antiserum raised against the small subunits of pea photosystem I and by DNA sequence analysis. The deduced amino acid sequences of the pea and wheat proteins are identical in seventy-six out of the eighty-one amino acid residues. There are nine conserved cysteine residues, eight of which are arranged in the primary structure in a similar way to those in bacterial ferredoxins containing two 4Fe-4S centres, suggesting that the polypeptide binds iron sulphur centres A and B of photosystem I.
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  • 91
    ISSN: 1432-2048
    Keywords: Acetabularia ; Acicularia ; Chlorophyta ; Chloroplast genome ; Dasycladaceae ; Evolution ; Ribulose-1,5-bisphosphate carboxylase (conservatism)
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract In contrast to other plants the plastid genome of Acetabularia is larger in size and shows a high degree of variability. This study on the chloroplast-encoded large subunit of ribulose-1,5-bisphosphate carboxylase/oxygenase demonstrates that strongly conserved areas also exist in the plastid genome of the Dasycladaceae. Searching for differences in the amino acid sequence of the large subunit from Acetabularia mediterranea and Acicularia schenckii, proteolytic peptides which differ in their elution behaviour in reverse-phase high-performance liquid chromatography were sequenced. Only six amino acids were found to be exchanged in the large subunit from these two species. Since these two species diverged approx. 150 million years ago, these results imply that 0.84 amino-acid exchanges per 100 amino acids have occurred in 108 years, underlining the strong conservatism of the large subunit.
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  • 92
    ISSN: 1432-2048
    Keywords: Amyloplast DNA ; DNA accumulation ; Endosperm development ; Triticum aestivum
    Source: Springer Online Journal Archives 1860-2000
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    Notes: Abstract The accumulation of amyloplast DNA during endosperm development was studied in two cultivars of spring wheat, Triticum aestivum L. ‘Chinese Spring’ (CS) and ‘Spica’, small and relatively larger-grained cultivars, respectively. Endosperms were isolated between 9 and 45 days post anthesis (dpa) and the amyloplast DNA content of endosperm nucleic-acid extracts was measured by quantitative hybridisation with a homologous chloroplast-DNA probe. The endosperm cells of CS and Spica accumulated amyloplast DNA during development in a similar way. In both cultivars there was a large increase in the amount of plastid DNA (ptDNA) per endosperm between 9 and about 15 dpa, after which there was no further increase. Because nuclear DNA continued to accumulate until 24 dpa, the percentage contribution of amyloplast DNA to total DNA fluctuated in both cultivars during development, reaching maxima at 12 dpa of about 1.00% and 0.85%, and dropping to apparently constant levels of 0.60% and 0.52% in CS and Spica, respectively, by 24 dpa. In both cultivars, the average number of ptDNA copies per amyloplast was calculated to increase from about 10 copies at 9 dpa to about 50 copies in the mature amyloplasts at 31 dpa. However, the heavier endosperms of Spica contain more cells than those of CS and the varieties therefore differed in the amount of ptDNA that accumulated per endosperm: Spica endosperms accumulated 110 ng of ptDNA by 15 dpa, compared with only 85 ng in CS. The apparent accumulation of ptDNA copies in wheat amyloplasts during endosperm development contrasts with the decline in chloroplast-DNA copies in wheat chloroplasts during leaf development.
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  • 93
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    Journal of mathematical biology 21 (1985), S. 299-306 
    ISSN: 1432-1416
    Keywords: Evolution ; punctuated equilibria ; projection pursuit ; Brownian motion ; pattern recognition
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Mathematics
    Notes: Abstract The evolution of a species can be viewed as a trajectory in multidimensional space. What we perceive is only a low dimensional projection from the total dimensionality necessary to fully describe a species. Motivated by the phenomenon of punctuated equilibria, it is shown that there are projections of gradualistic evolution which will have a punctuated character. However, whether our eyes and minds would choose such a projection of the total phenotype is not resolved.
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  • 94
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    Journal of mathematical biology 25 (1987), S. 393-409 
    ISSN: 1432-1416
    Keywords: Evolution ; Evolutionary stable states ; Games theory ; Linear programming ; Convex polyhedra ; Linear complementarity
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Mathematics
    Notes: Abstract The problem of finding an Evolutionary Stable Strategy (ESS) for an animal species is defined. It is shown how such strategies are a subset of the equilibrium solutions for a particular non-zero sum game. These equilibrium solutions are then shown to arise from the vertices of a particular convex polyhedron. A method of finding these equilibrium solutions through the vertices and then the ESS solutions is given. This is illustrated by a number of numerical examples taken from the literature. Finally an alternative approach based on solving a Linear Complementarity Problem is discussed.
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  • 95
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    Journal of mathematical biology 26 (1988), S. 347-357 
    ISSN: 1432-1416
    Keywords: Transposable elements ; Evolution ; Branching processes ; Population genetics ; Mobile genetic elements
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Mathematics
    Notes: Abstract A discrete-time multitype branching process model is presented for the evolution of transposable elements in haploid populations. An individual is classified as type i if it possesses i copies of the TE, i⩾0. The general model incorporates copy-dependent selection and transposition, and recursion relations are derived for the distribution of the number of individuals of the various types. The asymptotic relative proportions of individuals of the different types is studied in the neutral case. The behavior of this equilibrium distribution is examined for various patterns of regulated transposition and deletion.
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  • 96
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    Journal of classification 2 (1985), S. 29-39 
    ISSN: 1432-1343
    Keywords: Taxonomy ; Evolution ; Judgment ; Species ; Genus
    Source: Springer Online Journal Archives 1860-2000
    Topics: Mathematics
    Notes: Abstract Relative frequency of genera as a function of number of species per genus is plotted for six eighteenth-century classifications: Linnaeus' classifications of animals, plants, minerals, and diseases, and Sauvages' classifications of plants and diseases. The distributions for animals and plants form positively skewed hollow curves similar but not identical to those found in modern biological classifications and predicted by mathematical models of evolution. The distributions for minerals and diseases, however, are more nearly symmetric and convex. The difference between the eighteenth-century and modern classifications of animals and plants probably reflects psychological properties of the taxonomists' judgments; but the difference between the classifications of animals and plants and those of minerals and diseases reflects evolutionary properties of the materials classified, since all six classifications were constructed by the same taxonomists using the same methods. Consequently, the observable effects of evolution are strong enough to be detected in classifications constructed before the acceptance of evolutionary theory; and traditional classifications can contain substantial scientific information despite their reliance on incompletely understood processes of judgment.
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    Theoretical and applied genetics 69 (1985), S. 463-474 
    ISSN: 1432-2242
    Keywords: Multiline varieties ; Disease control ; “Dirty crop” approach ; Evolution ; Pathogens
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Summary A general model for the evolution of pathogen populations on mixtures or multilines is developed. This model is used to extend previous analyses of the effects of the widespread cultivation of multilines on the evolution of virulence in obligate parasites to mixtures of lines carrying different numbers of resistance genes. It is concluded that the composition of an equilibrium pathogen population growing on a multiline may vary within wide limits and the prinicipal determinant of its composition is the number of components in the multiline and the resistance genes they carry. Other factors of importance are (i) the relative contribution made by each host class (with different numbers of resistance genes) to the pathogen spore pool each generation; (ii) the levels of ‘stabilizing selection’ against unnecessary virulence genes; and (iii) the way in which unnecessary genes for virulence combine to reduce pathogen fitness. Conditions for the fixation of avirulent biotypes in the pathogen population and the evolution of a pathogen superrace are given for multilines of various compositions.
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    Theoretical and applied genetics 70 (1985), S. 369-376 
    ISSN: 1432-2242
    Keywords: Glycine ; Ribosomal genes ; Restriction enzymes ; Evolution
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Summary The genes encoding the 18S∶25S ribosomal RNA gene repeat in soybean (Glycine max) and its relatives in the genus Glycine are surveyed for variation in repeat length and restriction enzyme site locations. Within the wild species of subgenus Glycine, considerable differences in repeat size occur, with a maximum observed in G. falcata. Repeat length and site polymorphisms occur in several species, but within individual plants only single repeat types are observed. The rDNA of the cultivated soybean and its wild progenitor, G. soja are identical at the level of this study, and no variation is found in over 40 accessions of the two species. Data from rDNA mapping studies are congruent with those of previous biosystematic studies, and in some instances give evidence of divergences not seen with other approaches.
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  • 99
    Electronic Resource
    Electronic Resource
    Springer
    Theoretical and applied genetics 71 (1985), S. 31-38 
    ISSN: 1432-2242
    Keywords: Triticum aestivum ; 2D electrophoresis ; Gene localization ; Homoeologous genes ; Genetic regulation
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Summary Among the 782 spots observed in two-dimensional gel electrophoresis of denatured proteins from etiolated wheat shoots, 185 were found to be variable between the euploid and 26 ditelosomic lines of ‘Chinese Spring’. Thirty-five structural genes were located on 17 chromosome arms. Numerous intensity changes showing alterations in protein levels were observed and led to the following statements: 1) regulators are frequently found and can be assigned for a same polypeptide to various chromosome arms; 2) for most polypeptides homoeologous arms do not manifest similar effects; 3) nevertheless, when affecting the same polypeptide, homoeologous arms display in most cases identical regulatory effects; 4) gene dosage compensation is observed in only one out of four homoeoallelic situations.
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  • 100
    Electronic Resource
    Electronic Resource
    Springer
    Theoretical and applied genetics 71 (1985), S. 527-531 
    ISSN: 1432-2242
    Keywords: Potato ; Chloroplast DNA ; Restriction polymorphisms ; Evolution
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Summary Chloroplast DNA (ctDNA) from the tuberbearing Solanum species tuberosum, vernei, phureja, and chacoense has been compared by restriction endonuclease analysis. Digestion by Hind III or Xba I reveal no differences, but digestion with Bam HI and Eco RI reveals minor differences in the ctDNA among these species. The ctDNA restriction patterns of the tetraploid common cultivated potato of North America and Europe, S. tuberosum ssp. tuberosum and the South American tetraploid, S. tuberosum ssp. andigena are identical for all four restriction endonucleases. These data suggest that ssp. tuberosum and ssp. andigena contain similar ctDNA and therefore may share a common ancestor, or direct lineage. The ctDNA restriction patterns of S. vernei and S. chacoense are identical for all four restriction endonucleases, and S. phureja ctDNA, can be distinguished from the other diploid ctDNAs by digestion with Bam HI. None of the diploids analyzed contain ctDNA identical to the tetraploids and therefore either did not contribute their chloroplast genomes to the evolution of the tetraploids, or the ctDNA has diverged since this evolutionary event. The ctDNAs studied did not contain restriction polymorphisms which could be correlated to cytoplasmic male sterility in Solanum. This is the first demonstration of ctDNA diversity in the tuber-bearing Solanum species.
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