A rebuttal to the comments on the genome order index and the <Emphasis Type="Italic">Z</Emphasis>-curve

Background  

Elhaik, Graur and Josic recently commented on the genome order index (S) and the Z-curve (Elhaik et al. Biol Direct 2010, 5: 10). S is a quantity defined as S = a ² + c ² + g ² + t ², where a, c, g and t denote corresponding base frequencies. The Z-curve is a three dimensional curve that represents a DNA sequence in the manner that each can be uniquely reconstructed given the other. Elhaik et al. made 4 major claims. 1) In the previous mapping system with the regular tetrahedron, calculation of the radius of the inscribed sphere is "a mathematical error". 2) S follows an exponential distribution and is narrowly distributed with a range of (0.25 - 0.33). 3) Based on the Chargaff's second parity rule (PR2), "S is equivalent to H [Shannon entropy]" and they are derivable from each other. 4) Z-curve "suffers from over dimensionality", because based on the analysis of 235 bacterial genomes, x and y components contributed only less than 1% of the variance and therefore "would be of little use".     

A study on the relationship between leaf conductance,CO2 concentration and carboxylation rate in various species

Leaf conductance g_L is strongly influenced by environmental factors like CO₂, irradiance and air humidity. According to Ball et al. (1987), g_L is correlated with an index calculated as the product of net CO₂ exchange rate A and ambient water vapour concentration W_a, divided by ambient CO₂ concentration c_a. However, this empirical model does not apply to high values of g_L observed at c_a below CO₂ compensation concentration . Therefore, we applied modified indices in which A is replaced by estimates for the rate of carboxylation. Such estimates, P₁ and P₂, were determined by adding to A the quotient of and the sum of gas phase resistance r_g and intracellular resistance for CO₂ exchange r_i, P₁ = A+/(r_g + r_i), or the quotient of and r_i, P₂ = A + /r_i. If P₂ is chosen, c_a in the Ball index has to be replaced by the intercellular CO₂ concentration c_i. By using the modified indices P₁·W_a/c_a and P₂·W_a/c_i, we analysed data from the C₃ species Nicotiana tabacum and Nicotiana plumbaginifolia, the C₃–C₄ intermediate species Diplotaxis tenuifolia, and the C₄ species Zea mays. The data were collected at widely varying levels of irradiance and CO₂ concentration. For all species uniform relationships between g_L and the new indices were found for the whole range of CO₂ concentrations below and above . Correlations between g_L and P₁·W_a/c_a were closer than those between g_L and P₂·W_a/c_i because P₁/c_a implicitly contains g_L. Highly significant correlations were also obtained for the relationships between g_L and the ratios P₁/c_a and P₂/c_i.     

Thiosulfate-linked ATP-dependent NAD+ reduction in Rhodopseudomonas palustris

Summary A cytochrome containing fraction virtually devoid of the photosynthetic apparatus (bacteriochlorophyll and/or chromatophores) was isolated from Rps. palustris grown photolithotrophically with S₂O₃ ⁼as the exogenous electron donor. This fraction contained predominantly cytochromes of c, a and o type and exhibited thiosulfate: cytochrome c oxidoreductase and ferrocytochrome c:O₂ oxidoreductase activities. Under anaerobic conditions the enzyme preparation catalyzed an ATP-dependent NAD⁺ reduction by S₂O₃ ⁼in the dark involving a reversal of electron transfer from cytochrome c and yielding a molar stoichiometry of approximately 2:1 for the ferrocytochrome c oxidized and NAD⁺ reduced. In this process approximately 4 to 7 molar equivalents of ATP were utilized/equivalent of NAD⁺ reduced. The optimal reaction occurred at pH 8.0 and in the presence of 55 M added mammalian cyt. c, 1.7 mM Mg⁺⁺, 1.7 mM ATP and 7.0 mM S₂O₃ ⁼. The S₂O₃ ⁼-linked ATP-driven reduction of NAD⁺ as well as the coupled oxidation of cyt. c were inhibited completely by 5 m CCCP or 10 M DNP and the reaction was also markedly sensitive to other uncouplers of the energy transfer reactions. The pathway of electron transfer from S₂O₃ ⁼ to NAD⁺ appears to involve cyt. c, b, and flavoprotein systems as evidenced by the complete inhibition of the process by low concentrations of antimycin A, NOQNO, rotenone and amytal.Non-standard abbreviations BAL British Anti-Lewisite (2,3-Dimercaptopropanol) - CCCP Carbonyl-cyanide-m-chlorophenylhydrazone - DBP 2,6-Dibromophenol - DNP 2,4-Dinitrophenol - EDTA Ethylenediamine tetraacetic acid - GSH reduced glutathione - NOQNO 2-n-Nonyl-4-hydroxyquinoline-N-oxide - PCP Pentachlorophenol - PABA p-aminobenzoic acid. Post doctorate fellow of the Deutsche Forschungsgemeinschaft     

Cytoduction: A tool for mitochondrial genetic studies in yeast

Summary A study has been made of the general applications of the nuclear-fusion mutation, kar1, to mitochondrial genetic research. Procedures were developed which are suitable for constructing new strains by transfer (cytoduction) of mitochondrial genomes containing drug ^r, mit ^-, syn ^- or rho ^- mutations.Several examples of crosses of the type KAR rho ⁺ drug ^r xkarl rho ^o drug ^s were carried out and the resulting zygotes and their first buds separated by micromanipulation. Clones derived from these were in most cases homogeneous for any of the following nuclear types: heterokaryon (a+), diploid (a/), haploid a nucleus or haploid nucleus. The term cytoductant is given to the haploid rho ⁺ segregant having the same type of nucleus as the rho ^o strain employed in the cross.As examples of cytoduction of mit ^- mutations, two different pho mitochondrial genomes were studied. Transfer of pho to rho ^o acceptors was achieved with little difficulty.Haploid segregants containing recombinant mitochondrial genomes were obtained by crossing a KAR rho ⁺ cap ^r oli ^j par ^r strain with a karl rho ⁺ cap ^s oli ^s par ^s strain. Studies of intraclonal distribution of alleles indicate that cytoplasmic mixing is restricted when the dikaryotic state is maintained. Haploid cytoductant clones are usually comprised of cells retaining the mitochondrial genome of only one parent, and commonly both first-bud and residual-zygote clones are homogeneous for the same parental genome (apparent uniparental inheritance). Less frequently mixed clones are found where the number of classes of mitochondrial recombinant type is limited compared to the progeny of zygotes in which nuclear fusion takes place.These observations are discussed in terms of number and form of mitochondria forming the chondriome in the yeast cell, together with its association with the nucleus.     

Sedimentation of chlorophylls in an Arctic fjord under freshwater discharge

Sedimentation of chlorophylls was studied during summer 1997 in Adventfjorden (Spitsbergen, Arctic). During the period of study, the water column was found to be well stratified by a freshened surface layer (salinity <31 PSS). A high load of suspended particulate matter from riverine discharge reduced the euphotic zone to an interval of 0.4–1.1m. Total particulate matter sedimentation rates were about twice as high in June as in July. The following chlorophylls were distinguished in the sedimented particles: chl a and its degradation products (allomer chl a, phaeophytin a, phaeophorbide a, chlorophyllide a), chl b and chl c ₁+c ₂. The quantitatively most important derivative of chl a was phaeophorbide a (31--41% of porphyrin a). Generally, the sedimentation rate of chlorophylls increased with depth. Linear relationships between concentrations of chl a and phaeophorbide a (r ²=0.92), as well as between concentrations of chl a and phaeophytin a (r ²=0.90) indicated a strong connection between phytoplankton abundance and zooplankton grazing. The significant correlation between chl a and chlorophyllide a concentrations (r ²=0.82) showed that most of the sinking chl a belonged primarily to diatoms, and low chlorophyllide a:chl a ratio (0.03) indicated that cellular senescence was not an important reason for the sinking of chl a. Moreover, very low chl b:chl a ratios (about 0.05 calculated for samples where chl b was detectable) suggest that contributions of green algae and/or higher plant detritus were negligible in sinking particles. The ratio of chl c ₁+c ₂:chl a was 0.85 indicating that chl c-containing algae were dominating.     

Electron paramagnetic resonance and Mössbauer spectroscopy of intact mitochondria from respiring <Emphasis Type="Italic">Saccharomyces cerevisiae</Emphasis>

Mitochondria from respiring cells were isolated under anaerobic conditions. Microscopic images were largely devoid of contaminants, and samples consumed O₂ in an NADH-dependent manner. Protein and metal concentrations of packed mitochondria were determined, as was the percentage of external void volume. Samples were similarly packed into electron paramagnetic resonance tubes, either in the as-isolated state or after exposure to various reagents. Analyses revealed two signals originating from species that could be removed by chelation, including rhombic Fe³⁺ (g = 4.3) and aqueous Mn²⁺ ions (g = 2.00 with Mn-based hyperfine). Three S = 5/2 signals from Fe³⁺ hemes were observed, probably arising from cytochrome c peroxidase and the a₃:Cu_b site of cytochrome c oxidase. Three Fe/S-based signals were observed, with averaged g values of 1.94, 1.90 and 2.01. These probably arise, respectively, from the [Fe₂S₂]⁺ cluster of succinate dehydrogenase, the [Fe₂S₂]⁺ cluster of the Rieske protein of cytochrome bc ₁, and the [Fe₃S₄]⁺ cluster of aconitase, homoaconitase or succinate dehydrogenase. Also observed was a low-intensity isotropic g = 2.00 signal arising from organic-based radicals, and a broad signal with g _ave = 2.02. Mössbauer spectra of intact mitochondria were dominated by signals from Fe₄S₄ clusters (60–85% of Fe). The major feature in as-isolated samples, and in samples treated with ethylenebis(oxyethylenenitrilo)tetraacetic acid, dithionite or O₂, was a quadrupole doublet with ΔE _Q = 1.15 mm/s and δ = 0.45 mm/s, assigned to [Fe₄S₄]²⁺ clusters. Substantial high-spin non-heme Fe²⁺ (up to 20%) and Fe³⁺ (up to 15%) species were observed. The distribution of Fe was qualitatively similar to that suggested by the mitochondrial proteome.     

On the relationship between leaf anatomy and CO2 diffusion through the mesophyll of hypostomatous leaves

Internal conductances to CO₂ transfer from the stomatal cavity to sites of carboxylation (g_i) in hypostomatous sun-and shade-grown leaves of citrus, peach and Macadamia trees (Lloyd et al. 1992) were related to anatomical characteristics of mesophyll tissues. There was a consistent relationship between absorptance of photosynthetically active radiation and chlorophyll concentration (mmol m^?2) for all leaves, including sclerophyllous Macadamia, whose transmittance was high despite its relatively thick leaves. In thin peach leaves, which had high g_i, the chloro-plast volume and mesophyll surface area exposed to intercellular air spaces (ias) per unit leaf area were similar to those in the thicker leaves of the evergreen species. Peach leaves, however, had the lowest leaf dry weight per area (D/a), the lowest tissue density (T_d) and the highest chloro-plast surface area (S_c) exposed to ias. There were negative correlations between g_i and leaf thickness or D/a, but positive correlations between g_i and S_c or S_c/T_d. We developed a one-dimensional diffusion model which partitioned g_i into a gaseous diffusion conductance through the ias (g_ias) plus a liquid-phase conductance through mesophyll cell walls (g_cw). The model accounted for a significant amount of variation (r₂=0.80) in measured g_i by incorporating both components. The g_ias component was related to the one-dimensional path-length for diffusion across the mesophyll and so was greater in thinner peach leaves than in leaves of evergreen species. The g_cw component was related to tissue density and to the degree of chloroplast exposure to the ias. Thus the negative correlations between g_i and leaf thickness or D/a related to g_ias whereas positive correlations between g_i and S_c or S_c/T_d, related to g_cw. The g_cw was consistently lower than g_ias, and thus represented a greater constraint on CO₂ diffusion in the mesophylls of these hypostomatous species.     

Analysis of applicability of triplet-state emission of molecular hydrogen for spectral diagnostics of a DC discharge

The applicability of emission of the N ³Λ_σ triplet states of molecular hydrogen for spectral diagnostics of the positive column of a dc glow discharge in hydrogen at translational gas temperatures of 360–600 K, specific absorbed powers of 0.8–4.25 W/cm, gas pressures of p = 0.3–15.0 Torr, reduced fields of E/N = 30–130 Td, and electron densities of n _e = 4.0 × 10⁹–6.5 × 10¹⁰ cm^–3 is analyzed by using an advanced level-based semi-empirical collisional?radiative model. It is found that secondary processes make the main contribution to the population and decay of the N ³Λ_σ = a ³Σ⁺ _g , c ³Π _u , g ³Σ⁺ _g , h ³Σ⁺ _g , and i ³Π _g triplet states. The dipole-allowed transitions e ³Σ⁺ _g → a ³Σ⁺ _g , f ³Σ⁺ _g → a ³Σ⁺ _g , g ³Σ⁺ _g and k ³Π _u → a ³Σ⁺ _g can be used for spectral diagnostics of a dc discharge within a simplified coronal model.     

Constrained C-terminal hexapeptide neurotensin analogues containing a 3-oxoindolizidine skeleton

Summary In order to enforce different spatial orientations in the C-terminal hexapeptide of neurotensin (NT_8–13) and to gain information about the importance of the 10–11 peptide bond for binding to NT receptors, the Pro¹⁰-Tyr¹¹ fragment has been replaced with (2R,8S,8aR)-, (2S,8S,8aR)-, (2S,8S,8aS)-, (2S,8R,8aS)- and (2R,8R,8aS)-8-amino-2-benzyl-3-oxoindolizidine-2-carboxylic acid. Molecular dynamics calculations and energy minimization studies have shown that, contrarily to the Pro-Tyr moiety, none of these indolizidines display a tendency to adopt type I and III -turns, but those having (8S,8aR) or (8R,8aS) stereochemistry essentially adopt extended conformations and the (8S,8aS) stereoisomer prefers a nonstandard folding. The four diastereomeric NT_8–13 analogues incorporating (8S,8aR) or (8R,8aS) indolizidines displayed binding affinities for the brain NT receptor similar to that of [Ala¹¹]-NT_8–13 and only five- to ninefold lower than that of the corresponding analogue, [Phe¹¹]NT_8–13. Although this slight decrease could be attributed to differences in conformational behavior between these constrained NT_8–13 analogues and [Phe¹¹]NT_8–13 or NT_8–13, it is not clear whether the -turn around Pro¹⁰-AA¹¹ (AA=Phe, Tyr) is conserved upon receptor binding. An excessive restriction in the motions of the aromatic side chain, imposed by the highly steric constraint of the indolizidine moiety, emerges as an alternative explanation. The findings reported here demonstrate the possibility of replacing the Pro¹⁰-Tyr¹¹ dipeptide in NT_8–13 with a non-peptide residue without affecting considerably the affinity for brain NT receptors.     

Activity coefficients of intracellular Na+ and K+ during development of frog oocytes

Summary The chemical activities, (a), of Na⁺ and K⁺ were determined in large mature and in small immature frog oocytes, using open-tipped micropipettes and ionselective microelectrodes. The average chemical concentrations,c, of Na⁺ and K⁺ were determined by spectrophotometry and by electron probe X-ray microanalysis. The apparent activity coefficient (^app) was calculated for each ion as the ratio,a/c.With development, (a _Na/a _K) decreased four to fivefold and (c _Na/c _K) increased six to sevenfold. In the large mature oocytes, _Na ^app was measured to be 0.08±0.02 and _K ^app lay within the range 1.15±0.03 to 1.29±0.04, constituting the smallest value for Na⁺ and largest value for K⁺, respectively, thus far reported. This intracellular value of _K ^app was substantially greater than the activity coefficient of K⁺ in the external medium (0.76). The data suggest that the inequality of _Na ^app and _K ^app in this and probably other cells reflects the development of subcellular compartmentalization of ions. Possible intracellular sites of ionic compartmentalization are considered.     

Syntheses and structural analyses of chiral rhenium containing amines of the formula (η-C5H5)Re(NO)(PPh3)((CH2)nNRR′) (n = 0, 1)

The reaction of the racemic chiral methyl complex (η⁵-C₅H₅)Re(NO)(PPh₃)(CH₃) (1) with CF₃SO₃H and then NH₂CH₂C₆H₅ gives [(η⁵-C₅H₅)Re(NO)(PPh₃)(NH₂CH₂C₆H₅)]⁺ ([4a-H]⁺; 73%), and deprotonation with t-BuOK affords the amido complex (η⁵-C₅H₅)Re(NO)(PPh₃)(NHCH₂C₆H₅) (76%). Reactions of 1 with Ph₃C⁺ X⁻ and then primary or secondary amines give [(η⁵-C₅H₅)Re(NO)(PPh₃)(CH₂NHRR′)]⁺ X⁻ ([6-H]⁺ X⁻; R/R′/X = a, H/NH₂CH₂C₆H₅/BF₄; a′, H/NH₂CH₂C₆H₅/PF₆; b, H/NH₂CH₂(CH₂)₂CH₃/PF₆; c, H/(S)-NH₂CH(CH₃)C₆H₅/BF₄); d, CH₂CH₃/CH₂CH₃/PF₆; e, CH₂(CH₂)₂CH₃/CH₂(CH₂)₂CH₃/PF₆; f, CH₂C₆H₅/CH₂C₆H₅/PF₆; g, -CH₂(CH₂)₂CH₂-/PF₆; h, -CH₂(CH₂)₃CH₂-/PF₆; i, CH₃/CH₂CH₂OH/PF₆ (62-99%). Deprotonations with t-BuOK afford the amines (η⁵-C₅H₅)Re(NO)(PPh₃)(CH₂NRR′) (6a-i; 99-40%), which are more stable and isolated in analytically pure form when R ≠ H. Enantiopure 1 is used to prepare (R_ReS_C)-[6c-H]⁺, (R_ReS_C)-6c, (S)-[6g-H]⁺, and (S)-6g. The crystal structures of [4a-H]⁺, a previously prepared NH₂CH₂Si(CH₃)₃ analog, [6a′,d,f,h-H]⁺, (R_ReS_C)-6c, and 6f are determined and analyzed in detail, particularly with respect to cation/anion hydrogen bonding and conformation. In contrast to analogous rhenium containing phosphines, 6a-i show poor activities in reactions that are catalyzed by organic amines.     

Photo- and thermal-induced linkage isomerizations in a peroxydithiocarbamate-Ru complex

Previous work has shown that mono-oxygenation of Ru(bpy)₂(N,N′-dimethyldithiocarbamate)⁺, 1, yields two different linkage isomers: S,S-bound 2a and O,S-bound 2b, as well as a stable dioxygenate, Ru(bpy)₂(N,N-dimethylthiocarbamate-sulfinate-S,S)⁺, 3. In this report, the interconversion of the two peroxydithiocarbamate isomers was investigated using photolysis and thermal activations. The O,S-bound 2b undergoes phototriggered linkage isomerization to form the less stable S,S-bound 2a at low temperatures in non-coordinating solvents. The more reactive S,S-bound 2a then converts to O,S-bound 2b by a thermal isomerization at moderate temperatures in polar solvents. The different solvent and temperature dependences suggest distinct pathways for the two isomerizations.     

Reactivity of platina-β-diketones towards chelating nitrogen and sulfur donors: formation of acyl(hydrido)platinum(IV) and acyl(chloro)platinum(II) complexes

The platina-β-diketone [Pt₂{(COMe)₂H}₂(μ-Cl)₂] (1) was found to react with chelating N,N-ligands 2(R^′NCR)C₅H₄N (R/R^′=Ph/OH, H/Ph, Me/Ph) to form acyl(hydrido)platinum(IV) complexes [Pt(COMe)₂Cl(H){2-(R^′NCR)C₅H₄N}] (R/R^′=Ph/OH 2a; H/Ph 2b; Me/Ph (2c)). Reactions of complex 1 with chelating S,S- and N,S-donors (RS-CH₂-CH₂-SR, 2-(RSCH₂)C₅H₄N, R=Et, Ph, t-Bu) afforded acyl(chloro)platinum(II) complexes [Pt(COMe)Cl(RSCH₂CH₂SR)] (R=Et, 3a; Ph, 3b; t-Bu, 3c) and [Pt(COMe)Cl{2-(RSCH₂)C₅H₄N}] (R=Et, 4a; Ph, 4b; t-Bu, 4c), respectively. All complexes were fully characterized by microanalysis, IR and NMR (¹H, ¹³C) spectroscopy. Furthermore, molecular structures of complexes 3b and 4b were determined by single-crystal X-ray diffraction analyses revealing close to square-planar configuration. In complex 4b the acetyl ligand is trans to pyridine N atom (configuration index SP-4-2). The reactions are discussed in terms of consecutive oxidative addition and reductive elimination reactions.     

Separation of supercoiled and open-circular plasmid DNA by liquid-liquid counter-current chromatography

We report for the first time the use of liquid-liquid counter-current chromatography (CCC) for the preparative scale fractionation of plasmid DNA. Almost complete fractionation of supercoiled and open circular plasmid DNA (6.9 kb) could be achieved using a phase system comprising 12.5% (w/w) PEG 600 and 18% (w/w) K₂HPO₄. Experiments were carried out on a Brunel J-type CCC machine (100 ml PTFE coil) at a mobile phase flow rate of 0.5 ml min^{– 1} and a rotational speed of 600 rpm. Compared to conventional HPLC techniques the capacity of CCC is not limited by the surface area of resin available for adsorption. Symbols: C _b, Concentration of plasmid in lower phase (g ml^–1); C _t, Concentration of plasmid in upper phase (g ml^–1); CV, Total volume of mobile phase present in the coil and connecting leads (ml); K, Equilibrium solute partition coefficient (K=C _t/C _b); OC, Open circular plasmid; SC, Supercoiled plasmid; S _f, Percentage stationary phase retention (S _f=V _s/V _c); t _s, Time for phase separation (s); V _b, Volume of bottom phase (ml); V _c, Coil volume (ml); V _m, Volume of mobile phase present in coil at equilibrium (ml); V _r, Volume ratio of two phases (V _r=V _t/V _b); V _s, Volume stationary phase present in coil at equilibrium (ml); V _t, Volume of top phase (ml); V _tot, Total volume of phase system (ml).     

Graphic analysis of codon usage strategy in 1490 human proteins

The frequencies of bases A (adenine), C (cytosine), G (guanine), and T (thymine) occurring in codon positioni, denoted bya _i ,c _i ,g _i , andt _i , respectively (i=1, 2, 3), have been calculated and diagrammatized for the 1490 human proteins in the codon usage table for primate genes compiled recently. Based on the characteristic graphs thus obtained, an overall picture of codon base distribution has been provided, and the relevant biological implication discussed. For the first codon position, it is shown in most cases that G is the most dominant base, and that the relationshipg ₁>a ₁>c ₁>t ₁ generally holds true. For the second codon position, A is generally the most dominant base and G is the one with the least occurrence frequently, with the relationship ofa ₂>t ₂>c ₂>g ₂. As to the third codon position, the values ofg ₃+c ₃ vary from 0.27 to 1, roughly keeping the relationship ofc ₃>g ₃>a ₃=t ₃ for the majority of cases. Interestingly, if the average frequencies for bases A, C, G, and T are defined as , respectively, we find that is valid almost without exception. Such a characteristic inequality might reflect some inherent rule of codon usage, although its biological implications is unclear. An important advantage by introducing graphic methods is to make it possible to catch essential features from a huge amount of data by a direct and intuitive examination. The method used here allows one to see means and variances, and also spot outliers. This is particularly useful for finding and classifying similarity patterns and relationships in data sets of long sequences, such as DNA coding sequences. The current method also holds a great potential for the study of molecular evolution from the viewpoint of genetic code whose data have been accumulated rapidly and are to continue growth at a much faster pace.On sabbatical leave from Department of Physics, Tianjin University, Tianjin, China.     

Development and characterization of a complete set of <Emphasis Type="Italic">Triticum aestivum</Emphasis>–<Emphasis Type="Italic">Roegneria ciliari</Emphasis>s disomic addition lines

Key message

A complete set wheat-R. ciliaris disomic addition lines (DALs) were characterized and the homoeologous groups and genome affinities of R. ciliaris chromosomes were determined.

Abstract

Wild relatives are rich gene resources for cultivated wheat. The development of alien addition chromosome lines not only greatly broadens the genetic diversity, but also provides genetic stocks for comparative genomics studies. Roegneria ciliaris (genome S^cS^cY^cY^c), a tetraploid wild relative of wheat, is tolerant or resistant to many abiotic and biotic stresses. To develop a complete set of wheat-R. ciliaris disomic addition lines (DALs), we undertook a euplasmic backcrossing program to overcome allocytoplasmic effects and preferential chromosome transmission. To improve the efficiency of identifying chromosomes from S^c and Y^c, we established techniques including sequential genomic in situ hybridization/fluorescence in situ hybridization (FISH) and molecular marker analysis. Fourteen DALs of wheat, each containing one pair of R. ciliaris chromosomes pairs, were characterized by FISH using four repetitive sequences [pTa794, pTa71, RcAfa and (GAA)₁₀] as probes. One hundred and sixty-two R. ciliaris-specific markers were developed. FISH and marker analysis enabled us to assign the homoeologous groups and genome affinities of R. ciliaris chromosomes. FHB resistance evaluation in successive five growth seasons showed that the amphiploid, DA2Y^c, DA5Y^c and DA6S^c had improved FHB resistance, indicating their potential value in wheat improvement. The 14 DALs are likely new gene resources and will be phenotyped for more agronomic performances traits.

     

The mechanism of Na+ transport by rabbit urinary bladder

Summary The mechanism of Na⁺ transport in rabbit urinary bladder has been studied by microelectrode techniques. Of the three layers of epithelium, the apical layer contains virtually all the transepithelial resistance. There is radial cell-to-cell coupling within this layer, but there is no detectable transverse coupling between layers. Cell coupling is apparently interrupted by intracellular injection of depolarizing current. The cell interiors are electrically negative to the bathing solutions, but the apical membrane of the apical layer depolarizes with increasingI _sc. Voltage scanning detects no current sinks at the cell junctions or elsewhere. The voltage-divider ratio, , (ratio of resistance of apical cell membrane,R _a, to basolateral cell membrane,R _b) decreases from 30 to 0.5 with increasingI _sc, because of the transportrelated conductance pathway in the apical membrane. Changes in effective transepithelial capacitance withI _sc are predicted and possibly observed. The transepithelial resistance,R _t, has been resolved intoR _a, R_b, and the junctional resistance,R _j, by four different methods: cable analysis, resistance of uncoupled cells, measurements of pairs of (R _t, ) values in the same bladder at different transport rates, and the relation betweenR _t andI _sc and between andI _sc.R _j proves to be effectively infinite (nominally 300 k F) and independent ofI _sc, andR _a decreases from 154 to 4 k F with increasingI _sc. In the resulting model of Na⁺ transport in tight epithelia, the apical membrane contains an amiloride-inhibited and Ca⁺⁺-inhibited conductance pathway for Na⁺ entry; the basolateral membrane contains a Na⁺–K⁺-activated ATPase that extrudes Na⁺; intracellular (Na⁺) may exert negative feedback on apical membrane conductance; and aldosterone acts to stimulate Na⁺ entry at the apical membrane via the amiloride-sensitive pathway.     

Synthesis, characterization of [{(N-methyl-N-benzyl)amino}methyl]ferrocenes and their cyclopalladated complexes: Crystal structure of σ-Pd[(η-C5H5)Fe(η-C5H3CH2N(CH3)CH2C6H4NO2-4)]Cl(PPh3)

Condensation of aminomethylferrocene (1) and substituted benzaldehydes resulted in aldimines 2a-c which followed by reduction with sodium borohydride to give 3a-c. N-methylation of 3a-c with HCHO/NaCNBH₃/HOAc led to 4a-c. Treatment of 4a-c with sodium palladium tetrachloride in the presence of sodium acetate afforded cleanly cyclopalladated 5a-c in which configurations consisted of the R_NR_C, S_NS_C. The preferable activation of C_Ferrocenyl-H bond over C_Phenyl-H bond was also observed. All compounds 2-5 were characterized by elemental analysis, IR and ¹H NMR. In addition, the molecular structure of 5c was confirmed by single crystal X-ray diffraction. The possible mechanism for the formation of 5 was also discussed.     

An efficient route to substituted 1-silacyclopent-2-enes and 1-silacyclohex-2-enes via consecutive 1,2-hydroboration and 1,1-organoboration

The reaction of alkyn-1-yl(vinyl)silanes R₂Si(CCR¹)CHCH₂ [R = Me (1), Ph (2); R¹ = ^tBu (a), Ph (b), SiMe₃ (c)] with 9-borabicyclo[3.3.1]nonane in a 1:1 ratio affords the 1-silacyclopent-2-ene derivatives 4a-c (R = Me) and 5a-c (R = Ph) as a result of selective intermolecular 1,2-hydroboration of the vinyl group, followed by intramolecular 1,1-organoboration of the alkynyl substituent. The analogous reaction sequence converts the alkyn-1-yl(allyl)dimethylsilanes 3a,c into the 1-silacyclohex-2-ene derivatives 7a,c. All reactions were monitored by ²⁹Si NMR spectroscopy and the structural assignment of the final products was based on multinuclear magnetic resonance data (¹H, ¹¹B, ¹³C and ²⁹Si NMR). The molecular structure of 6a was determined by X-ray analysis.     

Uptake of lysine and prolinevia separate α-neutral amino acid transport pathways inMytilus gill brush border membranes

Summary Brush border membrane vesicles (BBMV) were prepared from the gills of the marine mussel,Mytilus edulis. These membranes contained two distinct pathways for cotransport of Na⁺ and -neutral amino acids. The major pathway in mussel gill BBMV was the alanine-lysine (AK) pathway, which had a high affinity for alanine and for the cationic amino acid, lysine. The AK pathway was inhibited by nonpolar -neutral amino acids and cationic amino acids, but was not affected by -neutral amino acids or imino acids. The kinetics of lysine transport were consistent with a single saturable process, with aJ _max of 550 pmol/mg-min and aK _t of 5 m. The AK pathway did not have a strict requirement for Na⁺, and concentrative transport of lysine was seen in the presence of inwardly directed gradients of Li⁺ and K⁺, as well as Na⁺. Harmaline inhibited the transport of lysine in solutions containing either Na⁺ or K⁺. The alanine-proline (AP) pathway transported both alanine and proline in mussel gill BBMV. The AP pathway was strongly inhibited by nonpolar -neutral amino acids, proline, and -(methylamino)isobutyric acid (Me-AIB). The kinetics of proline transport were described by a single saturable process, with aJ _max of 180 pmol/mg-min andK _t of 4 m. In contrast to the AK pathway, the AP pathway appeared to have a strict requirement for Na⁺. Na⁺-activation experiments with lysine and proline revealed sigmoid kinetics, indicating that multiple Na⁺ ions are involved in the transport of these substrates. The transport of both lysine and proline was affected by membrane potential in a manner consistent with electrogenic transport.