Effects of GA3 and IBA on rooting and on the sprouting of buds on stem cuttings of Ipomoea fistulosa

Both IBA and GA₃ enhance rooting, IBA being more effective particularlyat a concentration of 100 mg/liter as compared to 10 mg/liter.IBA decreases while GA₃ increases the sprouting of buds, withboth effects increasing with concentration. GA₃-caused promotionof rooting appears to be due to an increased synthesis of auxinand to an adequate supply of mobilized food materials. ¹ Present address: Department of Biology, University of Missouri,St. Louis, U.S.A. (Received January 26, 1972; )     

Seasonal Changes in Auxin Effects on Rooting of Stem Cuttings of Populus nigra and its Relationship with Mobilization of Starch

Stem cuttings of Populus nigra were treated with 10 and 100 mg/1 each of IAA., IBA, 2,4-D and NAA at one month intervals and observations were recorded for the morphophysiological status of the branches, their starch content and their rooting response. — The first phase characterized by delayed, short and scarce roots and the high starch content of cuttings coincided with the onset of winter dormancy in November lasting through February. It was followed by a phase of vigorous rooting and low starch content of cuttings coinciding with the renovation of growth activity in February lasting through October, except in April and May when rooting was more or less completely nullified. — The poor rooting in winter was caused by low activity of hydrolyzing enzymes not mobilizing starch into soluble sugars; and profuse rooting during active growth period by high activity of hydrolyzing enzymes caused by endogenous auxin, resulting in mobilization of reserved food materials necessary for the initiation and development of roots. The low rooting in April and May is ascribed to the fact that bulk of the mobilized food was used up in the growth of sprouted branches leaving very little for rooting when these cuttings were planted. — The seasonal changes in the effectiveness of exogenously applied auxins also appear to be related with the level of endogenous auxin. In June endogenous auxin was high due to high meristematic activity, the exogenously applied auxins raising it to supra-optimal levels that were inhibitory. On the other hand, in October exogenously applied auxins enhanced rooting by raising it to an optimal level as the production of endogenous auxin had been decreasing gradually due to lowering temperatures. — The results demonstrate that auxin effect on differential rooting with season in this plant is determined by the physio-morphological status of the branches that govern the production of endogenous auxin and is mediated primarily through its effect on mobilization of reserve food materials caused by enhanced activity of hydrolytic enzymes.     

Are aromatic carbon donor hydrogen bonds linear in proteins?

Proteins fold and maintain structure through the collective contributions of a large number of weak, noncovalent interactions. The hydrogen bond is one important category of forces that acts on very short distances. As our knowledge of protein structure continues to expand, we are beginning to appreciate the role that weak carbon-donor hydrogen bonds play in structure and function. One property that differentiates hydrogen bonds from other packing forces is propensity for forming a linear donor-hydrogen-acceptor orientation. To ascertain if carbon-donor hydrogen bonds are able to direct acceptor linearity, we surveyed the geometry of interactions specifically involving aromatic sidechain ring carbons in a data set of high resolution protein structures. We found that while donor-acceptor distances for most carbon donor hydrogen bonds were tighter than expected for van der Waals packing, only the carbons of histidine showed a significant bias for linear geometry. By categorizing histidines in the data set into charged and neutral sidechains, we found only the charged subset of histidines participated in linear interactions. B3LYP/6-31G**++ level optimizations of imidazole and indole-water interactions at various fixed angles demonstrates a clear orientation dependence of hydrogen bonding capacity for both charged and neutral sidechains. We suggest that while all aromatic carbons can participate in hydrogen bonding, only charged histidines are able to overcome protein packing forces and enforce linear interactions. The implications for protein modeling and design are discussed.     

Aggregation of Lepidostomatidae in small mesh size litter-bags: implication to the leaf litter decomposition process

Invertebrate colonization during leaf litter decomposition was studied at the 2nd order of Yanase River, Iruma city, Saitama, Japan from November 13, 2002 to May 20, 2003. Two different mesh sizes (1 and 5 mm) of litter-bags were used to evaluate the decomposition of leaf litter of Sakura (Prunus lannesiana), bags were placed equally in riffle (water flow velocity: 0.2–0.6 m s⁻¹) and pool (water flow velocity: 0.04–0.06 m s⁻¹). Mass loss and invertebrates in the litter-bags were monitored at interval between 1 and 3 weeks, and the invertebrates were classified based on their functional feeding group. Among the invertebrates found inside the litter-bags, the case-bearing shredder Lepidostomatidae was the most dominant invertebrates and they were the early colonizer that appeared about 3 months after the litter-bags immersion. In absence or low number of leaf-shredders, the decomposition rates in 1 and 5 mm litter mesh bags followed the exponential (or first-order) decay kinetic (R ²: 0.72–0.92). However, the presence of a large number of leaf-shredders in 1 mm litter-bags caused an acceleration of decomposition process; that even resulted faster mass loss than the loss from the 5 mm mesh bags placed in riffle area (0.030 day⁻¹ vs. 0.011 day⁻¹). Our results shows the importance of using different mesh sizes of litter-bags in decomposition study, which is applicable to the experiment in lotic or lentic ecosystem. Using smaller mesh size of litter-bags can provide information on how significant the effect of detritus feeders on the decomposition process, while the bigger mesh size can represent better the natural decomposition process when a large number detritus feeders is present in the smaller mesh size of litter-bags.     

Flanking Microsatellite Markers for Breeding Varieties Against Asian Rice Gall Midge

The Asian rice gall midge, Orseolia oryzae Wood-Mason (Cecidomyiidae: Diptera) is a serious pest of wet season rice in South and Southeast Asia. Due to internal feeding habit and presence of biotypes of the pest, the most feasible way to control is breeding varieties resistant against multiple biotypes through marker-assisted breeding (MAB). But very few versatile co-dominant markers linked to the gall midge resistance genes are available. We used a set of F₉ recombinant inbred lines (RILs) of the cross TN1/PTB10 and identified microsatellite markers for the gall midge resistance gene in cv. PTB10 on short arm of rice chromosome 8. Markers RM22550 and RM547 flank the gene at a distance of 0.9 and 1.9 cM, respectively. Amplification of the markers in gall midge resistant and susceptible cultivars showed that these markers can be successfully used in MAB for development of gall midge resistant varieties.     

Effect of chromosome arrangements on mate recognition system leading to behavioral isolation in <Emphasis Type="Italic">Drosophila ananassae</Emphasis>

The mechanisms of speciation that appear in the early stages of reproductive isolation has been of recent interest to evolutionary biologists. Experiments were conducted to study behavioral isolation between karyotypically different homozygous strains derived from natural populations of Drosophila ananassae. Three mass cultures stocks established from flies collected from natural populations were employed and homozygous stocks (ST/ST and AL/AL) were made through selection for homozygosity. By employing male-choice technique, mating success was scored by direct observation in the Elens–Wattiaux mating chamber. There is preference for homogamic matings in all the three populations and the differences between homogamic and heterogamic matings are statistically significant in two populations (Lucknow and Varanasi). These findings provide evidence that there is incipient sexual isolation between karyotypically different strains of D. ananassae derived from natural populations which shows that chromosome arrangements may affect the mate recognition system in D. ananassae.     

HIV-1 Gag extension: conformational changes require simultaneous interaction with membrane and nucleic acid

The retroviral Gag polyprotein mediates viral assembly. The Gag protein has been shown to interact with other Gag proteins, with the viral RNA, and with the cell membrane during the assembly process. Intrinsically disordered regions linking ordered domains make characterization of the protein structure difficult. Through small-angle scattering and molecular modeling, we have previously shown that monomeric human immunodeficiency virus type 1 (HIV-1) Gag protein in solution adopts compact conformations. However, cryo-electron microscopic analysis of immature virions shows that in these particles, HIV-1 Gag protein molecules are rod shaped. These differing results imply that large changes in Gag conformation are possible and may be required for viral formation. By recapitulating key interactions in the assembly process and characterizing the Gag protein using neutron scattering, we have identified interactions capable of reversibly extending the Gag protein. In addition, we demonstrate advanced applications of neutron reflectivity in resolving Gag conformations on a membrane. Several kinds of evidence show that basic residues found on the distal N- and C-terminal domains enable both ends of Gag to bind to either membranes or nucleic acid. These results, together with other published observations, suggest that simultaneous interactions of an HIV-1 Gag molecule with all three components (protein, nucleic acid, and membrane) are required for full extension of the protein.     

Function‐based assessment of structural similarity measurements using metal co‐factor orientation

Structure comparison is widely used to quantify protein relationships. Although there are several approaches to calculate structural similarity, specifying significance thresholds for similarity metrics is difficult due to the inherent likeness of common secondary structure elements. In this study, metal co‐factor location is used to assess the biological relevance of structural alignments. The distance between the centroids of bound co‐factors adds a chemical and function‐relevant constraint to the structural superimposition of two proteins. This additional dimension can be used to define cut‐off values for discriminating valid and spurious alignments in large alignment sets. The hypothesis underlying our approach is that metal coordination sites constrain structural evolution, thus revealing functional relationships between distantly related proteins. A comparison of three related nitrogenases shows the sequence and fold constraints imposed on the protein structures up to 18 Å away from the centers of their bound metal clusters. Proteins 2014; 82:648–656. © 2013 Wiley Periodicals, Inc.