Root movements: Towards an understanding through attempts to model the processes involved

Roots have the ability to change the direction of their forward growth. Sometimes these directional changes are rapid, as in mutations, or they are slower, as in tropisms. The gravitational force is always present and roots have an efficient graviperception mechanism which enables them to initiate gravitropic movements. In trying to model and simulate the course of gravitropic root movements with a view to analyse the component processes, the following aspects of the plant's interaction with gravity have been considered: (1) The level of organization (organism, organ, cell) at which the movement process is expressed; (2) whether the gravity stimulation event is dynamic or static (i.e. whether or not physiologically significant displacements take place with respect to the gravity vector); (3) the sub-systems involved in movement and the processes which they regulate; (4) the mathematical characterization of the relevant sub-systems. A further allied topic is the nature of nutational movements and whether they are linked with gravitropic movements in some way. In considering how they can best be modelled, two types of nutational movements are proponed: stochastic nutation and circumnutation. Most, if not all, natural movements developed in response to static gravistimulation can be viewed as gravimorphisms. This applies at the levels of cell, organ and organism. However, when a system at any one of these levels experiences dynamic gravistimulation, because of its inherent homeostatic properties, it is induced to regenerate a state similar to that previously held. Thus, gravitropism is a regenerative gravimorphic process at the level of the organ.     

A review of hybridization in marine angelfishes (Perciformes: Pomacanthidae)

Synopsis Although hybridization of terrestrial and freshwater organisms has been well-studied, very little work has focused on hybridization among coral reef fish species. In the present paper, eleven examples of probable hybrids between marine angelfishes (Pomacanthidae) are reviewed. Evidence is presented which strongly suggests that the nominal speciesApolemichthys armitagei is invalid and that specimens previously identified as this species represent hybrids betweenA. trimaculatus andA. xanthurus. Of the remaining ten probable pomacanthid hybrids, five are inCentropyge (C. eibli x C. flavissimus, C. eibli x C. vrolikii, C. flavissimus x C. vrolikii, C. loricu0lus x C. potteri, andC. multifasciatus x C. venustus); one inHolacanthus (H. bermudensis x H. ciliaris), and four inPomacanthus (P. arcuatus x P. paru, P. chrysurus x P. maculosus, P. maculosus x P. semicirculatus, andP. sexstriatus x P. xanthometapon). An additional five examples of possible pomacanthid hybrids are described, two inCentropyge, two inChaetodontoplus and one inPomacanthus. Examination of hybrids may provide clues on reproductive behavior, dispersal capabilities, and phylogenetic relationships of species. More studies on hybridization in coral reef fish species, particularly those involving molecular techniques, are needed.     

Intrinsic pKas of ionizable residues in proteins: An explicit solvent calculation for lysozyme

Molecular dynamics simulations of triclinic hen egg white lysozyme in aqueous solution were performed to calculate the intrinsic pK_as of 14 ionizable residues. An all-atom model was used for both solvent and solute, and a single 180 ps simulation in conjunction with a Gaussian fluctuation analysis method was used. An advantage of the Gaussian fluctuation method is that it only requires a single simulation of the system in a reference state to calculate all the pK_as in the protein, in contrast to multiple simulations for the free energy perturbation method. pK_int shifts with respect to reference titratable residues were evaluated and compared to results obtained using a finite difference Poisson-Boltzmann (FDPB) method with a continuum solvent model; overall agreement with the direction of the shifts was generally observed, though the magnitude of the shifts was typically larger with the explicit solvent model. The contribution of the first solvation shell to the total charging free energies of the titratable groups was explicitly evaluated and found to be significant. Dielectric shielding between pairs of titratable groups was examined and found to be smaller than expected. The effect of the approximations used to treat the long-range interactions on the pK_int shifts is discussed. © 1994 Wiley-Liss, Inc.     

PEAK SHIFTS AND POLYMORPHISM DURING PHASE THREE OF WRIGHT'S SHIFTING-BALANCE PROCESS

The third phase of Wright's shifting-balance theory involves the export of adaptive gene combinations from one subpopulation to another. Previous results have demonstrated that this can occur at very low migration rates, but it has been argued that this simply reflects the ability of migration to overcome selection and fix any (even deleterious) alleles. Here, previous analyses are extended by concentrating on the critical balance between forward and reverse migration rates that still allows phase III to proceed. It is shown that selective advantage, dominance, recombination rate, and the number of loci all affect the ability of a genotype to invade and become fixed in a new subpopulation, but it is unlikely that phase III will occur in the absence of differential migration unless the invading genotype consists of a few dominant loci with a large selection advantage, spreading into a few populations of lower fitness. Therefore, as was envisioned by Wright, differential migration from more to less fit populations will be necessary for phase III to occur under most circumstances.     

Ethnobotany of Atlantic Forest coastal communities: Diversity of plant uses in Gamboa (Itacuruçá island,Brazil)

Local plants are a very important resource for the community of Gamboa, located at Itacuruçá Island, Sepetiba Bay, State of Rio de Janeiro, Brazil Ninety species of plants, belonging to 40 families, are used for a variety of purposes, such as food, construction, handicraft, and medicine. In a survey medicinal uses for plants were the most quoted by the community. Uses of medicinal plants within Gamboa and with other coastal communities are analyzed using diversity indices. Use by different categories of people based on sex, age, and economic activity was compared and significant differences were found among the groups compared, except for economic categories (fishermen and non-fishermen). The theory of island biogeography is shown to be useful for analyzing different levels of resource uses on different islands.     

The Role of Protons in the Auxin-induced Root Growth Inhibition - A Critical Reexamination

According to the acid growth theory of auxin action, it has been proposed that auxin decreases root growth by inhibiting the proton pump, thus causing an alkalinization of the apoplast. This paper critically tests this hypothesis with corn (Zea mays L.) roots. It was found that: i) the pH-growth curve for roots exhibits a broad optimum ranging from pH 4.5 to 9. ii) Any acid-induced growth is of very short duration, iii) The low sensitivity of root growth to external pH is independent of both the pump activity and the buffer capacity of the bathing solution, iv) Neither incubation in acidic buffer nor stimulation of the proton pump reverts the auxin-induced root growth inhibition. It is concluded that the auxin-induced root growth inhibition is not mediated by cell wall alkalinization.     

Selective incorporation of 5-hydroxytryptophan blocks long range electron transfer in oxalate decarboxylase

Oxalate decarboxylase from Bacillus subtilis is a binuclear Mn-dependent acid stress response enzyme that converts the mono-anion of oxalic acid into formate and carbon dioxide in a redox neutral unimolecular disproportionation reaction. A π-stacked tryptophan dimer, W96 and W274, at the interface between two monomer subunits facilitates long-range electron transfer between the two Mn ions and plays an important role in the catalytic mechanism. Substitution of W96 with the unnatural amino acid 5-hydroxytryptophan leads to a persistent EPR signal which can be traced back to the neutral radical of 5-hydroxytryptophan with its hydroxyl proton removed. 5-Hydroxytryptophan acts as a hole sink preventing the formation of Mn(III) at the N-terminal active site and strongly suppresses enzymatic activity. The lower boundary of the standard reduction potential for the active site Mn(II)/Mn(III) couple can therefore be estimated as 740 mV against the normal hydrogen electrode at pH 4, the pH of maximum catalytic efficiency. Our results support the catalytic importance of long-range electron transfer in oxalate decarboxylase while at the same time highlighting the utility of unnatural amino acid incorporation and specifically the use of 5-hydroxytryptophan as an energetic sink for hole hopping to probe electron transfer in redox proteins.