Nonrandom location of IS1 elements in the genomes of natural isolates of Escherichia coli

We have studied the spatial distribution of IS1 elements in the genomes of natural isolates comprising the ECOR reference collection of Escherichia coli. We find evidence for nonrandomness at three levels. Many pairs of IS1 elements are in much closer proximity (< 10 kb) than can be accounted for by chance. IS1 elements in close proximity were identified by long-range PCR amplification of the genomic sequence between them. Each amplified region was sequenced and its map location determined by database screening of DNA hybridization. Among the ECOR strains with at least two IS1 elements, 54% had one or more pairs of elements separated by < 10 kb. We propose that this type of clustering is a result of "local hopping," in which we assume that a significant proportion of tranposition events leads to the insertion of a daughter IS element in the vicinity of the parental element. A second level of nonrandomness is found in strains with a modest number of IS1 elements that are mapped through the use of inverse PCR to amplify flanking genomic sequences: in these strains, the insertion sites tend to be clustered over a smaller region of chromosome than would be expected by chance. A third level of nonrandomness is observed in the composite distribution of IS elements across strains: among 20 mapped IS1 elements, none were found in the region of 48-77 minutes, a significant gap. One region of the E. coli chromosome, at 98 min, had a cluster of IS1 elements in seven ECOR strains of diverse phylogenetic origin. We deduce from sequence analysis that this pattern of distribution is a result of initial insertion in the most recent common ancestor of these strains and therefore not a hot spot of insertion. Analysis using long- range PCR with primers for IS2 and IS3 also yielded pairs of elements in close proximity, suggesting that these elements may also occasionally transpose by local hopping.      

Resilience of an Australian savanna grassland to selective and non-selective perturbations

Abstract Using a randomized experimental design, plots of a savanna grassland were subjected to two levels of grass tuft removal (50% and 90%) in two ways; non-selective (all species removed in proportion to abundance) and selective (tufts of the most palatable species removed first, then the next most palatable, etc.). The plots were maintained in their cleared states for three years, then monitored for the next five. In general, the sward was resilient to the disturbance except for the 90% selectively cleared treatment, in which a dominant, palatable species (Themeda triandra) failed to recover (though die most palatable species, Sorghum plumosum, did recover). The recovery patterns were dependent on post-disturbance conditions, and markedly influenced by a particular rainy season and a fire during one of the dry seasons. In addition to species effects, the treatments induced changes in spatial patterning and associated micro-scale hydrology. These effects persisted in the 90% removal treatment. In this regard the results are scale-dependent, and the same percentage removals at different scales (e. g. 5 × 5 m patches rather than tuft × tuft scale) would lead to differences in ability to recover. In terms of value to livestock the selective 90% removal treatment was in a poor state at the end of die experiment. In all treatments die trajectory of species changes was back towards the controls, but the selective 90% plots were fully re-vegetated before this could be achieved. In these plots, the final steps to complete recovery will occur only after death of established new tufts.     

Taphonomy of modern and fossil intertidal gastropod associations from Isla Santa Cruz and Isla Santa Fe, Galápagos Islands

Examination of modern gastropod associations from the low intertidal zone of Isla Santa Cruz suggests that fossil rocky intertidal deposits from this tropical locality will be taphonomically compromised in three ways: (1) Marine hermit crabs, by their use of empty gastropod shells, will mix the shells from varying tidal heights and habitats, thus facilitating mixed associations of such shells in the fossil record, (2) encrusting organisms on crab-inhabited shells are abundant, while boring organisms are almost non-existent, indicating possible differences in postmortem shell retention, and (3) intertidal shells are further taphonomically altered by terrestrial hermit crabs, which transport the shells onto land as well as physically modify the shells. Gastropod fossils from beach and terrace deposits on Isla Santa Fe are interpreted to be a mixed assemblage of rocky intertidal assemblage with few shells indicating influence from marine hermit crabs. Modification of the shell by marine and terrestrial hermit crabs was also evident. A unique polish to the shells at one locality is attributed to the marine iguanas and is only found in the terrace site biologically bulldozed by egg-laying iguanas. Few studies exist on modern rocky intertidal associations in the Galápagos, and the fossil record of rocky shores may provide a baseline for future studies in how community structure has changed over since the advent of humans. Galapagos, C oenobita C ompressus , gastropods, humans, Gulf of California, bionts, nutrients.
Sally E. Walker, Department of Geology, The University of Georgia, Athens, Georgia, USA; 8th September, 1994; revised 28th June, 1995.     

Dietary specialization and fruit availability among frugivorous birds on Sulawesi

Over 20 months I collected data on the diet composition and fruit availability for 23 frugivorous bird species (pigeons, parrots, hornbills and passerines) in two lowland rain forests on Sulawesi, Indonesia. Using these data I determined species dependency on fruit, diet composition, diet breadth and the availability of their fruit resources. Fruit dependency ranged from 44 to 100% of diets across the assemblage, with significant inter-order differences reflecting shared evolutionary history within orders. By contrast, diet breadths did not differ between bird orders owing to high within-order variability, possibly as a result of species-specific foraging strategies. Overall, no significant relationship existed between fruit dependency and diet breadth, which indicated that they are not interchangeable measures of dietary specialization, but that each provided important information on dietary specialization, and enabled assessment of resource requirements and availability. The assemblage consumed the fruits of 120 species representing 40 plant families. Figs ( Ficus spp.) were of great importance across the assemblage and comprised 57% of all fruit-eating records. For hornbills, passerines and pigeons, figs accounted for substantial proportions of monthly feeding records (= 58%) and were consumed whatever the availability of other fruits. Figs were therefore a fundamental part of species' diets, possibly every month, and not merely important during times of relative scarcity of other fruit. Conservation of fig trees both inside and outside protected areas is likely to be important in maintaining healthy populations of figs and the frugivorous birds that depend on them.     

THE RELATION BETWEEN INFESTATION BY THE STALK BORER, BUSSEOLA FUSCA, AND YIELD OF MAIZE IN EAST AFRICA

The relation between yield and infestation by the maize stalk borer, Busseola fusca Fuller, is expressed as a series of regression lines for crops of different potential yields. The reasons are given for assuming that the regression is rectilinear, and that the regression coefficient b , or rate of fall in yield, is proportional to the maximum expected yield of the crop, that is that b
For the crops examined, the formula for a general regression line of yield, as hundreds of pounds of dry grain per acre, on infestation, as the percentage of plants attacked transformed to angles, is y = 45.1–0.55 x for a high-yielding area, and y = 14.55–0.23 x for a lower yielding crop. This is equivalent to a 35 lb./acre increase in grain yield for every 1% decrease in infestation for the higher yielding group, and 17 lb. increase per 1% decrease for the lower.
The applications of the relationship are discussed, in particular to studies of the economics of control by insecticides, and of the accuracy of methods of sampling infestations.     

Potassium Transport Across the Membranes of Chara: III. EFFECTS OF pH, INHIBITORS AND ILLUMINATION

Smith, J. R., Walker, N. A. and Smith, F. A. 1987. Potassiumtransport across the membranes of Chara. III. Effects of pH,inhibitors and illumination.—J. exp. Bot. 38: 778–787. The effects of several treatments, normally used to inhibitelectrogenic proton transport, upon the potassium permeability(P_k) of the membranes of Chara were examined by means of simultaneousmeasurements of the ⁴²K influx (ⁱⁿ_K) and the membrane electricalconductance (G_m). ⁱⁿ_K, P_K and G_mwere found to be substantiallyunaffected when the external pH (pH?) was varied over the range5?0 to 85. However, when pH? was increased to 11 it was foundthat, although G_m increased considerably, both P_k and ⁱⁿ_K decreasedtypically by an order of magnitude. When cells were placed intotal darkness, P_K decreased substantially only after one dayhad elapsed. For the particular experimental conditions used,the inhibitors DES, NaN₃, and La₃₊ were found to alter P_K, whereasDCCD left P_K substantially unaffected. These results suggestthat care must be taken with some common procedures used toexamine the electrical properties of the electrogenic protonpump. Key words: Potassium, pH, illumination, inhibitors     

The crown-gap ratio (C) and crown cover: Derivation and simulation study

The crown-gap ratio C is defined as the mean distance between adjacent crowns divided by the mean crown diameter. Previous field studies have established that for a limited range of vegetation stands crown cover is related to C by a general function, viz. crown cover = k/(1 + C)², where k is a constant. In the present study we investigated the general derivation of the function which relates crown cover to C. The function was then used to determine values for k, a range of point distributions being simulated from semi-regular to clumped, with mixtures of crown sizes. The relationship between crown cover and 1/(1 + C)² was linear in all cases tested (R²= 1.0). The value of k was shown to depend on the sampling technique used, the degree of clumping, and the range in crown sizes permitted. The variation in k was reduced by using a specific sampling method and limiting the range of spatial distributions and crown sizes considered. The constraints imposed were:

• 1 Sampling followed a zig-zag transect (Delaunay two-sided model).
• 2 Point distributions were not overly clumped.
• 3 The range of crown diameters approximated a Gaussian distribution with a relative range of 1–4.

Given these constraints the value of k was determined to be 0.806 with a variance of less than 2%. A table is given to convert values for C into crown cover percentages and, if required, to calculate foliage cover per cent. The constraints imposed are considered to be within conditions normally encountered in the field, making the use of C an accurate and simple method by which to estimate crown or foliage cover per cent.     

Effects of Applied IAA on the Position of Abscission Sites Induced in Wounded Explants from Impatiens sultani Internodes

Previous work established that if segments of Impatiens sultaniinternodes are explanted and incubated on a suitable medium,they tend to undergo abscission by a transverse separation layerthat differentiates a short distance above the explant base.The present study has shown that the position of the abscissionsite can be modified experimentally. When an explant was splitdown to midlength and auxin (IAA) was applied to the top ofone of the two arms, abscission often occurred at or near thebase of the other arm. Again, when IAA was applied to the explantlaterally midway along its length, abscission often occurredjust above the application point. These two modifications ofabscission sites had been predicted by a hypothesis statingthat separation layers tend to be positioned where auxin concentrationdecreases in the morphologically upward direction. Studies with[¹⁴C]IAA confirmed that the separation layers above the explantbase, and in the two experimentally modified sites, did indeedarise where the concentration decreased upwards. Also, woundingaltered the position of abscission in these explants in waysthat can be interpreted in terms of the above hypothesis coupledwith the destruction of auxin that occurs at wound surfaces.In this system, auxin is acting as a morphogen: its concentrationgradients provide positional information. Impatiens sullani Hook., abscission, auxin, IAA, morphogen, positional control, separation layer, wounding