Characterization of the four genes encoding cytoplasmic ribosomal protein S15a in Arabidopsis thaliana

Eukaryotic cytosolic ribosomes are composed of two distinct subunits consisting of four individual ribosomal RNAs and, in Arabidopsis thaliana, 81 ribosomal proteins. Functional subunit assembly is dependent on the production of each ribosomal component. Arabidopsis thaliana r-protein genes exist in multi-gene families ranging in size from two to seven transcriptionally active members. The cytosolic RPS15a gene family consists of four members (RPS15aA, -C, -D and -F) that, at the amino acid level, share 87-100% identity. Using semi-quantitative RT-PCR I have shown that RPS15aC is not expressed and that transcript abundance differs both spatially and temporally among the remaining RPS15a genes in non-treated Arabidopsis tissues and in seedlings following a variety of abiotic stresses. A comprehensive analysis of the RPS15a 5' regulatory regions (RRs) using a series of deletion constructs was used to determine the minimal region required for gene expression and identify putative cis-regulatory elements. Transcription start site mapping using 5' RACE indicated multiple sites of initiation for RPS15aA and -F and only a single site for RPS15aD while all three genes contain a leader intron upstream of the start codon. Analysis of reporter gene activity in transgenic Arabidopsis containing a series of 5' RR deletion::GUS fusions showed that, similar to previous RT-PCR results, there was a trend for mitotically active tissues to stain for GUS activity. Putative cis-elements including the TELO box, PCNA Site II motif and pollen specific elements were identified. However, there was not always a clear correlation between the presence of a putative element and RPS15a transcript abundance or GUS activity. Although variation in transcriptional activity of each RPS15a gene has been observed, subcellular localization of both RPS15aA and -D in the nucleolus has been confirmed in planta by confocal microscopy. The results of this thesis research suggest while all three active RPS15a genes are transcriptionally regulated, additional post-transcriptional and/or translational regulation may be responsible for final RPS15a levels while differential isoform incorporation into ribosomal subunits may be the final point of r-protein regulation

Estimating Pasture Land Cover in the New England Region of Northern New South Wales

Land cover across the southern Australian temperate agricultural region comprises primarily of native pasture, introduced improved pastures and crops for livestock production and also perennial remnant vegetation. A feed-base pasture audit was carried out throughout southern Australia commencing mid-year 2011 (Donald and Burge 2012; Donald et al. 2012). The purpose of the audit was to map and analyse information obtained about the pasture feed-base for livestock production by surveying Statistical Local Areas (SLAs) across the southern states. The purpose of this Feed-Base audit was to survey pastures within agricultural NSW, Victoria, Tasmania, South Australia and South-Western Australia, collate these data into an organised database, and prepare a short report and summarise by tabulating and mapping pasture species abundance and distribution. Data collected were based on “desk-top estimates” by state district agronomists and agricultural consultants. In this paper a method using satellite imagery is described on how more objective assessments of pasture types can be provided as a means to discriminate between the SLA’s major pasture classes far more objectively than by visual assessment. Satellite remote sensing may be used to define landcover classes for large regional areas. A number of procedures have been developed to discriminate between pastures, crop and woody vegetation (for example Hill et al. 1997, Emelyanova et al. 2008). In the Hill study (Hill et al. 1997) NOAA AVHRR NDVI provided spatial land cover maps of pasture cover at 1 km resolution. The classifications results in that study showed that satellite information may be used to help in the interpretation of pasture survey results, and in turn, the survey data can provide some validation data for the pasture types ascribed to the remotely sensed classes. In this study daily temporal continental scale imagery from 250 m2 resolution TERRA and AQUA satellite Moderate Resolution Imaging Spectroradiometer (MODIS) normalised difference vegetation index (NDVI) composited into weekly continental images provided a means to assess temporal profile of spectral greenness over the growing season

Theoretical Study of Electronic Structure and Superconductivity in Nb_(1-x)B_2 Alloys

Using the Korringa-Kohn-Rostoker coherent-potential approximation in the atomic-sphere approximation (KKR-ASA CPA) we have studied the changes in the electronic structure and the superconducting transition temperature T_{c} in Nb_{1-x}B_{2} alloys as a function of x. We find that the variation in the electronic structure of Nb_{1-x}B_{2} alloys as a function of x is consistent with the rigid-band model. However, the variation of T_{c}, obtained using the Allen-Dynes equation within the Gaspari-Gyorffy formalism to estimate the electron-phonon matrix elements, does not follow the expected trend. We associate this disagreement to the use of a constant \omega_{rms} in the Allen-Dynes equation over the whole range of vacancy concentration, thereby indicating the importance of lattice dynamical effects in these systems.Comment: 10 pages, 4 figure

From free-energy profiles to activation free energies

Given a chemical reaction going from reactant (R) to the product (P) on a potential energy surface (PES) and a collective variable (CV) discriminating between R and P, we define the free-energy profile (FEP) as the logarithm of the marginal Boltzmann distribution of the CV. This FEP is not a true free energy. Nevertheless, it is common to treat the FEP as the “free-energy” analog of the minimum potential energy path and to take the activation free energy, ΔF‡ RP, as the difference between the maximum at the transition state and the minimum at R. We show that this approximation can result in large errors. The FEP depends on the CV and is, therefore, not unique. For the same reaction, different discriminating CVs can yield different ΔF‡ RP. We derive an exact expression for the activation free energy that avoids this ambiguity. We find ΔF‡ RP to be a combination of the probability of the system being in the reactant state, the probability density on the dividing surface, and the thermal de Broglie wavelength associated with the transition. We apply our formalism to simple analytic models and realistic chemical systems and show that the FEP-based approximation applies only at low temperatures for CVs with a small effective mass. Most chemical reactions occur on complex, high-dimensional PES that cannot be treated analytically and pose the added challenge of choosing a good CV. We study the influence of that choice and find that, while the reaction free energy is largely unaffected, ΔF‡ RP is quite sensitive

Local Ferroelectricity in SrTiO_3 Thin Films

The temperature-dependent polarization of SrTiO_3 thin films is investigated using confocal scanning optical microscopy. A homogeneous out-of-plane and inhomogeneous in-plane ferroelectric phase are identified from images of the linear electrooptic response. Both hysteretic and non-hysteretic behavior are observed under a dc bias field. Unlike classical transitions in bulk ferroelectrics, local ferroelectricity is observed at temperatures far above the dielectric permittivity maximum. The results demonstrate the utility of local probe experiments in understanding inhomogeneous ferroelectrics.Comment: 8 pages, 3 figures, accepted for publication in PR

Domestication of the Annual Legume \u3cem\u3eTrigonella balansae\u3c/em\u3e for Mixed Farming Systems in Southern Australia

An accession of the annual legume Trigonella balansae Boiss. and Reuter. has been selected for commercial release in Australia. The annual legume has significant potential as a self-regenerating pasture within mixed farming systems. As part of a duty-of-care assessment, we tested the hypothesis that sheep grazing the trigonella cultivar will have similar liveweight, condition scores, health and wool production to sheep grazing two widely adopted annual legumes, subterranean clover (Trifolium subterraneum L. cv Dalkeith) and French serradella (Ornithopus sativus Brot. cv. Erica). Forage dry matter digestibility (DMD), crude protein (CP), fibre, mineral content and isoflavones were measured across the plant’s lifecycle. The data supported the hypotheses and there were no significant differences in liveweight, wool growth, wool yield or condition score that were associated with pasture species. The mineral content of trigonella requires further investigation

Hole Superconductivity in MgB2Mg B_2: a high TcT_c cuprate without Cu

The theory of hole superconductivity explains high temperature superconductivity in cuprates as driven by pairing of hole carriers in oxygen $p\pi$ orbitals in the highly negatively charged $Cu-O$ planes. The pairing mechanism is hole undressing and is Coulomb-interaction driven. We propose that the planes of $B$ atoms in $Mg B_2$ are akin to the $Cu-O$ planes without $Cu$, and that the recently observed high temperature superconductivity in $Mg B_2$ arises similarly from undressing of hole carriers in the planar boron $p_{x,y}$ orbitals in the negatively charged $B^-$ planes. Doping $Mg B_2$ with electrons and with holes should mirror the behavior of underdoped and overdoped high $T_c$ cuprates respectively. We discuss possible ways to achieve higher transition temperatures in boron compounds based on this theory.Comment: A section on isotope effect has been added, as well as other minor change

Improving the Feeding Value of Dryland Lucerne in Australia

Lucerne (Medicago sativa L.) is the most widely grown perennial legume species in southern Australia. Within Australian farming systems it plays an important role in the provision of high-quality feed for livestock, nitrogen fixation and dewatering soils to reduce watertable recharge and dryland salinity (Cocks 2001). The majority of lucerne varieties have been developed for the areas with high rainfall or supplementary irrigation. The new challenge is to develop lucerne cultivars specifically for dryland mixed farming systems in temperate and mediterranean climate zones (Humphries and Auricht, 2001). Persistence in these environments and feeding value to sheep are critical selection traits. In this paper we compare nutritive traits of 35 commercial and experimental accessions of lucerne, sampled during the vegetative phase, and test the hypothesis that there will be significant differences between the accessions for in vitro dry matter digestibility (DMD), crude protein (CP), acid detergent fibre (ADF), neutral detergent fibre (NDF) and hemicellulose