Molecular evolution of dimeric α-amylase inhibitor genes in wild emmer wheat and its ecological association

<p>Abstract</p> <p>Background</p> <p>α-Amylase inhibitors are attractive candidates for the control of seed weevils, as these insects are highly dependent on starch as an energy source. In this study, we aimed to reveal the structure and diversity of dimeric α-amylase inhibitor genes in wild emmer wheat from Israel and to elucidate the relationship between the emmer wheat genes and ecological factors using single nucleotide polymorphism (SNP) markers. Another objective of this study was to find out whether there were any correlations between SNPs in functional protein-coding genes and the environment.</p> <p>Results</p> <p>The influence of ecological factors on the genetic structure of dimeric α-amylase inhibitor genes was evaluated by specific SNP markers. A total of 244 dimeric α-amylase inhibitor genes were obtained from 13 accessions in 10 populations. Seventy-five polymorphic positions and 74 haplotypes were defined by sequence analysis. Sixteen out of the 75 SNP markers were designed to detect SNP variations in wild emmer wheat accessions from different populations in Israel. The proportion of polymorphic loci <it>P </it>(5%), the expected heterozygosity <it>He</it>, and Shannon's information index in the 16 populations were 0.887, 0.404, and 0.589, respectively. The populations of wild emmer wheat showed great diversity in gene loci both between and within populations. Based on the SNP marker data, the genetic distance of pair-wise comparisons of the 16 populations displayed a sharp genetic differentiation over long geographic distances. The values of <it>P</it>, <it>He</it>, and Shannon's information index were negatively correlated with three climatic moisture factors, whereas the same values were positively correlated by Spearman rank correlation coefficients' analysis with some of the other ecological factors.</p> <p>Conclusion</p> <p>The populations of wild emmer wheat showed a wide range of diversity in dimeric α-amylase inhibitors, both between and within populations. We suggested that SNP markers are useful for the estimation of genetic diversity of functional genes in wild emmer wheat. These results show significant correlations between SNPs in the α-amylase inhibitor genes and ecological factors affecting diversity. Ecological factors, singly or in combination, explained a significant proportion of the variations in the SNPs, and the SNPs could be classified into several categories as ecogeographical predictors. It was suggested that the SNPs in the α-amylase inhibitor genes have been subjected to natural selection, and ecological factors had an important evolutionary influence on gene differentiation at specific loci.</p

Polycyclic Aromatic Hydrocarbon and Emission Line Ratios in Active Galactic Nuclei and Starburst Galaxies

We study the Polycyclic Aromatic Hydrocarbons (PAH) bands, ionic emission lines, and Mid-infrared continuum properties, in a sample of 171 emission line galaxies taken from literature plus 15 new active galactic nuclei (AGN) Spitzer spectra. The continuum shape steeply rises for longer wavelengths and can be fitted with a warm blackbody distribution of T=150-300K. The brightest PAH spectral bands (6.2, 7.7, 8.6, 11.3, and 12.7$\mu$m) and the forbidden emission lines of [Si II] 34.8$\mu$m, [Ar II] 6.9, [S III] 18.7 and 33.4 were detected in all the Starbursts and in ~80% of the Seyfert~2. Taking under consideration only the PAH bands at 7.7$\mu$m, 11.3$\mu$m, and 12.7$\mu$m we find they are present in ~80% of the Seyfert 1, while only half of this type of activity show the 6.2$\mu$m and 8.6 PAH bands. The observed intensities ratios for neutral and ionized PAHs (6.2/7.7 x 11.3/7.7) were compared to theoretical intensity ratios, showing that AGNs have higher ionization fraction and larger PAH (> 180 carbon atoms) than SB galaxies. The ratio between the ionized (7.7) and the neutral PAH bands (8.6 and 11.3) are distributed over different ranges for AGNs and SB galaxies, suggesting that these ratios could depend on the ionization fraction, as well as on the hardness of the radiation field. The ratio between the 7.7 and 11.3 bands is nearly constant with the increase of [Ne III]15.5/[Ne II], indicating that the fraction of ionized to neutral PAH bands does not depend on the hardness of the radiation field. The equivalent width of both PAH features show the same dependence with [Ne III]/[Ne II], suggesting that the PAH, emitting either ionized (7.7) or neutral (11.3) bands, may be destroyed with the increase of the hardness of the radiation field.Comment: Accepted by Ap

Mid-Infrared Properties of the Swift Burst Alert Telescope Active Galactic Nuclei Sample of the Local Universe. I. Emission-Line Diagnostics

We compare mid-infrared emission-line properties, from high-resolution Spitzer spectra of a hard X-ray (14 -- 195 keV) selected sample of nearby (z < 0.05) AGN detected by the Burst Alert Telescope (BAT) aboard Swift. The luminosity distribution for the mid-infrared emission-lines, [O IV] 25.89 micron, [Ne II] 12.81 micron, [Ne III] 15.56 micron and [Ne V] 14.32/24.32 micron, and hard X-ray continuum show no differences between Seyfert 1 and Seyfert 2 populations, however six newly discovered BAT AGNs are under-luminous in [O IV], most likely the result of dust extinction in the host galaxy. The overall tightness of the mid-infrared correlations and BAT fluxes and luminosities suggests that the emission lines primarily arise in gas ionized by the AGN. We also compare the mid-infrared emission-lines in the BAT AGNs with those from published studies of ULIRGs, PG QSOs, star-forming galaxies and LINERs. We find that the BAT AGN sample fall into a distinctive region when comparing the [Ne III]/[Ne II] and the [O IV]/[Ne III] ratios. These line ratios are lower in sources that have been previously classified in the mid-infrared/optical as AGN than those found for the BAT AGN, suggesting that, in our X-ray selected sample, the AGN represents the main contribution to the observed line emission. These ratios represent a new emission line diagnostic for distinguishing between AGN and star forming galaxies.Comment: 54 pages, 9 Figures. Accepted for publication in The Astrophysical Journal

The GDH Sum Rule and Related Integrals

The spin structure of the nucleon resonance region is analyzed on the basis of our phenomenological model MAID. Predictions are given for the Gerasimov-Drell-Hearn sum rule as well as generalized integrals over spin structure functions. The dependence of these integrals on momentum transfer is studied and rigorous relationships between various definitions of generalized Gerasimov-Drell-Hearn integrals and spin polarizabilities are derived. These results are compared to the predictions of chiral perturbation theory and phenomenological models.Comment: 15 pages LaTeX including 5 figure

Impact of outgroup inclusion on estimates by parsimony of undirected branching of ingroup phylogenetic lines

Peer Reviewedhttps://deepblue.lib.umich.edu/bitstream/2027.42/149717/1/tax05029.pd

Measurement of the Proton and Deuteron Spin Structure Function g_1 in the Resonance Region

We have measured the proton and deuteron spin structure functions g_1^p and g_1^d in the region of the nucleon resonances for W^2 < 5 GeV^2 and $Q^2\simeq 0.5$ and $Q^2\simeq 1.2$ GeV^2 by inelastically scattering 9.7 GeV polarized electrons off polarized $^{15}NH_3$ and $^{15}ND_3$ targets. We observe significant structure in g_1^p in the resonance region. We have used the present results, together with the deep-inelastic data at higher W^2, to extract $\Gamma(Q^2)\equiv\int_0^1 g_1(x,Q^2) dx$. This is the first information on the low-Q^2 evolution of Gamma toward the Gerasimov-Drell-Hearn limit at Q^2 = 0.Comment: 7 pages, 2 figure

The Spin Structure of the Nucleon

We present an overview of recent experimental and theoretical advances in our understanding of the spin structure of protons and neutrons.Comment: 84 pages, 29 figure

Phylogenomics of non-model ciliates based on transcriptomic analyses

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