The Role of XPG in Processing (CAG)n/(CTG)n DNA Hairpins

BACKGROUND: During DNA replication or repair, disease-associated (CAG)n/(CTG)n expansion can result from formation of hairpin structures in the repeat tract of the newly synthesized or nicked DNA strand. Recent studies identified a nick-directed (CAG)n/(CTG)n hairpin repair (HPR) system that removes (CAG)n/(CTG)n hairpins from human cells via endonucleolytic incisions. Because the process is highly similar to the mechanism by which XPG and XPF endonucleases remove bulky DNA lesions during nucleotide excision repair, we assessed the potential role of XPG in conducting (CAG)n/(CTG)n HPR. RESULTS: To determine if the XPG endonuclease is involved in (CAG)n/(CTG)n hairpin removal, two XPG-deficient cell lines (GM16024 and AG08802) were examined for their ability to process (CAG)n/(CTG)n hairpins in vitro. We demonstrated that the GM16024 cell line processes all hairpin substrates as efficiently as HeLa cells, and that the AG08802 cell line is partially defective in HPR. Analysis of repair intermediates revealed that nuclear extracts from both XPG-deficient lines remove CAG/CTG hairpins via incisions, but the incision products are distinct from those generated in HeLa extracts. We also show that purified recombinant XPG protein greatly stimulates HPR in XPG-deficient extracts by promoting an incision 5\u27 to the hairpin. CONCLUSIONS: Our results strongly suggest that 1) human cells possess multiple pathways to remove (CAG)n/(CTG)n hairpins located in newly synthesized (or nicked) DNA strand; and 2) XPG, although not essential for (CAG)n/(CTG)n hairpin removal, stimulates HPR by facilitating a 5\u27 incision to the hairpin. This study reveals a novel role for XPG in genome-maintenance and implicates XPG in diseases caused by trinucleotide repeat expansion

Phosphorylated serine 28 of histone H3 is associated with destabilized nucleosomes in transcribed chromatin

Histone modifications and variants have key roles in the activation and silencing of genes. Phosphorylation of histone H3 at serine 10 and serine 28 is involved in transcriptional activation of genes responding to stress or mitogen-stimulated signaling pathways. The distribution of H3-modified isoforms in G0 phase chicken erythrocyte chromatin was investigated. H3 phosphorylated at serine 28 was found highly enriched in the active/competent gene fractions, as was H3 di- and trimethylated at lysine 4. The H3 variant H3.3 in this chromatin fraction was preferentially phosphorylated at serine 28. Conversely, H3 phosphorylated at serine 10 was present in all chromatin fractions, while H3 dimethylated at lysine 9 was associated with the chromatin-containing repressed genes. H3 phosphorylated at serine 28 was located at the promoter region of the transcriptionally active, but not competent, histone H5 and β-globin genes. We provide evidence that H3.3 phosphorylated at serine 28 was present in labile nucleosomes. We propose that destabilized nucleosomes containing H3.3 phosphorylated at serine 28 aid in the dynamic disassembly–assembly of nucleosomes in active promoters

Australobius polyspinipes sp. n., a new species of Australobius Chamberlin, 1920 (Lithobiomorpha: Lithobiidae) from China

Australobius polyspinipes sp. n. (Lithobiomorpha: Lithobiidae) was recently discovered from Tianheshan Mountain, Hebei Province, China, and it is described here. Morphologically the new species is similar to A. nodulus Ma, Song &Zhu, 2008 and A. magnus (Trozina, 1894), both recorded from China. The new species can be easily distinguished from those by having 7+7–8+8 coxosternal teeth, 10–12 ocelli on each side of the cephalic plate, 5+5 spurs on the first article of the female gonopods and differences in plectrotaxy of legs. The main morphological characters and a key to the known Chinese species of genus Australobius based on adult specimens is presented

Early chemical diagenesis, sediment-water solute exchange, and storage of reactive organic matter near the mouth of the Changjiang, East China Sea

【Abstract】A substantial proportion of the material delivered to the modern oceans is supplied by a few large rivers such as the Changjiang. Early diagenetic reactions in surficial bottom sediments determine in large part both the eventual influence of these rivers on the sea and the nature of sedimentary deposits formed. The region off the mouth of the Changjiang exemplifies the interplay between physical, chemical, and biological factors which can produce particular spatial patterns of diagenesis and sediment-water exchange. To examine these patterns measurement of pore water solute profiles, sediment-water solute fluxes, and solute reaction rates in the upper few decimeters of sediment were made at 27 stations near the Changjiang in the East China Sea. Direct measurements of dissolved Si(OH)4, NH4+, and NO3−, fluxes from or into bottom sediments made during summer and autumn periods (15 to 24°C) range from 0.13 to 13.2, −2.6 to 3.4, and −1.4 to 3.2mmol m−2 day−1, respectively. Net solute flux from the sea floor is often lowest from deposits having the highest interstitial solute concentrations. In addition, bottom regions having the highest build up of reaction products or depletion of reactants in pore waters (with respect to overlying water) actually have the lowest rates of reaction. These same areas of elevated (products) or depleted (reactants) pore water solute concentrations, low reaction rates, and low net rate of solute exchange which are located near the mouth of the Changjiang are sites of high sedimentation rates and depauperate benthic communities. High water turbidity and resuspension apparently hinder water column production and input of reactive organic matter or other biogenic material which drive many diagenetic reactions. Rapid sedimentation or disturbance hinders benthic community development, lowers biogenic reworking, and allows build up or depletion of reaction products or reactants in bottom sediments. Offshore areas of lower sedimentation, higher productivity, and active bottom communities are sites of high initial reaction rates and increased sediment-water solute exchange compared with rapid sedimentation regions. A diagenetic paradox resulting from the interaction between benthic communities and the physical environment of sedimentation is that proportionally the greatest storage of diagenetic products related to organic matter decomposition can occur in sediments that are initially the least diagenetically reactive

Asteroseismic based estimation of the surface gravity for the LAMOST giant stars

Asteroseismology is one of the most accurate approaches to estimate the surface gravity of a star. However, most of the data from the current spectroscopic surveys do not have asteroseismic measurements, which is very expensive and time consuming. In order to improve the spectroscopic surface gravity estimates for a large amount of survey data with the help of the small subset of the data with seismic measurements, we set up a support vector regression model for the estimation of the surface gravity supervised by 1,374 LAMOST giant stars with Kepler seismic surface gravity. The new approach can reduce the uncertainty of the estimates down to about 0.1 dex, which is better than the LAMOST pipeline by at least a factor of 2, for the spectra with signal-to-noise ratio higher than 20. Compared with the logg estimated from the LAMOST pipeline, the revised logg values provide a significantly improved match to the expected distribution of red clump and RGB stars from stellar isochrones. Moreover, even the red bump stars, which extend to only about 0.1 dex in logg, can be discriminated from the new estimated surface gravity. The method is then applied to about 350,000 LAMOST metal-rich giant stars to provide improved surface gravity estimates. In general, the uncertainty of the distance estimate based on the SVR surface gravity can be reduced to about 12% for the LAMOST data.Comment: 16 pages, 13 figures, accepted for publication in Ap