Massive Quiescent Cores in Orion: VI. The Internal Structures and a Candidate of Transiting Core in NGC 2024 Filament

We present a multi-wavelength observational study of the NGC 2024 filament using infrared to sub-millimeter continuum and the NH$_3$ $(1,1)$ and $(2,2)$ inversion transitions centered on FIR-3, the most massive core therein. FIR-3 is found to have no significant infrared point sources in the Spitzer/IRAC bands. But the NH$_3$ kinetic temperature map shows a peak value at the core center with $T_{\rm k}=25$ K which is significantly higher than the surrounding level ($T_{\rm k}=15-19$ K). Such internal heating signature without an infrared source suggests an ongoing core collapse possibly at a transition stage from first hydrostatic core (FHSC) to protostar. The eight dense cores in the filament have dust temperatures between 17.5 and 22 K. They are much cooler than the hot ridge ($T_{\rm d}=55$ K) around the central heating star IRS-2b. Comparison with a dust heating model suggests that the filament should have a distance of $3-5$ pc from IRS-2b. This value is much larger than the spatial extent of the hot ridge, suggesting that the filament is spatially separated from the hot region along the line of sight.Comment: 20 pages, 7 figures, 6 tables. Accepted to Ap

CPVIB-1, a GAGA Regulator of TOR Signaling Pathways in the Chestnut Blight Pathogen Cryphonectria Parasitica

Cryphonectria parasitica is the causal agent of chestnut blight, which devastated the American Chestnut tree population in the early 20th century. The discovery of hypoviruses that reduce the severity of the chestnut blight infection offers the potential for biological control. However, the spread of the hypoviruses is hampered by a diverse genetically controlled nonself-recognition system, vegetative incompatibility (vic). CPVIB-1 was identified as a transcription regulator playing an important role in the programmed cell death response to this stimulus. In this study, we have found that CPVIB-1 is ubiquitin-decorated which might lead to its degradation in the proteasome pathway. RNA-Seq and ChIP-Seq were used to further explore the downstream targets of CPVIB-1 that mediate the various metabolic changes that lead to the altered phenotype of the Δcpvib-1 mutant. Due to inaccuracies in the prior annotation, we performed a genome re-annotation to improve the accuracy using a MAKER2-two-pass pipeline. To validate the improvement a second pipeline, PEPA, was developed to compare quality metrics between the old and new annotations. Approximately 1/3 of the original annotations from 2009 were found to be inaccurate. Experimental confirmation by testing 27 predicted genes using a diagnostic PCR protocol to differentiate between prior and new transcript structures showed that over 80 % of tested genome locations supported for the new annotation. Using rapamycin treatment to mimic stimulation of the vic response and applying the RNA-seq and ChIP-seq data to this new information, we found that CPVIB-1 is related to TOR signaling pathways, promoting autophagy and the proteasome pathway, but repressing carbon metabolism, protein and lipid biosynthesis. In depth analysis of CPVIB-1-bound DNA targets showed that this protein is a member of the GAGA regulator family, a group of multifaceted transcription factors with diverse roles in gene activation and repression, maintenance of mitosis, and cell development. Following treatment with rapamycin the recognition sequence bound by CPBVIB-1 was altered leading to the regulation of different suite of genes with diverse metabolic functions. Ultimately, we have developed a revised model of TOR signaling pathway where TORC1 and TORC2 signaling pathways are connected by the action of CPVIB1

Structure of the regulatory domain of the LysR family regulator NMB2055 (MetR-like protein) from Neisseria meningitidis

Copyright @ 2012 International Union of CrystallographyThe crystal structure of the regulatory domain of NMB2055, a putative MetR regulator from Neisseria meningitidis, is reported at 2.5 Å resolution. The structure revealed that there is a disulfide bond inside the predicted effector-binding pocket of the regulatory domain. Mutation of the cysteines (Cys103 and Cys106) that form the disulfide bond to serines resulted in significant changes to the structure of the effector pocket. Taken together with the high degree of conservation of these cysteine residues within MetR-related transcription factors, it is suggested that the Cys103 and Cys106 residues play an important role in the function of MetR regulators.This study is funded by the Medical Research Council, with additional finance from the Biotechnology and Biological Science Research Council

A CO observation of the galactic methanol masers

Context: We investigated the molecular gas associated with 6.7 GHz methanol masers throughout the Galaxy using a J=1-0 transition of the CO isotopologues. Methods:Using the 13.7-meter telescope at the Purple Mountain Observatory (PMO), we have obtained ^{12}CO and ^{13}CO (1-0) lines for 160 methanol masers sources from the first to the third Galactic quadrants. We made efforts to resolve the distance ambiguity by careful comparison with the radio continuum and HI 21 cm observations. Results: First, the maser sources show increased ^{13}CO line widths toward the Galactic center, suggesting that the molecular gas are more turbulent toward the Galactic center. This trend can be noticeably traced by the ^{13}CO line width. Second, the ^{12}CO excitation temperature shows a noticeable correlation with the H_2 column density. A possible explanation consistent with the collapse model is that the higher surface-density gas is more efficient to the stellar heating and/or has a higher formation rate of high-mass stars. Third, comparing the IRDCs, the maser sources on average have significantly lower H_2 column densities, moderately higher temperatures, and similar line widths. Fourth, in the mapped regions, 51 ^{13}CO cores have been revealed. Only 17 coincide with the radio continuum emission (F_{cm}>6 mJy), while a larger fraction (30 cores) coincide with the infrared emissions. The IR-bright and radio-bright sources exhibit significantly higher $^{12}$CO excitation temperatures than the IR-faint and radio-faint sources, respectively. Conclusions: The 6.7 GHz masers show a moderately low ionization rate but have a common-existing stellar heating that generates the IR emissions. The relevant properties can be characterized by the ^{12}CO and ^{13}CO (1-0) emissions in several aspects as described above.Comment: 38 pages, 13 figures, 4 tables, accepted to Astronomy and Astrophysic