Diagnostics of the molecular component of PDRs with mechanical heating. II: line intensities and ratios

CO observations in active galactic nuclei and star-bursts reveal high kinetic temperatures. Those environments are thought to be very turbulent due to dynamic phenomena such as outflows and high supernova rates. We investigate the effect of mechanical heating (MH) on atomic fine-structure and molecular lines, and their ratios. We use those ratios as a diagnostic to constrain the amount of MH in an object and also study its significance on estimating the H2 mass. Equilibrium PDRs models were used to compute the thermal and chemical balance for the clouds. The equilibria were solved for numerically using the optimized version of the Leiden PDR-XDR code. Large velocity gradient calculations were done as post-processing on the output of the PDR models using RADEX. High-J CO line ratios are very sensitive to MH. Emission becomes at least one order of magnitude brighter in clouds with n~10^5~cm^-3 and a star formation rate of 1 Solar Mass per year (corresponding to a MH rate of 2 * 10^-19 erg cm^-3 s^-1). Emission of low-J CO lines is not as sensitive to MH, but they do become brighter in response to MH. Generally, for all of the lines we considered, MH increases excitation temperatures and decreases the optical depth at the line centre. Hence line ratios are also affected, strongly in some cases. Ratios involving HCN are a good diagnostic for MH, such as HCN(1-0)/CO(1-0) and HCN(1-0)/HCO^+(1-0). Both ratios increase by a factor 3 or more for a MH equivalent to > 5 percent of the surface heating, as opposed to pure PDRs. The first major conclusion is that low-J to high-J intensity ratios will yield a good estimate of the MH rate (as opposed to only low-J ratios). The second one is that the MH rate should be taken into account when determining A_V or equivalently N_H, and consequently the cloud mass. Ignoring MH will also lead to large errors in density and radiation field estimates.Comment: 38 pages, to appear in A&

Radiative and mechanical feedback into the molecular gas of NGC 253

Starburst galaxies are undergoing intense periods of star formation. Understanding the heating and cooling mechanisms in these galaxies can give us insight to the driving mechanisms that fuel the starburst. Molecular emission lines play a crucial role in the cooling of the excited gas. With SPIRE on the Herschel Space Observatory we have observed the rich molecular spectrum towards the central region of NGC 253. CO transitions from J=4-3 to 13-12 are observed and together with low-J line fluxes from ground based observations, these lines trace the excitation of CO. By studying the CO excitation ladder and comparing the intensities to models, we investigate whether the gas is excited by UV radiation, X-rays, cosmic rays, or turbulent heating. Comparing the $^{12}$CO and $^{13}$CO observations to large velocity gradient models and PDR models we find three main ISM phases. We estimate the density, temperature,and masses of these ISM phases. By adding $^{13}$CO, HCN, and HNC line intensities, we are able to constrain these degeneracies and determine the heating sources. The first ISM phase responsible for the low-J CO lines is excited by PDRs, but the second and third phases, responsible for the mid to high-J CO transitions, require an additional heating source. We find three possible combinations of models that can reproduce our observed molecular emission. Although we cannot determine which of these are preferable, we can conclude that mechanical heating is necessary to reproduce the observed molecular emission and cosmic ray heating is a negligible heating source. We then estimate the mass of each ISM phase; $6\times 10^7$ M$_\odot$ for phase 1 (low-J CO lines), $3\times 10^7$ M$_\odot$ for phase 2 (mid-J CO lines), and $9\times 10^6$ M$_\odot$ for phase 3 (high-J CO lines) for a total system mass of $1\times10^{8}$ M$_\odot$

Constraining cloud parameters using high density gas tracers in galaxies

Far-infrared molecular emission is an important tool used to understand the excitation mechanisms of the gas in the inter-stellar medium of star-forming galaxies. In the present work, we model the emission from rotational transitions with critical densities n >~ 10^4 cm-3. We include 4-3 < J <= 15-14 transitions of CO and 13CO, in addition to J <= 7-6 transitions of HCN, HNC, and HCO+ on galactic scales. We do this by re-sampling high density gas in a hydrodynamic model of a gas-rich disk galaxy, assuming that the density field of the interstellar medium of the model galaxy follows the probability density function (PDF) inferred from the resolved low density scales. We find that in a narrow gas density PDF, with a mean density of ~10 cm-3 and a dispersion \sigma = 2.1 in the log of the density, most of the emission of molecular lines, emanates from the 10-1000 cm-3 part of the PDF. We construct synthetic emission maps for the central 2 kpc of the galaxy and fit the line ratios of CO and 13CO up to J = 15-14, as well as HCN, HNC, and HCO+ up to J = 7-6, using one photo-dissociation region (PDR) model. We attribute the goodness of the one component fits for our model galaxy to the fact that the distribution of the luminosity, as a function of density, is peaked at gas densities between 10 and 1000 cm-3. We explore the impact of different log-normal density PDFs on the distribution of the line-luminosity as a function of density, and we show that it is necessary to have a broad dispersion, corresponding to Mach numbers >~ 30 in order to obtain significant emission from n > 10^4 cm-3 gas. Such Mach numbers are expected in star-forming galaxies, LIRGS, and ULIRGS. By fitting line ratios of HCN(1-0), HNC(1-0), and HCO+(1-0) for a sample of LIRGS and ULIRGS using mechanically heated PDRs, we constrain the Mach number of these galaxies to 29 < M < 77.Comment: 13 pages, 11 figure

Diagnostics of the Molecular Component of PDRs with Mechanical Heating

Context. Multitransition CO observations of galaxy centers have revealed that significant fractions of the dense circumnuclear gas have high kinetic temperatures, which are hard to explain by pure photon excitation, but may be caused by dissipation of turbulent energy. Aims. We aim to determine to what extent mechanical heating should be taken into account while modelling PDRs. To this end, the effect of dissipated turbulence on the thermal and chemical properties of PDRs is explored. Methods. Clouds are modelled as 1D semi-infinite slabs whose thermal and chemical equilibrium is solved for using the Leiden PDR-XDR code. Results. In a steady-state treatment, mechanical heating seems to play an important role in determining the kinetic temperature of the gas in molecular clouds. Particularly in high-energy environments such as starburst galaxies and galaxy centers, model gas temperatures are underestimated by at least a factor of two if mechanical heating is ignored. The models also show that CO, HCN and H2 O column densities increase as a function of mechanical heating. The HNC/HCN integrated column density ratio shows a decrease by a factor of at least two in high density regions with n \sim 105 cm-3, whereas that of HCN/HCO+ shows a strong dependence on mechanical heating for this same density range, with boosts of up to three orders of magnitude. Conclusions. The effects of mechanical heating cannot be ignored in studies of the molecular gas excitation whenever the ratio of the star formation rate to the gas density is close to, or exceeds, 7 \times 10-6 M yr-1 cm4.5 . If mechanical heating is not included, predicted column densities are underestimated, sometimes even by a few orders of magnitude. As a lower bound to its importance, we determined that it has non-negligible effects already when mechanical heating is as little as 1% of the UV heating in a PDR.Comment: 26 pages, 14 figures in the text and 13 figures as supplementary material. Accepted for publication in A&

Minimal residual disease in Myeloma: Application for clinical care and new drug registration

The development of novel agents has transformed the treatment paradigm for multiple myeloma, with minimal residual disease (MRD) negativity now achievable across the entire disease spectrum. Bone marrow–based technologies to assess MRD, including approaches using next-generation flow and next-generation sequencing, have provided real-time clinical tools for the sensitive detection and monitoring of MRD in patients with multiple myeloma. Complementary liquid biopsy–based assays are now quickly progressing with some, such as mass spectrometry methods, being very close to clinical use, while others utilizing nucleic acid–based technologies are still developing and will prove important to further our understanding of the biology of MRD. On the regulatory front, multiple retrospective individual patient and clinical trial level meta-analyses have already shown and will continue to assess the potential of MRD as a surrogate for patient outcome. Given all this progress, it is not surprising that a number of clinicians are now considering using MRD to inform real-world clinical care of patients across the spectrum from smoldering myeloma to relapsed refractory multiple myeloma, with each disease setting presenting key challenges and questions that will need to be addressed through clinical trials. The pace of advances in targeted and immune therapies in multiple myeloma is unprecedented, and novel MRD-driven biomarker strategies are essential to accelerate innovative clinical trials leading to regulatory approval of novel treatments and continued improvement in patient outcomes

Convergent Evolution of Pain-Inducing Defensive Venom Components in Spitting Cobras

Preprint 20 páginas. The molecular data associated with species tree generation have been deposited to the nucleotide database of NCBI and the accession numbers are displayed in Table S7. The transcriptome data have been deposited in the SRA and TSA databases of NCBI and are associated with the BioProject accession number PRJA506018. Mass spectrometry data and database search results for top-down and bottom-up proteomic experiments are publicly available in the MassIVE repository under accession number MSV000081885 and in proteomXchange with accession number PXD008597.Convergent evolution provides unparalleled insights into the selective drivers underlying evolutionary change. While snakes use venom primarily for predation, and venom composition often reflects diet specificity, three lineages of spitting cobras have independently evolved the ability to use venom as a defensive projectile. Using gene, protein and functional analyses, we show that the three spitting lineages possess venom characterized by an upregulation of PLA2 toxins, which potentiate the action of venom cytotoxins to activate mammalian sensory neurons and cause enhanced pain. These repeated independent changes provide a fascinating example of convergent evolution across multiple phenotypic levels driven by exaptations. Notably, the timing of their origins suggests that defensive venom spitting may have evolved in response to the emergence of bipedal hominids in Africa and Asia.This work was funded from a studentship supported by Elizabeth Artin Kazandjian to T.D.K., grant PE 2600/1 from the German Research Foundation (DFG) to D.P., grant OPUS 1354156 from the US National Science Foundation to H.W.G., grants FAPESP 2017/18922-2 and 2019/05026-4 from the São Paulo Research Foundation to R.R.d.S, grants RPG-2012-627 and RFG-10193 from the Leverhulme Trust to R.A.H. and W.W., grant MR/L01839X/1 from the UK Medical Research Council to J.M.G., R.A.H., J.J.C. and N.R.C., fellowship DE160101142 from the Australian Research Council, and fellowship FRIPRO-YRT #287462 and grant DP160104025 from the Research Council of Norway to E.A.B.U., and a Sir Henry Dale Fellowship (200517/Z/16/Z) jointly funded by the Wellcome Trust and Royal Society to N.R.C.N

Marine Biodiversity in the Caribbean: Regional Estimates and Distribution Patterns

This paper provides an analysis of the distribution patterns of marine biodiversity and summarizes the major activities of the Census of Marine Life program in the Caribbean region. The coastal Caribbean region is a large marine ecosystem (LME) characterized by coral reefs, mangroves, and seagrasses, but including other environments, such as sandy beaches and rocky shores. These tropical ecosystems incorporate a high diversity of associated flora and fauna, and the nations that border the Caribbean collectively encompass a major global marine biodiversity hot spot. We analyze the state of knowledge of marine biodiversity based on the geographic distribution of georeferenced species records and regional taxonomic lists. A total of 12,046 marine species are reported in this paper for the Caribbean region. These include representatives from 31 animal phyla, two plant phyla, one group of Chromista, and three groups of Protoctista. Sampling effort has been greatest in shallow, nearshore waters, where there is relatively good coverage of species records; offshore and deep environments have been less studied. Additionally, we found that the currently accepted classification of marine ecoregions of the Caribbean did not apply for the benthic distributions of five relatively well known taxonomic groups. Coastal species richness tends to concentrate along the Antillean arc (Cuba to the southernmost Antilles) and the northern coast of South America (Venezuela – Colombia), while no pattern can be observed in the deep sea with the available data. Several factors make it impossible to determine the extent to which these distribution patterns accurately reflect the true situation for marine biodiversity in general: (1) highly localized concentrations of collecting effort and a lack of collecting in many areas and ecosystems, (2) high variability among collecting methods, (3) limited taxonomic expertise for many groups, and (4) differing levels of activity in the study of different taxa