dd-abelian quotients of (d+2)(d+2)-angulated categories

Let ${\mathscr T}$ be a triangulated category. If $T$ is a cluster tilting object and $I = [ \operatorname{add} T ]$ is the ideal of morphisms factoring through an object of $\operatorname{add} T$, then the quotient category ${\mathscr T} / I$ is abelian. This is an important result of cluster theory, due to Keller-Reiten and K\"{o}nig-Zhu. More general conditions which imply that ${\mathscr T} / I$ is abelian were determined by Grimeland and the first author. Now let ${\mathscr T}$ be a suitable $( d+2 )$-angulated category for an integer $d \geqslant 1$. If $T$ is a cluster tilting object in the sense of Oppermann-Thomas and $I = [ \operatorname{add} T ]$ is the ideal of morphisms factoring through an object of $\operatorname{add} T$, then we show that ${\mathscr T} / I$ is $d$-abelian. The notions of $( d+2 )$-angulated and $d$-abelian categories are due to Geiss-Keller-Oppermann and Jasso. They are higher homological generalisations of triangulated and abelian categories, which are recovered in the special case $d = 1$. We actually show that if $\Gamma = \operatorname{End}_{ \mathscr T }T$ is the endomorphism algebra of $T$, then ${\mathscr T} / I$ is equivalent to a $d$-cluster tilting subcategory of $\operatorname{mod} \Gamma$ in the sense of Iyama; this implies that ${\mathscr T} / I$ is $d$-abelian. Moreover, we show that $\Gamma$ is a $d$-Gorenstein algebra. More general conditions which imply that ${\mathscr T} / I$ is $d$-abelian will also be determined, generalising the triangulated results of Grimeland and the first author.Comment: 19 pages. This is the final accepted version, which has been accepted for publication in the Journal of Algebr

Reassessment of the evolution of wheat chromosomes 4A, 5A, and 7B.

Key messageComparison of genome sequences of wild emmer wheat and Aegilops tauschii suggests a novel scenario of the evolution of rearranged wheat chromosomes 4A, 5A, and 7B. Past research suggested that wheat chromosome 4A was subjected to a reciprocal translocation T(4AL;5AL)1 that occurred in the diploid progenitor of the wheat A subgenome and to three major rearrangements that occurred in polyploid wheat: pericentric inversion Inv(4AS;4AL)1, paracentric inversion Inv(4AL;4AL)1, and reciprocal translocation T(4AL;7BS)1. Gene collinearity along the pseudomolecules of tetraploid wild emmer wheat (Triticum turgidum ssp. dicoccoides, subgenomes AABB) and diploid Aegilops tauschii (genomes DD) was employed to confirm these rearrangements and to analyze the breakpoints. The exchange of distal regions of chromosome arms 4AS and 4AL due to pericentric inversion Inv(4AS;4AL)1 was detected, and breakpoints were validated with an optical Bionano genome map. Both breakpoints contained satellite DNA. The breakpoints of reciprocal translocation T(4AL;7BS)1 were also found. However, the breakpoints that generated paracentric inversion Inv(4AL;4AL)1 appeared to be collocated with the 4AL breakpoints that had produced Inv(4AS;4AL)1 and T(4AL;7BS)1. Inv(4AS;4AL)1, Inv(4AL;4AL)1, and T(4AL;7BS)1 either originated sequentially, and Inv(4AL;4AL)1 was produced by recurrent chromosome breaks at the same breakpoints that generated Inv(4AS;4AL)1 and T(4AL;7BS)1, or Inv(4AS;4AL)1, Inv(4AL;4AL)1, and T(4AL;7BS)1 originated simultaneously. We prefer the latter hypothesis since it makes fewer assumptions about the sequence of events that produced these chromosome rearrangements

The c2d Spitzer Spectroscopic Survey Of Ices Around Low-Mass Young Stellar Objects. I. H2O And The 5-8 Mu M Bands

To study the physical and chemical evolution of ices in solar-mass systems, a spectral survey is conducted of a sample of 41 low-luminosity YSOs (L similar to 0.1-10 L-circle dot) using 3-38 mu m Spitzer and ground-based spectra. The sample is complemented with previously published Spitzer spectra of background stars and with ISO spectra of well-studied massive YSOs (L similar to 10(5) L-circle dot). The long-known 6.0 and 6.85 mu m bands are detected toward all sources, with the Class 0-type YSOs showing the deepest bands ever observed. The 6.0 mu m band is often deeper than expected from the bending mode of pure solid H2O. The additional 5-7 mu m absorption consists of five independent components, which, by comparison to laboratory studies, must be from at least eight different carriers. Much of this absorption is due to simple species likely formed by grain surface chemistry, at abundances of 1%-30% for CH3OH, 3%-8% for NH3, 1%-5% for HCOOH, similar to 6% for H2CO, and similar to 0.3% for HCOO- relative to solid H2O. The 6.85 mu m band has one or two carriers, of which one may be less volatile than H2O. Its carrier(s) formed early in the molecular cloud evolution and do not survive in the diffuse ISM. If an NH4+- containing salt is the carrier, its abundance relative to solid H2O is similar to 7%, demonstrating the efficiency of low-temperature acid-base chemistry or cosmic-ray-induced reactions. Possible origins are discussed for enigmatic, very broad absorption between 5 and 8 mu m. Finally, the same ices are observed toward massive and low-mass YSOs, indicating that processing by internal UV radiation fields is a minor factor in their early chemical evolution.NWO SpinozaNOVAEuropean Research Training Network PLANETS HPRN-CT-2002-00308NASA Origins NAG5-13050NASA Hubble Fellowship 01201.01NASA NAS 5-26555Astronom

An evolutionary study of volatile chemistry in protoplanetary disks

The volatile composition of a planet is determined by the inventory of gas and ice in the parent disk. The volatile chemistry in the disk is expected to evolve over time, though this evolution is poorly constrained observationally. We present ALMA observations of C18O, C2H, and the isotopologues H13CN, HC15N, and DCN towards five Class 0/I disk candidates. Combined with a sample of fourteen Class II disks presented in Bergner et al. (2019b), this data set offers a view of volatile chemical evolution over the disk lifetime. Our estimates of C18O abundances are consistent with a rapid depletion of CO in the first ~0.5-1 Myr of the disk lifetime. We do not see evidence that C2H and HCN formation are enhanced by CO depletion, possibly because the gas is already quite under-abundant in CO. Further CO depletion may actually hinder their production by limiting the gas-phase carbon supply. The embedded sources show several chemical differences compared to the Class II stage, which seem to arise from shielding of radiation by the envelope (impacting C2H formation and HC15N fractionation) and sublimation of ices from infalling material (impacting HCN and C18O abundances). Such chemical differences between Class 0/I and Class II sources may affect the volatile composition of planet-forming material at different stages in the disk lifetime.Comment: Accepted to Ap

Understanding signaling cascades in melanoma

Understanding regulatory pathways involved in melanoma development and progression has advanced significantly in recent years. It is now appreciated that melanoma is the result of complex changes in multiple signaling pathways that affect growth control, metabolism, motility and the ability to escape cell death programs. Here we review the major signaling pathways currently known to be deregulated in melanoma with an implication to its development and progression. Among these pathways are Ras, B-Raf, MEK, PTEN, phosphatidylinositol-3 kinase (PI3Ks) and Akt which are constitutively activated in a significant number of melanoma tumors, in most cases due to genomic change. Other pathways discussed in this review include the [Janus kinase/signal transducer and activator of transcription (JAK/STAT), transforming growth factor-beta pathways which are also activated in melanoma, although the underlying mechanism is not yet clear. As a paradigm for remodeled signaling pathways, melanoma also offers a unique opportunity for targeted drug development.Fil: Lopez Bergami, Pablo Roberto. Sanford-burnham Medical Research Institute; Estados Unidos. Consejo Nacional de Investigaciones Científicas y Técnicas. Instituto de Biología y Medicina Experimental. Fundación de Instituto de Biología y Medicina Experimental. Instituto de Biología y Medicina Experimental; ArgentinaFil: Fitchmann, B. Sanford-burnham Medical Research Institute; Estados UnidosFil: Ronai, Ze´ev. Sanford-burnham Medical Research Institute; Estados Unido

Screening and diagnosing depression in women visiting GPs' drop in clinic in Primary Health Care

<p>Abstract</p> <p>Background</p> <p>Only half of all depressions are diagnosed in Primary Health Care (PHC). Depression can remain undetected for a long time and entail high costs for care and low quality of life for the individuals. Drop in clinic is a common form of organizing health care; however the visits are short and focus on solving the most urgent problems. The aim of this study was to investigate the prevalence and severity of depression among women visiting the GPs' drop in clinic and to identify possible clues for depression among women.</p> <p>Methods</p> <p>The two-stage screening method with "high risk feedback" was used. Beck's Depression Inventory (BDI) was used to screen 155 women visiting two GPs' drop in clinic. Women who screened positive (BDI score ≥10) were invited by the GP to a repeat visit. Major depression (MDD) was diagnosed according to DSM-IV criteria and the severity was assessed with Montgomery-Asberg Depression Rating Scale (MADRS). Women with BDI score <10 constituted a control group. Demographic characteristics were obtained by questionnaire. Chart notations were examined with regard to symptoms mentioned at the index visit and were categorized as somatic or mental.</p> <p>Results</p> <p>The two-stage method worked well with a low rate of withdrawals in the second step, when the GP invited the women to a repeat visit. The prevalence of depression was 22.4% (95% CI 15.6–29.2). The severity was mild in 43%, moderate in 53% and severe in 3%. The depressed women mentioned mental symptoms significantly more often (69%) than the controls (15%) and were to a higher extent sick-listed for a longer period than 14 days. Nearly one third of the depressed women did not mention mental symptoms. The majority of the women who screened as false positive for depression had crisis reactions and needed further care from health professionals in PHC. Referrals to a psychiatrist were few and revealed often psychiatric co-morbidity.</p> <p>Conclusion</p> <p>The prevalence of previously undiagnosed depression among women visiting GPs' drop in clinic was high. Clues for depression were identified in the depressed women's symptom presentation; they often mention mental symptoms when they visit the GP for somatic reasons e.g. respiratory infections. We suggest that GPs do selective screening for depression when women mention mental symptoms and offer to schedule a repeat visit for follow-up rather than just recommending that the patient return if the mental symptoms do not disappear.</p

The Role of Response Elements Organization in Transcription Factor Selectivity: The IFN-β Enhanceosome Example

What is the mechanism through which transcription factors (TFs) assemble specifically along the enhancer DNA? The IFN-β enhanceosome provides a good model system: it is small; its components' crystal structures are available; and there are biochemical and cellular data. In the IFN-β enhanceosome, there are few protein-protein interactions even though consecutive DNA response elements (REs) overlap. Our molecular dynamics (MD) simulations on different motif combinations from the enhanceosome illustrate that cooperativity is achieved via unique organization of the REs: specific binding of one TF can enhance the binding of another TF to a neighboring RE and restrict others, through overlap of REs; the order of the REs can determine which complexes will form; and the alternation of consensus and non-consensus REs can regulate binding specificity by optimizing the interactions among partners. Our observations offer an explanation of how specificity and cooperativity can be attained despite the limited interactions between neighboring TFs on the enhancer DNA. To date, when addressing selective TF binding, attention has largely focused on RE sequences. Yet, the order of the REs on the DNA and the length of the spacers between them can be a key factor in specific combinatorial assembly of the TFs on the enhancer and thus in function. Our results emphasize cooperativity via RE binding sites organization

Crystal Structure of a Yeast Aquaporin at 1.15 Å Reveals a Novel Gating Mechanism

Atomic-resolution X-ray crystallography, functional analyses, and molecular dynamics simulations suggest a novel mechanism for the regulation of water flux through the yeast Aqy1 water channel

Genome-wide meta-analysis of 241,258 adults accounting for smoking behaviour identifies novel loci for obesity traits

Few genome-wide association studies (GWAS) account for environmental exposures, like smoking, potentially impacting the overall trait variance when investigating the genetic contribution to obesity-related traits. Here, we use GWAS data from 51,080 current smokers and 190,178 nonsmokers (87% European descent) to identify loci influencing BMI and central adiposity, measured as waist circumference and waist-to-hip ratio both adjusted for BMI. We identify 23 novel genetic loci, and 9 loci with convincing evidence of gene-smoking interaction (GxSMK) on obesity-related traits. We show consistent direction of effect for all identified loci and significance for 18 novel and for 5 interaction loci in an independent study sample. These loci highlight novel biological functions, including response to oxidative stress, addictive behaviour, and regulatory functions emphasizing the importance of accounting for environment in genetic analyses. Our results suggest that tobacco smoking may alter the genetic susceptibility to overall adiposity and body fat distribution.Peer reviewe