Effective detergent/ chlorophyll ratio and detergent concentration in the aqueous phase during solubilization of Phormidium laminosum membranes

AbstractExperiments of turbidity decrease induced by detergents were systematically performed to characterize the solubilization of Phormidium laminosum membrane fragments. SDS, Triton X-100 and a mixture of octyl glucoside/decyl maltoside/lithium dodecyl sulfate (OG/DM/LiDS, in a molar ratio of 4.19:2.54:1) were used. The detergent concentration in the aqueous phase (Dw) and the effective detergent/chlorophyll ratio in mixed aggregates (Re) were determined. Both parameters increased during the solubilization and in an exponential way in the range from 10 to 90% solubilization. At detergent concentrations which caused the complete solubilization, DW values were close to the described critical micellar concentrations (cmc), but solubilization started at concentrations well below the cmc. At the onset of solubilization five molecules of SDS, one of Triton X-100 and three of the mixture OG/DM/LiDS, per chlorophyll molecule, saturated the membrane fragments. The increase of DW and Re values was characterized by two constants. This permits the design of a model to predict the detergent concentration which produces a desired solubilization of thylakoid membrane fragments for a given chlorophyll concentration

The Landau Pole and Z′Z^{\prime} decays in the 331 bilepton model

We calculate the decay widths and branching ratios of the extra neutral boson $Z^{\prime}$ predicted by the 331 bilepton model in the framework of two different particle contents. These calculations are performed taken into account oblique radiative corrections, and Flavor Changing Neutral Currents (FCNC) under the ansatz of Matsuda as a texture for the quark mass matrices. Contributions of the order of $10^{-1}-10^{-2}$ are obtained in the branching ratios, and partial widths about one order of magnitude bigger in relation with other non- and bilepton models are also obtained. A Landau-like pole arise at 3.5 TeV considering the full particle content of the minimal model (MM), where the exotic sector is considered as a degenerated spectrum at 3 TeV scale. The Landau pole problem can be avoid at the TeV scales if a new leptonic content running below the threshold at $$ TeV is implemented as suggested by other authors.Comment: 20 pages, 5 figures, LaTeX2

Role of a cryptic tRNA gene operon in survival under translational stress

As compared to eukaryotes, bacteria have a reduced tRNA gene set encoding between 30 and 220 tRNAs. Although in most bacterial phyla tRNA genes are dispersed in the genome, many species from distinct phyla also show genes forming arrays. Here, we show that two types of arrays with distinct evolutionary origins exist. This work focuses on long tRNA gene arrays (L-arrays) that encompass up to 43 genes, which disseminate by horizontal gene transfer and contribute supernumerary tRNA genes to the host. Although in the few cases previously studied these arrays were reported to be poorly transcribed, here we show that the L-array of the model cyanobacterium Anabaena sp. PCC 7120, encoding 23 functional tRNAs, is largely induced upon impairment of the translation machinery. The cellular response to this challenge involves a global reprogramming of the transcriptome in two phases. tRNAs encoded in the array are induced in the second phase of the response, directly contributing to cell survival. Results presented here show that in some bacteria the tRNA gene set may be partitioned between a housekeeping subset, which constantly sustains translation, and an inducible subset that is generally silent but can provide functionality under particular conditions.Ministerio de Ciencia, Innovación y Universidades [BFU2016-77097-P to I.L., A.H.; BIO2017-84066-R to F.J.R-C.]; Agencia Estatal de Investigación [PID2019-104784RJ-100/AEI/10.13039/501100011033 to R.L.I.]; National Science Foundation [MCB-1715840 to M.I.]. RB-M's lab at University of Alicante is a member of Proteored, PRB3 and is supported by grant PT17/0019, of the PE I+D+i 2013-2016, funded by ISCIII and ERDF. Funding for open access charge: Consejo Superior de Investigaciones Científicas

An Integrated TCGA Pan-Cancer Clinical Data Resource to Drive High-Quality Survival Outcome Analytics

For a decade, The Cancer Genome Atlas (TCGA) program collected clinicopathologic annotation data along with multi-platform molecular profiles of more than 11,000 human tumors across 33 different cancer types. TCGA clinical data contain key features representing the democratized nature of the data collection process. To ensure proper use of this large clinical dataset associated with genomic features, we developed a standardized dataset named the TCGA Pan-Cancer Clinical Data Resource (TCGA-CDR), which includes four major clinical outcome endpoints. In addition to detailing major challenges and statistical limitations encountered during the effort of integrating the acquired clinical data, we present a summary that includes endpoint usage recommendations for each cancer type. These TCGA-CDR findings appear to be consistent with cancer genomics studies independent of the TCGA effort and provide opportunities for investigating cancer biology using clinical correlates at an unprecedented scale. Analysis of clinicopathologic annotations for over 11,000 cancer patients in the TCGA program leads to the generation of TCGA Clinical Data Resource, which provides recommendations of clinical outcome endpoint usage for 33 cancer types

Phenomenological aspects of the exotic TT quark in 331 models

In the context of 331 models we analyze the phenomenology of exotic $T$ quarks with electric charge 2/3. We establish bounds for the corresponding masses and mixing angles and study the decay modes $T\to bW$, $tZ$ and $qH$. It is found that the decays into scalars are strongly dependent on the model parameters, and can be the dominant ones in a scenario with approximate flavor symmetry.Comment: 11 pages, 2 figure

Prognostic factors of a lower CD4/CD8 ratio in long term viral suppression HIV infected children

Background Combination antiretroviral therapy (cART) is associated with marked immune reconstitution. Although a long term viral suppression is achievable, not all children however, attain complete immunological recovery due to persistent immune activation. We use CD4/CD8 ratio like a marker of immune reconstitution. Methods Perinatal HIV-infected children who underwent a first-line cART, achieved viral suppression in the first year and maintained it for more than 5 years, with no viral rebound were included. Logistic models were applied to estimate the prognostic factors, clinical characteristics at cART start, of a lower CD4/CD8 ratio at the last visit. Results 146 HIV-infected children were included: 77% Caucasian, 45% male and 28% CDC C. Median age at cART initiation was 2.3 years (IQR: 0.5-6.2). 42 (30%) children received mono-dual therapy previously to cART. Time of undetectable viral load was 9.5 years (IQR: 7.8, 12.5). 33% of the children not achieved CD4/CD8 ratio >1. Univariate analysis showed an association between CD4/CD8 <1 with lower CD4 nadir and baseline CD4; older age at diagnosis and at cART initiation; and a previous exposure to mono-dual therapy. Multivariate analysis also revealed relationship between CD4/CD8 <1 and lower CD4 nadir (OR: 1.002, CI 95% 1.000-1.004) as well as previous exposure to mono-dual therapy (OR: 0.16, CI 95% 0.003-0.720). Conclusions CD4/CD8 > 1 was not achieved in 33% of the children. Lower CD4 nadir and previous exposure to suboptimal therapy, before initiating cART, are factors showing independently association with a worse immune recovery (CD4/CD8 < 1)

The performance of the jet trigger for the ATLAS detector during 2011 data taking

The performance of the jet trigger for the ATLAS detector at the LHC during the 2011 data taking period is described. During 2011 the LHC provided proton–proton collisions with a centre-of-mass energy of 7 TeV and heavy ion collisions with a 2.76 TeV per nucleon–nucleon collision energy. The ATLAS trigger is a three level system designed to reduce the rate of events from the 40 MHz nominal maximum bunch crossing rate to the approximate 400 Hz which can be written to offline storage. The ATLAS jet trigger is the primary means for the online selection of events containing jets. Events are accepted by the trigger if they contain one or more jets above some transverse energy threshold. During 2011 data taking the jet trigger was fully efficient for jets with transverse energy above 25 GeV for triggers seeded randomly at Level 1. For triggers which require a jet to be identified at each of the three trigger levels, full efficiency is reached for offline jets with transverse energy above 60 GeV. Jets reconstructed in the final trigger level and corresponding to offline jets with transverse energy greater than 60 GeV, are reconstructed with a resolution in transverse energy with respect to offline jets, of better than 4 % in the central region and better than 2.5 % in the forward direction