Altered m6A Modification of Specific Cellular Transcripts Affects Flaviviridae Infection

The RNA modification N6-methyladenosine (m6A) modulates mRNA fate and thus affects many biological processes. We analyzed m6A across the transcriptome following infection by dengue virus (DENV), Zika virus (ZIKV), West Nile virus (WNV), and hepatitis C virus (HCV). We found that infection by these viruses in the Flaviviridae family alters m6A modification of specific cellular transcripts, including RIOK3 and CIRBP. During viral infection, the addition of m6A to RIOK3 promotes its translation, while loss of m6A in CIRBP promotes alternative splicing. Importantly, viral activation of innate immune sensing or the endoplasmic reticulum (ER) stress response contributes to the changes in m6A in RIOK3 or CIRBP, respectively. Further, several transcripts with infection-altered m6A profiles, including RIOK3 and CIRBP, encode proteins that influence DENV, ZIKV, and HCV infection. Overall, this work reveals that cellular signaling pathways activated during viral infection lead to alterations in m6A modification of host mRNAs to regulate infection. Here, Gokhale, McIntyre et al. identify m6A changes in cellular mRNAs following Flaviviridae infection and demonstrate that infection-activated pathways contribute to these changes. They show that altered m6A modification in RIOK3 and CIRBP mRNAs influence their translation and splicing, respectively, and that RIOK3, CIRBP, and other m6A-altered factors regulate infection

Interleukin-1β Maturation Triggers Its Relocation to the Plasma Membrane for Gasdermin-D-Dependent and -Independent Secretion.

IL-1β requires processing by caspase-1 to generate the active, pro-inflammatory cytokine. Acute IL-1β secretion from inflammasome-activated macrophages requires caspase-1-dependent GSDMD cleavage, which also induces pyroptosis. Mechanisms of IL-1β secretion by pyroptotic and non-pyroptotic cells, and the precise functions of caspase-1 and GSDMD therein, are unresolved. Here, we show that, while efficient early secretion of endogenous IL-1β from primary non-pyroptotic myeloid cells in vitro requires GSDMD, later IL-1β release in vitro and in vivo proceeds independently of GSDMD. IL-1β maturation is sufficient for slow, caspase-1/GSDMD-independent secretion of ectopic IL-1β from resting, non-pyroptotic macrophages, but the speed of IL-1β release is boosted by inflammasome activation, via caspase-1 and GSDMD. IL-1β cleavage induces IL-1β enrichment at PIP2-enriched plasma membrane ruffles, and this is a prerequisite for IL-1β secretion and is mediated by a polybasic motif within the cytokine. We thus reveal a mechanism in which maturation-induced IL-1β trafficking facilitates its unconventional secretion

Science with the space-based interferometer eLISA. III: probing the expansion of the universe using gravitational wave standard sirens

We investigate the capability of various configurations of the space interferometer eLISA to probe the late-time background expansion of the universe using gravitational wave standard sirens. We simulate catalogues of standard sirens composed by massive black hole binaries whose gravitational radiation is detectable by eLISA, and which are likely to produce an electromagnetic counterpart observable by future surveys. The main issue for the identification of a counterpart resides in the capability of obtaining an accurate enough sky localisation with eLISA. This seriously challenges the capability of four-link (2 arm) configurations to successfully constrain the cosmological parameters. Conversely, six-link (3 arm) configurations have the potential to provide a test of the expansion of the universe up to z similar to 8 which is complementary to other cosmological probes based on electromagnetic observations only. In particular, in the most favourable scenarios, they can provide a significant constraint on Ho at the level of 0.5%. Furthermore, (Omega(M), Omega(A)) can be constrained to a level competitive with present SNIa results. On the other hand, the lack of massive black hole binary standard sirens at low redshift allows to constrain dark energy only at the level of few percent

Open data from the third observing run of LIGO, Virgo, KAGRA, and GEO

The global network of gravitational-wave observatories now includes five detectors, namely LIGO Hanford, LIGO Livingston, Virgo, KAGRA, and GEO 600. These detectors collected data during their third observing run, O3, composed of three phases: O3a starting in 2019 April and lasting six months, O3b starting in 2019 November and lasting five months, and O3GK starting in 2020 April and lasting two weeks. In this paper we describe these data and various other science products that can be freely accessed through the Gravitational Wave Open Science Center at https://gwosc.org. The main data set, consisting of the gravitational-wave strain time series that contains the astrophysical signals, is released together with supporting data useful for their analysis and documentation, tutorials, as well as analysis software packages

Dynamics of shielding of a moving charged particle in a confined electron plasma

Dynamics of shielding of a moving charged particle in a confined plasma, which represents a realistic model of an electron beam in accelerators, is studied. This is a longstanding problem in plasma physics with important applications in accelerator physics. However, only solutions for an infinite unrealistic plasma are available. We developed a novel method to solve this problem, which consists of transformation of the Vlasov-Poisson differential equations to an integral equation for the Laplace image of the electron density perturbation created by an external charge. The integral equation is then solved numerically via the piecewise polynomial collocation method and the fast Fourier transform. We present thorough analysis of the results obtained and their physical interpretation

Use of flow cytometry for characterization and fractionation of cell populations based on their expression of heparan sulfate epitopes

Item does not contain fulltextThe ability to characterize alterations in heparan sulfate (HS) structure during development or as a result of loss or mutation of one or more components of the HS biosynthetic pathway is essential for broad understanding of the effects these changes may have on cell/tissue function. The use of anti-HS antibodies provides an opportunity to study HS chain composition in situ, with a multitude of different antibodies having been generated that recognize subtle differences in HS patterning, with the number and positioning of sulfate groups influencing antibody binding affinity. Flow cytometry is a valuable technique to enable the rapid characterization of the changes in HS-specific antibody binding in situ, allowing multiple cell types to be directly compared. Additionally fluorescent-activated cell sorting (FACS) allows fractionation of cells based on their HS-epitope expression

Epitranscriptomic Addition of m5C to HIV-1 Transcripts Regulates Viral Gene Expression

How the covalent modification of mRNA ribonucleotides, termed epitranscriptomic modifications, alters mRNA function remains unclear. One issue has been the difficulty of quantifying these modifications. Using purified HIV-1 genomic RNA, we show that this RNA bears more epitranscriptomic modifications than the average cellular mRNA, with 5-methylcytosine (m5C) and 2′O-methyl modifications being particularly prevalent. The methyltransferase NSUN2 serves as the primary writer for m5C on HIV-1 RNAs. NSUN2 inactivation inhibits not only m5C addition to HIV-1 transcripts but also viral replication. This inhibition results from reduced HIV-1 protein, but not mRNA, expression, which in turn correlates with reduced ribosome binding to viral mRNAs. In addition, loss of m5C dysregulates the alternative splicing of viral RNAs. These data identify m5C as a post-transcriptional regulator of both splicing and function of HIV-1 mRNA, thereby affecting directly viral gene expression. Courtney et al. report that HIV-1 transcripts are modified by the addition of 5-methylcytosine (m5C) residues. The nuclear methyltransferase NSUN2 is the primary m5C writer and is required for appropriate HIV-1 translation. NSUN2 deficiency and concomitant loss of m5C residues inhibits ribosomal recruitment to and alternative splicing of HIV-1 mRNAs. © 2019 Elsevier Inc