| 1. |
- Klionsky, Daniel J., et al.
(författare)
-
Guidelines for the use and interpretation of assays for monitoring autophagy
- 2012
-
Ingår i: Autophagy. - : Informa UK Limited. - 1554-8635 .- 1554-8627. ; 8:4, s. 445-544
-
Forskningsöversikt (refereegranskat)abstract
- In 2008 we published the first set of guidelines for standardizing research in autophagy. Since then, research on this topic has continued to accelerate, and many new scientists have entered the field. Our knowledge base and relevant new technologies have also been expanding. Accordingly, it is important to update these guidelines for monitoring autophagy in different organisms. Various reviews have described the range of assays that have been used for this purpose. Nevertheless, there continues to be confusion regarding acceptable methods to measure autophagy, especially in multicellular eukaryotes. A key point that needs to be emphasized is that there is a difference between measurements that monitor the numbers or volume of autophagic elements (e.g., autophagosomes or autolysosomes) at any stage of the autophagic process vs. those that measure flux through the autophagy pathway (i.e., the complete process); thus, a block in macroautophagy that results in autophagosome accumulation needs to be differentiated from stimuli that result in increased autophagic activity, defined as increased autophagy induction coupled with increased delivery to, and degradation within, lysosomes (in most higher eukaryotes and some protists such as Dictyostelium) or the vacuole (in plants and fungi). In other words, it is especially important that investigators new to the field understand that the appearance of more autophagosomes does not necessarily equate with more autophagy. In fact, in many cases, autophagosomes accumulate because of a block in trafficking to lysosomes without a concomitant change in autophagosome biogenesis, whereas an increase in autolysosomes may reflect a reduction in degradative activity. Here, we present a set of guidelines for the selection and interpretation of methods for use by investigators who aim to examine macroautophagy and related processes, as well as for reviewers who need to provide realistic and reasonable critiques of papers that are focused on these processes. These guidelines are not meant to be a formulaic set of rules, because the appropriate assays depend in part on the question being asked and the system being used. In addition, we emphasize that no individual assay is guaranteed to be the most appropriate one in every situation, and we strongly recommend the use of multiple assays to monitor autophagy. In these guidelines, we consider these various methods of assessing autophagy and what information can, or cannot, be obtained from them. Finally, by discussing the merits and limits of particular autophagy assays, we hope to encourage technical innovation in the field.
|
|
| 2. |
- Abramowski, A., et al.
(författare)
-
Simultaneous multi-wavelength campaign on PKS 2005-489 in a high state
- 2011
-
Ingår i: Astronomy and Astrophysics. - : EDP Sciences. - 0004-6361 .- 1432-0746. ; 533, s. A110-
-
Tidskriftsartikel (refereegranskat)abstract
- The high-frequency peaked BL Lac object PKS 2005-489 was the target of a multi-wavelength campaign with simultaneous observations in the TeV gamma-ray (H.E.S.S.), GeV gamma-ray (Fermi/LAT), X-ray (RXTE, Swift), UV (Swift) and optical (ATOM, Swift) bands. This campaign was carried out during a high flux state in the synchrotron regime. The flux in the optical and X-ray bands reached the level of the historical maxima. The hard GeV spectrum observed with Fermi/LAT connects well to the very high energy (VHE, E > 100 GeV) spectrum measured with H.E.S.S. with a peak energy between similar to 5 and 500 GeV. Compared to observations with contemporaneous coverage in the VHE and X-ray bands in 2004, the X-ray flux was similar to 50 times higher during the 2009 campaign while the TeV gamma-ray flux shows marginal variation over the years. The spectral energy distribution during this multi-wavelength campaign was fit by a one zone synchrotron self-Compton model with a well determined cutoff in X-rays. The parameters of a one zone SSC model are inconsistent with variability time scales. The variability behaviour over years with the large changes in synchrotron emission and small changes in the inverse Compton emission does not warrant an interpretation within a one-zone SSC model despite an apparently satisfying fit to the broadband data in 2009.
|
|
| 3. |
- Abramowski, A., et al.
(författare)
-
The 2010 very high energy gamma-RAY flare and 10 years of multi-wavelength observations of M 87
- 2012
-
Ingår i: Astrophysical Journal. - 0004-637X .- 1538-4357. ; 746:2, s. 151-
-
Tidskriftsartikel (refereegranskat)abstract
- The giant radio galaxy M 87 with its proximity (16 Mpc), famous jet, and very massive black hole ((3-6) x 10(9) M-circle dot) provides a unique opportunity to investigate the origin of very high energy (VHE; E > 100 GeV) gamma-ray emission generated in relativistic outflows and the surroundings of supermassive black holes. M 87 has been established as a VHE gamma-ray emitter since 2006. The VHE gamma-ray emission displays strong variability on timescales as short as a day. In this paper, results from a joint VHE monitoring campaign on M 87 by the MAGIC and VERITAS instruments in 2010 are reported. During the campaign, a flare at VHE was detected triggering further observations at VHE (H.E.S.S.), X-rays (Chandra), and radio (43 GHz Very Long Baseline Array, VLBA). The excellent sampling of the VHE gamma-ray light curve enables one to derive a precise temporal characterization of the flare: the single, isolated flare is well described by a two-sided exponential function with significantly different flux rise and decay times of tau(rise)(d) = (1.69 +/- 0.30) days and tau(decay)(d) = (0.611 +/- 0.080) days, respectively. While the overall variability pattern of the 2010 flare appears somewhat different from that of previous VHE flares in 2005 and 2008, they share very similar timescales (similar to day), peak fluxes (Phi(>0.35 TeV) similar or equal to (1-3) x 10(-11) photons cm(-2) s(-1)), and VHE spectra. VLBA radio observations of 43 GHz of the inner jet regions indicate no enhanced flux in 2010 in contrast to observations in 2008, where an increase of the radio flux of the innermost core regions coincided with a VHE flare. On the other hand, Chandra X-ray observations taken similar to 3 days after the peak of the VHE gamma-ray emission reveal an enhanced flux from the core (flux increased by factor similar to 2; variability timescale <2 days). The long-term (2001-2010) multi-wavelength (MWL) light curve of M 87, spanning from radio to VHE and including data from Hubble Space Telescope, Liverpool Telescope, Very Large Array, and European VLBI Network, is used to further investigate the origin of the VHE gamma-ray emission. No unique, common MWL signature of the three VHE flares has been identified. In the outer kiloparsec jet region, in particular in HST-1, no enhanced MWL activity was detected in 2008 and 2010, disfavoring it as the origin of the VHE flares during these years. Shortly after two of the three flares (2008 and 2010), the X-ray core was observed to be at a higher flux level than its characteristic range (determined from more than 60 monitoring observations: 2002-2009). In 2005, the strong flux dominance of HST-1 could have suppressed the detection of such a feature. Published models for VHE gamma-ray emission from M 87 are reviewed in the light of the new data.
|
|
| 4. |
- Speliotes, Elizabeth K., et al.
(författare)
-
Association analyses of 249,796 individuals reveal 18 new loci associated with body mass index
- 2010
-
Ingår i: Nature Genetics. - : Springer Science and Business Media LLC. - 1061-4036 .- 1546-1718. ; 42:11, s. 937-948
-
Tidskriftsartikel (refereegranskat)abstract
- Obesity is globally prevalent and highly heritable, but its underlying genetic factors remain largely elusive. To identify genetic loci for obesity susceptibility, we examined associations between body mass index and ~2.8 million SNPs in up to 123,865 individuals with targeted follow up of 42 SNPs in up to 125,931 additional individuals. We confirmed 14 known obesity susceptibility loci and identified 18 new loci associated with body mass index (P < 5 × 10−8), one of which includes a copy number variant near GPRC5B. Some loci (at MC4R, POMC, SH2B1 and BDNF) map near key hypothalamic regulators of energy balance, and one of these loci is near GIPR, an incretin receptor. Furthermore, genes in other newly associated loci may provide new insights into human body weight regulation.
|
|
| 5. |
- Abramowski, A., et al.
(författare)
-
A multiwavelength view of the flaring state of PKS 2155-304 in 2006
- 2012
-
Ingår i: Astronomy and Astrophysics. - : EDP Sciences. - 0004-6361 .- 1432-0746. ; 539, s. A149-
-
Tidskriftsartikel (refereegranskat)abstract
- Context. Multiwavelength (MWL) observations of the blazar PKS 2155-304 during two weeks in July and August 2006, the period when two exceptional flares at very high energies (VHE, E greater than or similar to 100 GeV) occurred, provide a detailed picture of the evolution of its emission. The complete data set from this campaign is presented, including observations in VHE gamma-rays (H.E.S. S.), X-rays (RXTE, Chandra, Swift XRT), optical (Swift UVOT, Bronberg, Watcher, ROTSE), and in the radio band (NRT, HartRAO, ATCA). Optical and radio light curves from 2004 to 2008 are compared to the available VHE data from this period, to put the 2006 campaign into the context of the long-term evolution of the source. Aims. The data set offers a close view of the evolution of the source on different time scales and yields new insights into the properties of the emission process. The predictions of synchrotron self-Compton (SSC) scenarios are compared to the MWL data, with the aim of describing the dominant features in the data down to the hour time scale. Methods. The spectral variability in the X-ray and VHE bands is explored and correlations between the integral fluxes at different wavelengths are evaluated. SSC modelling is used to interpret the general trends of the varying spectral energy distribution. Results. The X-ray and VHE gamma-ray emission are correlated during the observed high state of the source, but show no direct connection with longer wavelengths. The long-term flux evolution in the optical and radio bands is found to be correlated and shows that the source reaches a high state at long wavelengths after the occurrence of the VHE flares. Spectral hardening is seen in the Swift XRT data. Conclusions. The nightly averaged high-energy spectra of the non-flaring nights can be reproduced by a stationary one-zone SSC model, with only small variations in the parameters. The spectral and flux evolution in the high-energy band during the night of the second VHE flare is modelled with multi-zone SSC models, which can provide relatively simple interpretations for the hour time-scale evolution of the high-energy emission, even for such a complex data set. For the first time in this type of source, a clear indication is found for a relation between high activity at high energies and a long-term increase in the low frequency fluxes.
|
|
| 6. |
- Abramowski, A., et al.
(författare)
-
HESS J1943+213 : a candidate extreme BL Lacertae object
- 2011
-
Ingår i: Astronomy and Astrophysics. - : EDP Sciences. - 0004-6361 .- 1432-0746. ; 529, s. A49-
-
Tidskriftsartikel (refereegranskat)abstract
- Context. The H. E. S. S. Cherenkov telescope array has been surveying the Galactic plane for new VHE (>100 GeV) gamma-ray sources. Aims. We report on a newly detected point-like source, HESS J1943+213. This source coincides with an unidentified hard X-ray source IGR J19443+2117, which was proposed to have radio and infrared counterparts. Methods. We combine new H. E. S. S., Fermi/LAT and Nancay Radio Telescope observations with pre-existing non-simultaneous multi-wavelength observations of IGR J19443+2117 and discuss the likely source associations as well as the interpretation as an active galactic nucleus, a gamma-ray binary or a pulsar wind nebula. Results. HESS J1943+213 is detected at the significance level of 7.9 sigma (post-trials) at RA(J2000) = 19(h)43(m)55(s) +/- 1(stat)(s) +/- 1(sys)(s), Dec(J2000) = +21 degrees 18'8 '' +/- 17(stat)'' +/- 20(sys)''. The source has a soft spectrum with photon index Gamma = 3.1 +/- 0.3(stat) +/- 0.2(sys) and a flux above 470 GeV of (1.3 +/- 0.2(stat) +/- 0.3(sys)) x 10(-12) cm(-2) s(-1). There is no Fermi/LAT counterpart down to a flux limit of 6 x 10(-9) cm(-2) s(-1) in the 0.1-100 GeV energy range (95% confidence upper limit calculated for an assumed power-law model with a photon index Gamma = 2.0). The data from radio to VHE gamma-rays do not show any significant variability. Conclusions. The lack of a massive stellar counterpart disfavors the binary hypothesis, while the soft VHE spectrum would be very unusual in case of a pulsar wind nebula. In addition, the distance estimates for Galactic counterparts places them outside of the Milky Way. All available observations favor an interpretation as an extreme, high-frequency peaked BL Lac object with a redshift z > 0.14. This would be the first time a blazar is detected serendipitously from ground-based VHE observations, and the first VHE AGN detected in the Galactic Plane.
|
|
| 7. |
- Abramowski, A., et al.
(författare)
-
Multi-wavelength observations of H 2356-309
- 2010
-
Ingår i: Astronomy and Astrophysics. - : EDP Sciences. - 0004-6361 .- 1432-0746. ; 516, s. A56-
-
Tidskriftsartikel (refereegranskat)abstract
- Aims. The properties of the broad-band emission from the high-frequency peaked BL Lac H 2356-309 (z = 0.165) are investigated. Methods. Very high energy (VHE; E > 100 GeV) observations of H 2356-309 were performed with the High Energy Stereoscopic System (HESS) from 2004 through 2007. Simultaneous optical/UV and X-ray observations were made with the XMM-Newton satellite on June 12/13 and June 14/15, 2005. NRT radio observations were also contemporaneously performed in 2005. ATOM optical monitoring observations were also made in 2007. Results. A strong VHE signal, similar to 13 sigma total, was detected by HESS after the four years HESS observations (116.8 h live time). The integral flux above 240 GeV is I(> 240 GeV) = (3.06 +/- 0.26(stat) +/- 0.61(syst)) x 10(-12) cm(-2) s(-1), corresponding to similar to 1.6% of the flux observed from the Crab Nebula. A time-averaged energy spectrum is measured from 200 GeV to 2 TeV and is characterized by a power law (photon index of Gamma = 3.06 +/- 0.15(stat) +/- 0.10(syst)). Significant small-amplitude variations in the VHE flux from H 2356-309 are seen on time scales of months and years, but not on shorter time scales. No evidence for any variations in the VHE spectral slope are found within these data. The XMM-Newton X-ray measurements show a historically low X-ray state, characterized by a hard, broken-power-law spectrum on both nights. Conclusions. The broad-band spectral energy distribution (SED) of the blazar can be adequately fit using a simple one-zone synchrotron self-Compton (SSC) model. In the SSC scenario, higher VHE fluxes could be expected in the future since the observed X-ray flux is at a historically low level.
|
|
| 8. |
- Abramowski, A., et al.
(författare)
-
VHE gamma-ray emission of PKS 2155-304 : spectral and temporal variability
- 2010
-
Ingår i: Astronomy and Astrophysics. - : EDP Sciences. - 0004-6361 .- 1432-0746. ; 520, s. A83-
-
Tidskriftsartikel (refereegranskat)abstract
- Context. Observations of very high-energy.-rays from blazars provide information about acceleration mechanisms occurring in their innermost regions. Studies of variability in these objects lead to a better understanding of the mechanisms in play. Aims. To investigate the spectral and temporal variability of VHE (>100 GeV) gamma-rays of the well-known high-frequency-peaked BL Lac object PKS 2155-304 with the HESS imaging atmospheric Cherenkov telescopes over a wide range of flux states. Methods. Data collected from 2005 to 2007 were analyzed. Spectra were derived on time scales ranging from 3 years to 4 min. Light curve variability was studied through doubling timescales and structure functions and compared with red noise process simulations. Results. The source was found to be in a low state from 2005 to 2007, except for a set of exceptional flares that occurred in July 2006. The quiescent state of the source is characterized by an associated mean flux level of (4.32 +/- 0.09(stat) +/- 0.86(syst)) x 10(-11) cm(-2) s(-1) above 200 GeV, or approximately 15% of the Crab Nebula, and a power-law photon index of Gamma = 3.53 +/- 0.06(stat) +/- 0.10(syst). During the flares of July 2006, doubling timescales of similar to 2 min are found. The spectral index variation is examined over two orders of magnitude in flux, yielding different behavior at low and high fluxes, which is a new phenomenon in VHE gamma-ray emitting blazars. The variability amplitude characterized by the fractional rms F-var is strongly energy-dependent and is proportional to E-0.19 +/- 0.01. The light curve rms correlates with the flux. This is the signature of a multiplicative process that can be accounted for as a red noise with a Fourier index of similar to 2. Conclusions. This unique data set shows evidence of a low-level.-ray emission state from PKS 2155-304 that possibly has a different origin than the outbursts. The discovery of the light curve ognormal behavior might be an indicator of the origin of aperiodic variability in blazars.
|
|
| 9. |
- Lango Allen, Hana, et al.
(författare)
-
Hundreds of variants clustered in genomic loci and biological pathways affect human height.
- 2010
-
Ingår i: Nature. - : Springer Science and Business Media LLC. - 1476-4687 .- 0028-0836. ; 467:7317, s. 832-8
-
Tidskriftsartikel (refereegranskat)abstract
- Most common human traits and diseases have a polygenic pattern of inheritance: DNA sequence variants at many genetic loci influence the phenotype. Genome-wide association (GWA) studies have identified more than 600 variants associated with human traits, but these typically explain small fractions of phenotypic variation, raising questions about the use of further studies. Here, using 183,727 individuals, we show that hundreds of genetic variants, in at least 180 loci, influence adult height, a highly heritable and classic polygenic trait. The large number of loci reveals patterns with important implications for genetic studies of common human diseases and traits. First, the 180 loci are not random, but instead are enriched for genes that are connected in biological pathways (P = 0.016) and that underlie skeletal growth defects (P<0.001). Second, the likely causal gene is often located near the most strongly associated variant: in 13 of 21 loci containing a known skeletal growth gene, that gene was closest to the associated variant. Third, at least 19 loci have multiple independently associated variants, suggesting that allelic heterogeneity is a frequent feature of polygenic traits, that comprehensive explorations of already-discovered loci should discover additional variants and that an appreciable fraction of associated loci may have been identified. Fourth, associated variants are enriched for likely functional effects on genes, being over-represented among variants that alter amino-acid structure of proteins and expression levels of nearby genes. Our data explain approximately 10% of the phenotypic variation in height, and we estimate that unidentified common variants of similar effect sizes would increase this figure to approximately 16% of phenotypic variation (approximately 20% of heritable variation). Although additional approaches are needed to dissect the genetic architecture of polygenic human traits fully, our findings indicate that GWA studies can identify large numbers of loci that implicate biologically relevant genes and pathways.
|
|
| 10. |
- Abramowski, A., et al.
(författare)
-
A new SNR with TeV shell-type morphology : HESS J1731-347
- 2011
-
Ingår i: Astronomy and Astrophysics. - : EDP Sciences. - 0004-6361 .- 1432-0746. ; 531, s. A81-
-
Tidskriftsartikel (refereegranskat)abstract
- Aims. The recent discovery of the radio shell-type supernova remnant (SNR), G353.6-0.7, in spatial coincidence with the unidentified TeV source HESS J1731-347 has motivated further observations of the source with the High Energy Stereoscopic System (HESS) Cherenkov telescope array to test a possible association of the gamma-ray emission with the SNR. Methods. With a total of 59 h of observation, representing about four times the initial exposure available in the discovery paper of HESS J1731-347, the gamma-ray morphology is investigated and compared with the radio morphology. An estimate of the distance is derived by comparing the interstellar absorption derived from X-rays and the one obtained from (12)CO and HI observations. Results. The deeper gamma-ray observation of the source has revealed a large shell-type structure with similar position and extension (r similar to 0.25 degrees) as the radio SNR, thus confirming their association. By accounting for the HESS angular resolution and projection effects within a simple shell model, the radial profile is compatible with a thin, spatially unresolved, rim. Together with RX J1713.7-3946, RX J0852.0-4622 and SN 1006, HESS J1731-347 is now the fourth SNR with a significant shell morphology at TeV energies. The derived lower limit on the distance of the SNR of 3.2 kpc is used together with radio and X-ray data to discuss the possible origin of the gamma-ray emission, either via inverse Compton scattering of electrons or the decay of neutral pions resulting from proton-proton interaction.
|
|
