Abstract
The DNAs of bacterial viruses are known to contain diverse, chemically complex modifications to thymidine that protect them from the endonuclease-based defenses of their cellular hosts, but ...whose biosynthetic origins are enigmatic. Up to half of thymidines in the Pseudomonas phage M6, the Salmonella phage ViI, and others, contain exotic chemical moieties synthesized through the post-replicative modification of 5-hydroxymethyluridine (5-hmdU). We have determined that these thymidine hypermodifications are derived from free amino acids enzymatically installed on 5-hmdU. These appended amino acids are further sculpted by various enzyme classes such as radical SAM isomerases, PLP-dependent decarboxylases, flavin-dependent lyases and acetyltransferases. The combinatorial permutations of thymidine hypermodification genes found in viral metagenomes from geographically widespread sources suggests an untapped reservoir of chemical diversity in DNA hypermodifications.
Graphical Abstract
Graphical Abstract
Pathways of thymidine hypermodification.
Abstract
When discovered, SN 2017egm was the closest (redshift
z
= 0.03) hydrogen-poor superluminous supernova (SLSN-I) and a rare case that exploded in a massive and metal-rich galaxy. Thus, it has ...since been extensively observed and studied. We report spectroscopic data showing strong emission at around He
i
λ
10830 and four He
i
absorption lines in the optical. Consequently, we classify SN 2017egm as a member of an emerging population of helium-rich SLSNe-I (i.e., SLSNe-Ib). We also present our late-time photometric observations. By combining them with archival data, we analyze high-cadence ultraviolet, optical, and near-infrared light curves spanning from early pre-peak (∼−20 days) to late phases (∼+300 days). We obtain its most complete bolometric light curve, in which multiple bumps are identified. None of the previously proposed models can satisfactorily explain all main light-curve features, while multiple interactions between the ejecta and circumstellar material (CSM) may explain the undulating features. The prominent infrared excess with a blackbody luminosity of 10
7
–10
8
L
⊙
detected in SN 2017egm could originate from the emission of either an echo of a pre-existing dust shell or newly formed dust, offering an additional piece of evidence supporting the ejecta–CSM interaction model. Moreover, our analysis of deep Chandra observations yields the tightest-ever constraint on the X-ray emission of an SLSN-I, amounting to an X-ray-to-optical luminosity ratio ≲10
−3
at late phases (∼100–200 days), which could help explore its close environment and central engine.
Certain viruses of bacteria (bacteriophages) enzymatically hypermodify their DNA to protect their genetic material from host restriction endonuclease-mediated cleavage. Historically, it has been ...known that virion DNAs from the Delftia phage ΦW-14 and the Bacillus phage SP10 contain the hypermodified pyrimidines α-putrescinylthymidine and α-glutamylthymidine, respectively. These bases derive fromthe modification of 5-hydroxymethyl-2′-deoxyuridine (5-hmdU) in newly replicated phage DNA via a pyrophosphorylated intermediate. Like ΦW-14 and SP10, the Pseudomonas phage M6 and the Salmonella phage ViI encode kinase homologs predicted to phosphorylate 5-hmdU DNA but have uncharacterized nucleotide content Iyer et al. (2013) Nucleic Acids Res 41:7635–7655. We report here the discovery and characterization of two bases, 5-(2-aminoethoxy)methyluridine (5-NeOmdU) and 5-(2-aminoethyl)uridine (5-NedU), in the virion DNA of ViI and M6 phages, respectively. Furthermore, we show that recombinant expression of five gene products encoded by phage ViI is sufficient to reconstitute the formation of 5-NeOmdU in vitro. These findings point to an unexplored diversity of DNA modifications and the underlying biochemistry of their formation.
Full text
Available for:
BFBNIB, NMLJ, NUK, PNG, SAZU, UL, UM, UPUK
Hydrogen-poor superluminous supernovae (SLSNe-I) have been predominantly found in low-metallicity, star-forming dwarf galaxies. Here we identify Gaia17biu/SN 2017egm as an SLSN-I occurring in a ..."normal" spiral galaxy (NGC 3191) in terms of stellar mass (several times 1010 M ) and metallicity (roughly solar). At redshift z = 0.031, Gaia17biu is also the lowest-redshift SLSN-I to date, and the absence of a larger population of SLSNe-I in dwarf galaxies of similar redshift suggests that metallicity is likely less important to the production of SLSNe-I than previously believed. With the smallest distance and highest apparent brightness for an SLSN-I, we are able to study Gaia17biu in unprecedented detail. Its pre-peak near-ultraviolet to optical color is similar to that of Gaia16apd and among the bluest observed for an SLSN-I, while its peak luminosity (Mg = −21 mag) is substantially lower than that of Gaia16apd. Thanks to the high signal-to-noise ratios of our spectra, we identify several new spectroscopic features that may help to probe the properties of these enigmatic explosions. We detect polarization at the ∼0.5% level that is not strongly dependent on wavelength, suggesting a modest, global departure from spherical symmetry. In addition, we put the tightest upper limit yet on the radio luminosity of an SLSN-I with <5.4 × 1026 erg s−1 Hz−1 at 10 GHz, which is almost a factor of 40 better than previous upper limits and one of the few measured at an early stage in the evolution of an SLSN-I. This limit largely rules out an association of this SLSN-I with known populations of gamma-ray-burst-like central engines.
Conservation biogeography of the Antarctic Terauds, Aleks; Chown, Steven L.; Morgan, Fraser ...
Diversity & distributions,
July 2012, Volume:
18, Issue:
7
Journal Article
Peer reviewed
Open access
Aim: To present a synthesis of past biogeographic analyses and a new approach based on spatially explicit biodiversity information for the Antarctic region to identify biologically distinct areas in ...need of representation in a protected area network. Location: Antarctica and the sub-Antarctic. Methods: We reviewed and summarized published biogeographic studies of the Antarctic. We then developed a biogeographic classification for terrestrial conservation planning in Antarctica by combining the most comprehensive source of Antarctic biodiversity data available with three spatial frameworks: (1) a 200-km grid, (2) a set of areas based on physical parameters known as the environmental domains of Antarctica and (3) expert-defined bioregions. We used these frameworks, or combinations thereof, together with multivariate techniques to identify biologically distinct areas. Results: Early studies of continental Antarctica typically described broad bioregions, with the Antarctic Peninsula usually identified as biologically distinct from continental Antarctica; later studies suggested a more complex biogeography. Increasing complexity also characterizes the sub-Antarctic and marine realms, with differences among studies often attributable to the focal taxa. Using the most comprehensive terrestrial data available and by combining the groups formed by the environmental domains and expert-defined bioregions, we were able to identify 15 biologically distinct, ice-free, Antarctic Conservation Biogeographic Regions (ACBRs), encompassing the continent and close lying islands. Main conclusions: Ice-free terrestrial Antarctica comprises several distinct bioregions that are not fully represented in the current Antarctic Specially Protected Area network. Biosecurity measures between these ACBRs should also be developed to prevent biotic homogenization in the region.
Full text
Available for:
BFBNIB, DOBA, FZAB, GIS, IJS, IZUM, KILJ, NLZOH, NMLJ, NUK, OILJ, PILJ, PNG, SAZU, SBCE, SBMB, UILJ, UKNU, UL, UM, UPUK
Abstract
We present a multiband sequence of Hubble Space Telescope images documenting the emergence and evolution of multiple light echoes (LEs) linked to the stripped-envelope supernova (SN) 2016adj ...located in the central dust lane of Centaurus A. Following point-spread function subtraction, we identify the earliest LE emission associated with an SN at only +34 days past the epoch of the
B
-band maximum. Additional HST images extending through +578 days cover the evolution of LE1 taking the form of a ring, while images taken on +1991 days reveal not only LE1 but also segments of a new inner LE ring (LE2) as well as two additional outer LE rings (LE3 and LE4). Adopting the single-scattering formalism, the angular radii of the LEs suggest they originate from discrete dust sheets in the foreground of the SN. This information, combined with measurements of color and optical depth of the scattering surfaces, informs a scenario with multiple sheets of clumpy dust characterized by a varying degree of holes. In this case, the larger the LE’s angular radii, the farther in the foreground of the SN its dust sheet is located. However, an exception to this is LE2, which is formed by a dust sheet located in closer proximity to the SN than the dust sheets producing LE1, LE3, and LE4. The delayed appearance of LE2 can be attributed to its dust sheet having a significant hole along the line of sight between the SN and Earth.
On the progenitor of the Type IIP SN 2013ej in M74 Fraser, Morgan; Maund, Justyn R; Smartt, Stephen J ...
Monthly Notices of the Royal Astronomical Society Letters,
03/2014, Volume:
439, Issue:
1
Journal Article
Peer reviewed
Open access
We use natural seeing imaging of SN 2013ej in M74 to identify a progenitor candidate in archival Hubble Space Telescope (HST) + Advanced Camera for Survey images. We find a source coincident with the ...supernova (SN) in the F814W filter within the total 75 mas (∼3 pc astrometric uncertainty; however, the position of the progenitor candidate in contemporaneous F435W and F555W filters is significantly offset. We conclude that the 'progenitor candidate' is in fact two physically unrelated sources; a blue source which is likely unrelated to the SN, and a red source which we suggest exploded as SN 2013ej. Deep images with the same instrument on board HST taken when the SN has faded (in approximately two year's time) will allow us to accurately characterize the unrelated neighbouring source and hence determine the intrinsic flux of the progenitor in three filters. We suggest that the F814W flux is dominated by the progenitor of SN 2013ej, and assuming a bolometric correction appropriate to an M-type supergiant, we estimate that the mass of the progenitor of SN 2013ej was between 8 and 15.5 M.
Abstract
The CNIa0.02 project aims to collect a complete, nearby sample of Type Ia supernovae (SNe Ia) light curves, and the SNe are volume-limited with host-galaxy redshifts
z
host
< 0.02. The main ...scientific goal is to infer the distributions of key properties (e.g., the luminosity function) of local SNe Ia in a complete and unbiased fashion in order to study SN explosion physics. We spectroscopically classify any SN candidate detected by the All-Sky Automated Survey for Supernovae (ASAS-SN) that reaches a peak brightness <16.5 mag. Since ASAS-SN scans the full sky and does not target specific galaxies, our target selection is effectively unbiased by host-galaxy properties. We perform multiband photometric observations starting from the time of discovery. In the first data release (DR1), we present the optical light curves obtained for 247 SNe from our project (including 148 SNe in the complete sample), and we derive parameters such as the peak fluxes, Δ
m
15
, and
s
BV
.
Abstract
SN 2017dio shows both spectral characteristics of a type-Ic supernova (SN) and signs of a hydrogen-rich circumstellar medium (CSM). Prominent, narrow emission lines of H and He are ...superposed on the continuum. Subsequent evolution revealed that the SN ejecta are interacting with the CSM. The initial SN Ic identification was confirmed by removing the CSM interaction component from the spectrum and comparing with known SNe Ic and, reversely, adding a CSM interaction component to the spectra of known SNe Ic and comparing them to SN 2017dio. Excellent agreement was obtained with both procedures, reinforcing the SN Ic classification. The light curve constrains the pre-interaction SN Ic peak absolute magnitude to be around
M
g
=
−
17.6
mag. No evidence of significant extinction is found, ruling out a brighter luminosity required by an SN Ia classification. These pieces of evidence support the view that SN 2017dio is an SN Ic, and therefore the first firm case of an SN Ic with signatures of hydrogen-rich CSM in the early spectrum. The CSM is unlikely to have been shaped by steady-state stellar winds. The mass loss of the progenitor star must have been intense,
M
˙
∼
0.02
(
ϵ
H
α
/
0.01
)
−
1
(
v
wind
/
500
km s
−1
)
(
v
shock
/
10,000 km s
−1
)
−3
M
⊙
yr
−1
, peaking at a few decades before the SN. Such a high mass-loss rate might have been experienced by the progenitor through eruptions or binary stripping.
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