245 research outputs found
Population-genomic insights into emergence, crop-adaptation, and dissemination of Pseudomonas syringae pathogens
This is the author accepted manuscript. The final version is available from the publisher via the DOI in this record.Many bacterial pathogens are well characterized but, in some cases, relatively little is
known about the populations from which they emerged. This limits understanding of
the molecular mechanisms underlying disease. The crop pathogen Pseudomonas
syringae sensu lato has been widely isolated from the environment, including wild
plants and components of the water cycle, and causes disease in several economically
important crops. Here, we compared genome sequences of 45 P. syringae crop
pathogen outbreak strains with 69 closely related environmental isolates. Phylogenetic
reconstruction revealed that crop pathogens emerged many times independently from
environmental populations. Unexpectedly, differences in gene content between
environmental populations and outbreak strains were minimal with most virulence
genes present in both. However, a genome-wide association study identified a small
number of genes, including the type III effector genes hopQ1 and hopD1, to be
associated with crop pathogens, but not with environmental populations, suggesting
that this small group of genes may play an important role in crop disease emergence.
Intriguingly, genome-wide analysis of homologous recombination revealed that the
locus Psyr 0346, predicted to encode a protein that confers antibiotic resistance, has
been frequently exchanged among lineages and thus may contribute to pathogen
fitness. Finally, we found that isolates from diseased crops and from components of the
water cycle, collected during the same crop disease epidemic, form a single
population. This provides the strongest evidence yet that precipitation and irrigation
water are an overlooked inoculum source for disease epidemics caused by P.
syringae.Caroline L. Monteil
received support from INRA and the European Union, in the framework of the Marie-Curie FP7
COFUND People Programme, through the award of an AgreenSkillsâ fellowship (under grant
agreement n° 267196). Research in Boris A. Vinatzerâs laboratory and genome sequencing was
funded by the National Science Foundation of the USA (grants IOS-1354215 and DEB-1241068).
Funding for work in the Vinatzer laboratory was also provided in part by the Virginia Agricultural
Experiment Station and the Hatch Program of the National Institute of Food and Agriculture, U.S.
Department of Agriculture. Work carried out in the Sheppard laboratory was supported by the
Medical Research Council (MRC) grant MR/L015080/1, and the Wellcome Trust grant
088786/C/09/Z. GM was supported by a NISCHR Health Research Fellowship (HF-14-13)
Historicising Material Agency: from Relations to Relational Constellations
Relational approaches have gradually been changing the face of archaeology over the last decade: analytically, through formal network analysis; and interpretively, with various frameworks of human-thing relations. Their popularity has been such, however, that it threatens to undermine their relevance. If everyone agrees that we should understand past worlds by tracing relations, then âfinding relationsâ in the past becomes a self-fulfilling prophecy. Focusing primarily on the interpretive approaches of material culture studies, this article proposes to counter the threat of irrelevance by not just tracing human-thing relations, but characterising how sets of relations were ordered. Such ordered sets are termed ârelational constellationsâ. The article describes three relational constellations and their consequences based on practices of fine ware production in the Western Roman provinces (first century BC â third century AD): the fluid, the categorical, and the rooted constellation. Specifying relational constellations allows reconnecting material culture to specific historical trajectories, and offers scope for meaningful cross-cultural comparisons. As such a small theoretical addition based on the existing toolbox of practice-based approaches and relational thought can impact on historical narratives, and can save relational frameworks from the danger of triviality.This is the author accepted manuscript. The final version is available from Springer via http://dx.doi.org/10.1007/s10816-015-9244-
Gene Transcription and Splicing of T-Type Channels Are Evolutionarily-Conserved Strategies for Regulating Channel Expression and Gating
T-type calcium channels operate within tightly regulated biophysical constraints for supporting rhythmic firing in the brain, heart and secretory organs of invertebrates and vertebrates. The snail T-type gene, LCav3 from Lymnaea stagnalis, possesses alternative, tandem donor splice sites enabling a choice of a large exon 8b (201 aa) or a short exon 25c (9 aa) in cytoplasmic linkers, similar to mammalian homologs. Inclusion of optional 25c exons in the IIIâIV linker of T-type channels speeds up kinetics and causes hyperpolarizing shifts in both activation and steady-state inactivation of macroscopic currents. The abundant variant lacking exon 25c is the workhorse of embryonic Cav3 channels, whose high density and right-shifted activation and availability curves are expected to increase pace-making and allow the channels to contribute more significantly to cellular excitation in prenatal tissue. Presence of brain-enriched, optional exon 8b conserved with mammalian Cav3.1 and encompassing the proximal half of the IâII linker, imparts a âŒ50% reduction in total and surface-expressed LCav3 channel protein, which accounts for reduced whole-cell calcium currents of +8b variants in HEK cells. Evolutionarily conserved optional exons in cytoplasmic linkers of Cav3 channels regulate expression (exon 8b) and a battery of biophysical properties (exon 25c) for tuning specialized firing patterns in different tissues and throughout development
Observation of B(s)0âJ/ÏppÂŻ decays and precision measurements of the B(s)0 masses
The first observation of the decays
B
0
(
s
)
â
J
/
Ï
p
ÂŻ
p
is reported, using proton-proton collision data corresponding to an integrated luminosity of
5.2
â
â
fb
â
1
, collected with the LHCb detector. These decays are suppressed due to limited available phase space, as well as due to Okubo-Zweig-Iizuka or Cabibbo suppression. The measured branching fractions are
B
(
B
0
â
J
/
Ï
p
ÂŻ
p
)
=
[
4.51
±
0.40
(
stat
)
±
0.44
(
syst
)
]
Ă
10
â
7
,
B
(
B
0
s
â
J
/
Ï
p
ÂŻ
p
)
=
[
3.58
±
0.19
(
stat
)
±
0.39
(
syst
)
]
Ă
10
â
6
. For the
B
0
s
meson, the result is much higher than the expected value of
O
(
10
â
9
)
. The small available phase space in these decays also allows for the most precise single measurement of both the
B
0
mass as
5279.74
±
0.30
(
stat
)
±
0.10
(
syst
)
â
â
MeV
and the
B
0
s
mass as
5366.85
±
0.19
(
stat
)
±
0.13
(
syst
)
â
â
MeV
Measurement of D s <sup>±</sup> production asymmetry in pp collisions at âs=7 and 8 TeV
The inclusive production asymmetry is measured in collisions
collected by the LHCb experiment at centre-of-mass energies of
and 8 TeV. Promptly produced mesons are used, which decay as
, with . The measurement is
performed in bins of transverse momentum, , and rapidity, ,
covering the range GeV and . No kinematic
dependence is observed. Evidence of nonzero production asymmetry is
found with a significance of 3.3 standard deviations.Comment: All figures and tables, along with any supplementary material and
additional information, are available at
https://cern.ch/lhcbproject/Publications/p/LHCb-PAPER-2018-010.htm
Observation of the decay Î <sub>b</sub> <sup>0</sup> âââÏ(2S)pÏ<sup>â</sup>
International audienceThe Cabibbo-suppressed decay Î âââÏ(2S)pÏ is observed for the first time using a data sample collected by the LHCb experiment in proton-proton collisions corresponding to 1.0, 2.0 and 1.9 fb of integrated luminosity at centre-of-mass energies of 7, 8 and 13 TeV, respectively. The Ï(2S) mesons are reconstructed in the ΌΌ final state. The branching fraction with respect to that of the Î âââÏ(2S)pK decay mode is measured to b
Search for CP violation in Îb0âpKâ and Îb0âpÏâ decays
A search for CP violation in Îb0âpKâ and Îb0âpÏâ decays is presented using a sample of pp collisions collected with the LHCb detector and corresponding to an integrated luminosity of 3.0fbâ1. The CP -violating asymmetries are measured to be ACPpKâ=â0.020±0.013±0.019 and ACPpÏâ=â0.035±0.017±0.020, and their difference ACPpKââACPpÏâ=0.014±0.022±0.010, where the first uncertainties are statistical and the second systematic. These are the most precise measurements of such asymmetries to date
Evidence for an nc(1S)ff- resonance in B0 yc(1S)K+ decays
A Dalitz plot analysis of B0âηc(1S)K+Ï- decays is performed using data samples of pp collisions collected with the LHCb detector at centre-of-mass energies of s=7,8 and 13TeV , corresponding to a total integrated luminosity of 4.7fb-1 . A satisfactory description of the data is obtained when including a contribution representing an exotic ηc(1S)Ï- resonant state. The significance of this exotic resonance is more than three standard deviations, while its mass and width are 4096±20-22+18MeV and 152±58-35+60MeV , respectively. The spin-parity assignments JP=0+ and JP=1- are both consistent with the data. In addition, the first measurement of the B0âηc(1S)K+Ï- branching fraction is performed and gives B(B0âηc(1S)K+Ï-)=(5.73±0.24±0.13±0.66)Ă10-4, where the first uncertainty is statistical, the second systematic, and the third is due to limited knowledge of external branching fractions
Precision measurement of violation in the penguin-mediated decay
A flavor-tagged time-dependent angular analysis of the decay
is performed using collision data collected
by the LHCb experiment at % at TeV, the center-of-mass energy of
13 TeV, corresponding to an integrated luminosity of 6 fb^{-1}. The
-violating phase and direct -violation parameter are measured
to be rad and
, respectively, assuming the same values
for all polarization states of the system. In these results, the
first uncertainties are statistical and the second systematic. These parameters
are also determined separately for each polarization state, showing no evidence
for polarization dependence. The results are combined with previous LHCb
measurements using collisions at center-of-mass energies of 7 and 8 TeV,
yielding rad and . This is the most precise study of time-dependent violation
in a penguin-dominated meson decay. The results are consistent with
symmetry and with the Standard Model predictions.Comment: All figures and tables, along with any supplementary material and
additional information, are available at
https://cern.ch/lhcbproject/Publications/p/LHCb-PAPER-2023-001.html (LHCb
public pages
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