2,882 research outputs found
CWRML: representing crop wild relative conservation and use data in XML
Background
Crop wild relatives are wild species that are closely related to crops. They are valuable as potential gene donors for crop improvement and may help to ensure food security for the future. However, they are becoming increasingly threatened in the wild and are inadequately conserved, both in situ and ex situ. Information about the conservation status and utilisation potential of crop wild relatives is diverse and dispersed, and no single agreed standard exists for representing such information; yet, this information is vital to ensure these species are effectively conserved and utilised. The European Community-funded project, European Crop Wild Relative Diversity Assessment and Conservation Forum, determined the minimum information requirements for the conservation and utilisation of crop wild relatives and created the Crop Wild Relative Information System, incorporating an eXtensible Markup Language (XML) schema to aid data sharing and exchange.
Results
Crop Wild Relative Markup Language (CWRML) was developed to represent the data necessary for crop wild relative conservation and ensure that they can be effectively utilised for crop improvement. The schema partitions data into taxon-, site-, and population-specific elements, to allow for integration with other more general conservation biology schemata which may emerge as accepted standards in the future. These elements are composed of sub-elements, which are structured in order to facilitate the use of the schema in a variety of crop wild relative conservation and use contexts. Pre-existing standards for data representation in conservation biology were reviewed and incorporated into the schema as restrictions on element data contents, where appropriate.
Conclusion
CWRML provides a flexible data communication format for representing in situ and ex situ conservation status of individual taxa as well as their utilisation potential. The development of the schema highlights a number of instances where additional standards-development may be valuable, particularly with regard to the representation of population-specific data and utilisation potential. As crop wild relatives are intrinsically no different to other wild plant species there is potential for the inclusion of CWRML data elements in the emerging standards for representation of biodiversity data
Higgs Mass from D-Terms: a Litmus Test
We explore supersymmetric theories in which the Higgs mass is boosted by the
non-decoupling D-terms of an extended gauge symmetry, defined here to
be a general linear combination of hypercharge, baryon number, and lepton
number. Crucially, the gauge coupling, , is bounded from below to
accommodate the Higgs mass, while the quarks and leptons are required by gauge
invariance to carry non-zero charge under . This induces an irreducible
rate, BR, for relevant to
existing and future resonance searches, and gives rise to higher dimension
operators that are stringently constrained by precision electroweak
measurements. Combined, these bounds define a maximally allowed region in the
space of observables, (BR, ), outside of which is excluded by
naturalness and experimental limits. If natural supersymmetry utilizes
non-decoupling D-terms, then the associated boson can only be observed
within this window, providing a model independent `litmus test' for this broad
class of scenarios at the LHC. Comparing limits, we find that current LHC
results only exclude regions in parameter space which were already disfavored
by precision electroweak data.Comment: 7 pages, 9 figure
Design and evaluation of the immunogenicity and efficacy of a biomimetic particulate formulation of viral antigens
Subunit viral vaccines are typically not as efficient as live attenuated or inactivated vaccines at inducing protective immune responses. This paper describes an alternative 'biomimetic' technology; whereby viral antigens were formulated around a polymeric shell in a rationally arranged fashion with a surface glycoprotein coated on to the surface and non-structural antigen and adjuvant encapsulated. We evaluated this model using BVDV E2 and NS3 proteins formulated in poly-(D, L-lactic-co-glycolic acid) (PLGA) nanoparticles adjuvanted with polyinosinic:polycytidylic acid (poly(I:C) as an adjuvant (Vaccine-NP). This Vaccine-NP was compared to ovalbumin and poly(I:C) formulated in a similar manner (Control-NP) and a commercial adjuvanted inactivated BVDV vaccine (IAV), all inoculated subcutaneously and boosted prior to BVDV-1 challenge. Significant virus-neutralizing activity, and E2 and NS3 specific antibodies were observed in both Vaccine-NP and IAV groups following the booster immunisation. IFN-γ responses were observed in ex vivo PBMC stimulated with E2 and NS3 proteins in both vaccinated groups. We observed that the protection afforded by the particulate vaccine was comparable to the licenced IAV formulation. In conclusion, the biomimetic particulates showed a promising immunogenicity and efficacy profile that may be improved by virtue of being a customisable mode of delivery
A New Constructive Heuristic for the Fm|block|ST
This paper deals with the blocking flow shop problem and proposes new constructive procedures for the total tardiness minimization of jobs. The heuristic has three-phases to build the sequence; the first phase selects the first job to be scheduled, the second phase arranges the remaining jobs and the third phase uses the insertion procedure of NEH to improve the sequence. The proposed procedures evaluate the tardiness associated to the sequence obtained before and after the third phase in order to keep the best of both because the insertion phase can worsen the result. The computational evaluation of these procedures against the benchmark constructive procedures from the literature reveals their good performance.Postprint (published version
The Galaxy Structure-Redshift Relationship
There exists a gradual, but persistent, evolutionary effect in the galaxy
population such that galaxy structure and morphology change with redshift. This
galaxy structure-redshift relationship is such that an increasingly large
fraction of all bright and massive galaxies at redshifts 2 < z < 3 are
morphologically peculiar at wavelengths from rest-frame ultraviolet to
rest-frame optical. There are however examples of morphologically selected
spirals and ellipticals at all redshifts up to z ~ 3. At lower redshift, the
bright galaxy population smoothly transforms into normal ellipticals and
spirals. The rate of this transformation strongly depends on redshift, with the
swiftest evolution occurring between 1 < z < 2. This review characterizes the
galaxy structure-redshift relationship, discusses its various physical causes,
and how these are revealing the mechanisms responsible for galaxy formation.Comment: 20 pages, 8 figures. Invited Review to appear in "Penetrating Bars
Through Masks of Cosmic Dust: The Hubble Tuning Fork Strikes A New Note", ed.
D. Block et a
Two Theileria parva CD8 T Cell Antigen Genes Are More Variable in Buffalo than Cattle Parasites, but Differ in Pattern of Sequence Diversity
<p><b>Background:</b> Theileria parva causes an acute fatal disease in cattle, but infections are asymptomatic in the African buffalo (Syncerus caffer). Cattle can be immunized against the parasite by infection and treatment, but immunity is partially strain specific. Available data indicate that CD8(+) T lymphocyte responses mediate protection and, recently, several parasite antigens recognised by CD8(+) T cells have been identified. This study set out to determine the nature and extent of polymorphism in two of these antigens, Tp1 and Tp2, which contain defined CD8(+) T-cell epitopes, and to analyse the sequences for evidence of selection.</p>
<p><b>Methodology/Principal Findings:</b> Partial sequencing of the Tp1 gene and the full-length Tp2 gene from 82 T. parva isolates revealed extensive polymorphism in both antigens, including the epitope-containing regions. Single nucleotide polymorphisms were detected at 51 positions (similar to 12%) in Tp1 and in 320 positions (similar to 61%) in Tp2. Together with two short indels in Tp1, these resulted in 30 and 42 protein variants of Tp1 and Tp2, respectively. Although evidence of positive selection was found for multiple amino acid residues, there was no preferential involvement of T cell epitope residues. Overall, the extent of diversity was much greater in T. parva isolates originating from buffalo than in isolates known to be transmissible among cattle.</p>
<p><b>Conclusions/Significance:</b> The results indicate that T. parva parasites maintained in cattle represent a subset of the overall T. parva population, which has become adapted for tick transmission between cattle. The absence of obvious enrichment for positively selected amino acid residues within defined epitopes indicates either that diversity is not predominantly driven by selection exerted by host T cells, or that such selection is not detectable by the methods employed due to unidentified epitopes elsewhere in the antigens. Further functional studies are required to address this latter point.</p>
Two Theileria parva CD8 T Cell Antigen Genes Are More Variable in Buffalo than Cattle Parasites, but Differ in Pattern of Sequence Diversity
<p><b>Background:</b> Theileria parva causes an acute fatal disease in cattle, but infections are asymptomatic in the African buffalo (Syncerus caffer). Cattle can be immunized against the parasite by infection and treatment, but immunity is partially strain specific. Available data indicate that CD8(+) T lymphocyte responses mediate protection and, recently, several parasite antigens recognised by CD8(+) T cells have been identified. This study set out to determine the nature and extent of polymorphism in two of these antigens, Tp1 and Tp2, which contain defined CD8(+) T-cell epitopes, and to analyse the sequences for evidence of selection.</p>
<p><b>Methodology/Principal Findings:</b> Partial sequencing of the Tp1 gene and the full-length Tp2 gene from 82 T. parva isolates revealed extensive polymorphism in both antigens, including the epitope-containing regions. Single nucleotide polymorphisms were detected at 51 positions (similar to 12%) in Tp1 and in 320 positions (similar to 61%) in Tp2. Together with two short indels in Tp1, these resulted in 30 and 42 protein variants of Tp1 and Tp2, respectively. Although evidence of positive selection was found for multiple amino acid residues, there was no preferential involvement of T cell epitope residues. Overall, the extent of diversity was much greater in T. parva isolates originating from buffalo than in isolates known to be transmissible among cattle.</p>
<p><b>Conclusions/Significance:</b> The results indicate that T. parva parasites maintained in cattle represent a subset of the overall T. parva population, which has become adapted for tick transmission between cattle. The absence of obvious enrichment for positively selected amino acid residues within defined epitopes indicates either that diversity is not predominantly driven by selection exerted by host T cells, or that such selection is not detectable by the methods employed due to unidentified epitopes elsewhere in the antigens. Further functional studies are required to address this latter point.</p>
Asymmetric Origin for Gravitino Relic Density in the Hybrid Gravity-Gauge Mediated Supersymmetry Breaking
We propose the hybrid gravity-gauge mediated supersymmetry breaking where the
gravitino mass is about several GeV. The strong constraints on supersymmetry
viable parameter space from the CMS and ATLAS experiments at the LHC can be
relaxed due to the heavy colored supersymmetric particles, and it is consistent
with null results in the dark matter (DM) direct search experiments such as
XENON100. In particular, the possible maximal flavor and CP violations from the
relatively small gravity mediation may naturally account for the recent LHCb
anomaly. In addition, because the gravitino mass is around the asymmetric DM
mass, we propose the asymmetric origin of the gravitino relic density and solve
the cosmological coincident problem on the DM and baryon densities \Omega_{\rm
DM}:\Omega_{B}\approx 5:1. The gravitino relic density arises from asymmetric
metastable particle (AMP) late decay. However, we show that there is no AMP
candidate in the minimal supersymmetric Standard Model (SM) due to the robust
gaugino/Higgsino mediated wash-out effects. Interestingly, AMP can be realized
in the well motivated supersymmetric SMs with vector-like particles or
continuous U(1)_R symmetry. Especially, the lightest CP-even Higgs boson mass
can be lifted in the supersymmetric SMs with vector-like particles.Comment: RevTex4, 21 pages, 1 figure, minor corrections, JHEP versio
Ramified rectilinear polygons: coordinatization by dendrons
Simple rectilinear polygons (i.e. rectilinear polygons without holes or
cutpoints) can be regarded as finite rectangular cell complexes coordinatized
by two finite dendrons. The intrinsic -metric is thus inherited from the
product of the two finite dendrons via an isometric embedding. The rectangular
cell complexes that share this same embedding property are called ramified
rectilinear polygons. The links of vertices in these cell complexes may be
arbitrary bipartite graphs, in contrast to simple rectilinear polygons where
the links of points are either 4-cycles or paths of length at most 3. Ramified
rectilinear polygons are particular instances of rectangular complexes obtained
from cube-free median graphs, or equivalently simply connected rectangular
complexes with triangle-free links. The underlying graphs of finite ramified
rectilinear polygons can be recognized among graphs in linear time by a
Lexicographic Breadth-First-Search. Whereas the symmetry of a simple
rectilinear polygon is very restricted (with automorphism group being a
subgroup of the dihedral group ), ramified rectilinear polygons are
universal: every finite group is the automorphism group of some ramified
rectilinear polygon.Comment: 27 pages, 6 figure
Galaxy And Mass Assembly (GAMA): refining the local galaxy merger rate using morphological information
We use the Galaxy And Mass Assembly (GAMA) survey to measure the local Universe mass dependent merger fraction and merger rate using galaxy pairs and the CAS structural method, which identifies highly asymmetric merger candidate galaxies. Our goals are to determine which types of mergers produce highly asymmetrical galaxies, and to provide a new measurement of the local galaxy major merger rate. We examine galaxy pairs at stellar mass limits down to M∗ = 108M⊙ with mass ratios of 4:1) the lower mass companion becomes highly asymmetric, while the larger galaxy is much less affected. The fraction of highly asymmetric paired galaxies which have a major merger companion is highest for the most massive galaxies and drops progressively with decreasing mass. We calculate that the mass dependent major merger fraction is fairly constant at _ 1.3 − 2% between 109.5 < M∗ < 1011.5M⊙, and increases to _ 4% at lower masses. When the observability time scales are taken into consideration, the major merger rate is found to approximately triple over the mass range we consider. The total co-moving volume major merger rate over the range 108.0 < M∗ < 1011.5M⊙ is (1.2 ± 0.5) × 10−3 h3 70 Mpc−3 Gyr−1
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