853 research outputs found
The evolutionary consequences of genetic adaptation to parasitism
The processes driving and maintaining variable immune responses are poorly understood compared with other aspects of an organism’s ecology. This is particularly true from an evolutionary perspective, as the evolutionary relationships between immune responses and other traits and processes in nature remain inadequately explored. I investigated these associations in this thesis using the three-spined stickleback system as an evolutionary and immunological model. I combined sampling of wild individuals with genomic analyses to demonstrate phenotypic and genomic associations between immune responses and life history evolution across multiple populations. I also observe how experimental changes in daylength, a seasonal cue, modulate immune responses and increase parasite susceptibility in a controlled laboratory experiment. These findings occur independently of natural variation in parasite resistance. Stickleback are also a model for studies of speciation. I used sampling of wild hybrids to assess the significance of immune variation in postzygotic isolating mechanisms between diverging ecotypes; although my findings suggest a minor role. Finally, I demonstrate that genomic responses to parasitism and abiotic environmental variation are repeatable across independent, intercontinental adaptive radiation events in sticklebacks; conferring a repeatability of the evolutionary relationships of immune variation documented in this thesis. The findings within this thesis therefore provide novel insights into poorly explored or open areas of research regarding how variable immune responses evolve in nature
The evolutionary consequences of genetic adaptation to parasitism
The processes driving and maintaining variable immune responses are poorly understood compared with other aspects of an organism’s ecology. This is particularly true from an evolutionary perspective, as the evolutionary relationships between immune responses and other traits and processes in nature remain inadequately explored. I investigated these associations in this thesis using the three-spined stickleback system as an evolutionary and immunological model. I combined sampling of wild individuals with genomic analyses to demonstrate phenotypic and genomic associations between immune responses and life history evolution across multiple populations. I also observe how experimental changes in daylength, a seasonal cue, modulate immune responses and increase parasite susceptibility in a controlled laboratory experiment. These findings occur independently of natural variation in parasite resistance. Stickleback are also a model for studies of speciation. I used sampling of wild hybrids to assess the significance of immune variation in postzygotic isolating mechanisms between diverging ecotypes; although my findings suggest a minor role. Finally, I demonstrate that genomic responses to parasitism and abiotic environmental variation are repeatable across independent, intercontinental adaptive radiation events in sticklebacks; conferring a repeatability of the evolutionary relationships of immune variation documented in this thesis. The findings within this thesis therefore provide novel insights into poorly explored or open areas of research regarding how variable immune responses evolve in nature
Wildlife linkages: volumes and values of residual timber in riparian zones in eastern Texas
In regenerating southern pine, maintenance of riparian zones (RZs) is a major land concession for soil and water protection and wildlife habitat enhancement. However, there are few data quantifying the volume and value of residual timber in such areas. We inventoried merchantable timber in nine RZs of three widths in sapling-class East Texas pine plantations. Present, discounted, and projected volumes and values of residual timber were determined. Average per-acre volumes of narrow, medium, and wide RZs were 337, 1438, and 2542 board feet (Doyle log rule) and 4.6, 8.2, and 7.2 cords, respectively. At US 57.00 per thousand board feet for pine and hardwood saw timber, respectively, and US 5.00 per cord for pine and hardwood pulpwood, respectively, average present per-acre values were US 209.93 and US 4.52, US 34.38, respectively. Stumpage values at the time of harvest projected at 7% compound interest for 30 years ranged US 3547.54 per acre and for 80 years ranged US 104 499.95 per acre. The impact of these results on wildlife is discusse
An HI absorption distance to the black hole candidate X-ray binary MAXI J1535-571
With the Australian Square Kilometre Array Pathfinder (ASKAP) we monitored
the black hole candidate X-ray binary MAXI J1535--571 over seven epochs from 21
September to 2 October 2017. Using ASKAP observations, we studied the HI
absorption spectrum from gas clouds along the line-of-sight and thereby
constrained the distance to the source. The maximum negative radial velocities
measured from the HI absorption spectra for MAXI J1535--571 and an
extragalactic source in the same field of view are km s and
km s, respectively. This rules out the far kinematic distance
( kpc), giving a most likely distance of
kpc, with a strong upper limit of the tangent point at kpc.
At our preferred distance, the peak unabsorbed luminosity of MAXI J1535--571
was per cent of the Eddington luminosity, and shows that the soft-to-hard
spectral state transition occurred at the very low luminosity of 1.2 -- 3.4
10 times the Eddington luminosity. Finally, this study
highlights the capabilities of new wide-field radio telescopes to probe
Galactic transient outbursts, by allowing us to observe both a target source
and a background comparison source in a single telescope pointing.Comment: Revised after favorable referee report from MNRAS Letter
The Performance and Calibration of the CRAFT Fly's Eye Fast Radio Burst Survey
Since January 2017, the Commensal Real-time ASKAP Fast Transients survey
(CRAFT) has been utilising commissioning antennas of the Australian SKA
Pathfinder (ASKAP) to survey for fast radio bursts (FRBs) in fly's eye mode.
This is the first extensive astronomical survey using phased array feeds
(PAFs), and a total of 20 FRBs have been reported. Here we present a
calculation of the sensitivity and total exposure of this survey, using the
pulsars B1641-45 (J1644-4559) and B0833-45 (J0835-4510, i.e.\ Vela) as
calibrators. The design of the survey allows us to benchmark effects due to PAF
beamshape, antenna-dependent system noise, radio-frequency interference, and
fluctuations during commissioning on timescales from one hour to a year.
Observation time, solid-angle, and search efficiency are calculated as a
function of FRB fluence threshold. Using this metric, effective survey
exposures and sensitivities are calculated as a function of the source counts
distribution. The implied FRB rate is significantly lower than the
\,sky\,day calculated using nominal exposures and
sensitivities for this same sample by \citet{craft_nature}. At the Euclidean
power-law index of , the rate is \,sky\,day above a threshold of \,Jy\,ms, while for the best-fit index for this sample of , it is
\,sky\,day above a threshold of \,Jy\,ms. This strongly suggests that these calculations be performed
for other FRB-hunting experiments, allowing meaningful comparisons to be made
between them.Comment: 21 pages, 15 figures, 2 tables, accepted for publication in PAS
Species delimitation using genomic data to resolve taxonomic uncertainties in a speciation continuum of pelagic seabirds
Speciation is a continuous and complex process shaped by the interaction of numerous evolutionary forces. Despite the continuous nature of the speciation process, the implementation of conservation policies relies on the delimitation of species and evolutionary significant units (ESUs). Puffinus shearwaters are globally distributed and threatened pelagic seabirds. Due to remarkable morphological status the group has been under intense taxonomic debate for the past three decades. Here, we use double digest Restriction-Site Associated DNA sequencing (ddRAD-Seq) to genotype species and subspecies of North Atlantic and Mediterranean Puffinus shearwaters across their entire geographical range. We assess the phylogenetic relationships and population structure among and within the group, evaluate species boundaries, and characterise the genomic landscape of divergence. We find that current taxonomies are not supported by genomic data and propose a more accurate taxonomy by integrating genomic information with other sources of evidence. Our results show that several taxon pairs are at different stages of a speciation continuum. Our study emphasises the potential of genomic data to resolve taxonomic uncertainties, which can help to focus management actions on relevant taxa, even if they do not necessarily coincide with the taxonomic rank of species
Energy of Isolated Systems at Retarded Times as the Null Limit of Quasilocal Energy
We define the energy of a perfectly isolated system at a given retarded time
as the suitable null limit of the quasilocal energy . The result coincides
with the Bondi-Sachs mass. Our is the lapse-unity shift-zero boundary value
of the gravitational Hamiltonian appropriate for the partial system
contained within a finite topologically spherical boundary . Moreover, we show that with an arbitrary lapse and zero shift the same
null limit of the Hamiltonian defines a physically meaningful element in the
space dual to supertranslations. This result is specialized to yield an
expression for the full Bondi-Sachs four-momentum in terms of Hamiltonian
values.Comment: REVTEX, 16 pages, 1 figur
Prior exposure to long-day photoperiods alters immune responses and increases susceptibility to parasitic infection in stickleback
Seasonal disease and parasitic infection are common across organisms, including humans, and there is increasing evidence for intrinsic seasonal variation in immune systems. Changes are orchestrated through organisms' physiological clocks using cues such as day length. Ample research in diverse taxa has demonstrated multiple immune responses are modulated by photoperiod, but to date, there have been few experimental demonstrations that photoperiod cues alter susceptibility to infection. We investigated the interactions among photoperiod history, immunity and susceptibility in laboratory-bred three-spined stickleback (a long-day breeding fish) and its external, directly reproducing monogenean parasite Gyrodactylus gasterostei. We demonstrate that previous exposure to long-day photoperiods (PLD) increases susceptibility to infection relative to previous exposure to short days (PSD), and modifies the response to infection for the mucin gene muc2 and Treg cytokine foxp3a in skin tissues in an intermediate 12 L : 12 D photoperiod experimental trial. Expression of skin muc2 is reduced in PLD fish, and negatively associated with parasite abundance. We also observe inflammatory gene expression variation associated with natural inter-population variation in resistance, but find that photoperiod modulation of susceptibility is consistent across host populations. Thus, photoperiod modulation of the response to infection is important for host susceptibility, highlighting new mechanisms affecting seasonality of host-parasite interactions
Methodological review of NMA bias concepts provides groundwork for the development of a list of concepts for potential inclusion in a new risk of bias tool for network meta-analysis (RoB NMA Tool)
INTRODUCTION: Network meta-analyses (NMAs) have gained popularity and grown in number due to their ability to provide estimates of the comparative effectiveness of multiple treatments for the same condition. The aim of this study is to conduct a methodological review to compile a preliminary list of concepts related to bias in NMAs. METHODS AND ANALYSIS: We included papers that present items related to bias, reporting or methodological quality, papers assessing the quality of NMAs, or method papers. We searched MEDLINE, the Cochrane Library and unpublished literature (up to July 2020). We extracted items related to bias in NMAs. An item was excluded if it related to general systematic review quality or bias and was included in currently available tools such as ROBIS or AMSTAR 2. We reworded items, typically structured as questions, into concepts (i.e. general notions). RESULTS: One hundred eighty-one articles were assessed in full text and 58 were included. Of these articles, 12 were tools, checklists or journal standards; 13 were guidance documents for NMAs; 27 were studies related to bias or NMA methods; and 6 were papers assessing the quality of NMAs. These studies yielded 99 items of which the majority related to general systematic review quality and biases and were therefore excluded. The 22 items we included were reworded into concepts specific to bias in NMAs. CONCLUSIONS: A list of 22 concepts was included. This list is not intended to be used to assess biases in NMAs, but to inform the development of items to be included in our tool
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