We report the first annotated chromosome-level reference genome assembly for pea, Gregor Mendel's original genetic model. Phylogenetics and paleogenomics show genomic rearrangements across legumes ...and suggest a major role for repetitive elements in pea genome evolution. Compared to other sequenced Leguminosae genomes, the pea genome shows intense gene dynamics, most likely associated with genome size expansion when the Fabeae diverged from its sister tribes. During Pisum evolution, translocation and transposition differentially occurred across lineages. This reference sequence will accelerate our understanding of the molecular basis of agronomically important traits and support crop improvement.
Aim
Identifying the variables that influence animal home range size is important for understanding the biological requirements of individuals and their social interactions. Given their often broad ...distributions, carnivores are model organisms for studying range‐wide determinants of home range size. Here, we test predictions about environmental determinants of home range size for one of the world's most widely distributed carnivores, the red fox (Vulpes vulpes).
Location
Global.
Methods
We compiled a database of 70 mean home range estimates from 62 studies and four continents, which we analysed according to site‐based temperature, precipitation, environmental productivity and human influence variables.
Results
We found a very strong negative effect of the Human Footprint Index (HFI), with fox home range size decreasing as the level of human impact increased. When analysing the constituent components of the HFI separately, we found that human population density was the only well‐supported variable (cf. built environments, croplands, pasture lands, nightlights, railways, roads and navigable waterways). Predicted home range size at the highest human population densities (0.75 km2) was 93% lower than at the lowest population densities (10.83 km2). We also found that home range size increased as mean annual temperature and temperature seasonality increased. The analyses did not support our prediction that home ranges would be smaller in areas of higher environmental productivity or precipitation.
Main conclusions
Smaller home range sizes observed in highly disturbed areas can be attributed to increased food availability from anthropogenic sources. The lack of an effect of environmental productivity contrasts with previous studies that have shown a negative relationship with carnivore home range size. It may be that anthropogenic food sources have negated the impacts that low‐productivity environments have on fox home ranges. Our results emphasize the strong potential for human activities to transform animal space use across the globe.
The rapid growth in the field of metal-organic frameworks (MOFs) over recent years has highlighted their high potential in a variety of applications. For biological and environmental applications ...MOFs with low toxicity are vitally important to avoid any harmful effects. For this reason, Ca-based MOFs are highly desirable owing to their low cost and high biocompatibility. Useful Ca MOFs are still rare owing to the ionic character and large size of the Ca2+ ion tending to produce dense phases. Presented here is a novel Ca-based MOF containing 2,3-dihyrdoxyterephthalate (2,3-dhtp) linkers Ca(2,3-dhtp)(H2O) (SIMOF-4). The material undergoes a phase transformation on heating, which can be followed by variable temperature powder X-ray diffraction. The structure of the high temperature form was obtained using single-crystal X-ray diffraction. The electrochemical properties of SIMOF-4 were also investigated for use in a Na ion battery.
Objectives This study sought to evaluate the impact of anatomic and procedural variables on the outcome of the unprotected left main coronary artery (uLMCA) itself after drug-eluting stent (DES) ...implantation. Background There is a controversial debate regarding when and how to perform percutaneous coronary intervention (PCI) for an uLMCA stenosis. Methods This analysis is based on a randomized study of 607 patients undergoing PCI for uLMCA, randomized 1:1 to receive paclitaxel- or sirolimus-eluting stents. We evaluated the impact of the SYNTAX score, uLMCA anatomy, and stenting technique on in-stent restenosis (ISR), target lesion revascularization (TLR), and the 3-year outcomes. Results The 3-year cardiac mortality rate was 5.8%; 235 (39%) patients had a true bifurcation lesion (TBL), and the median SYNTAX score was 27. TBL was associated with a higher need for multiple stents (72% vs. 37%, p < 0.001). TBL was a significant predictor of ISR (23% vs. 14%, p = 0.008) and for TLR (18% vs. 9%, p < 0.001). The need for multiple stents was a predictor of ISR (22% vs. 13%, p = 0.005) and for TLR (16% vs. 9%, p = 0.005). Culotte stenting showed better results compared with T-stenting for ISR (21% vs. 56%, p = 0.02) and for TLR (15% vs. 56%, p < 0.001). We observed a significant association between uLMCA-TLR and SYNTAX scores (9.2% for scores ≤22, 14.9% for scores 23 to 32, and 13.0% for scores ≥33, p = 0.008). Conclusions PCI of uLMCA lesions with DES is safe and effective out to 3 years. TBL and multiple stents were independent predictors for ISR. In the multivariate analysis, independent predictors for TLR were TBL, age, and EuroSCORE (European System for Cardiac Operative Risk Evaluation). (Drug-Eluting-Stents for Unprotected Left Main Stem Disease ISAR-LEFT-MAIN; NCT00133237 )
ABSTRACT
Propagation effects are one of the main sources of noise in high-precision pulsar timing. For pulsars below an ecliptic latitude of 5°, the ionized plasma in the solar wind can introduce ...dispersive delays of order $100\, \mu \mathrm{s}$ around solar conjunction at an observing frequency of 300 MHz. A common approach to mitigate this assumes a spherical solar wind with a time-constant amplitude. However, this has been shown to be insufficient to describe the solar wind. We present a linear, Gaussian-process piecewise Bayesian approach to fit a spherical solar wind of time-variable amplitude, which has been implemented in the pulsar software run_enterprise. Through simulations, we find that the current EPTA+InPTA data combination is not sensitive to such variations; however, solar wind variations will become important in the near future with the addition of new InPTA data and data collected with the low-frequency LOFAR telescope. We also compare our results for different high-precision timing data sets (EPTA+InPTA, PPTA, and LOFAR) of 3 ms pulsars (J0030+0451, J1022+1001, J2145−0450), and find that the solar-wind amplitudes are generally consistent for any individual pulsar, but they can vary from pulsar to pulsar. Finally, we compare our results with those of an independent method on the same LOFAR data of the three millisecond pulsars. We find that differences between the results of the two methods can be mainly attributed to the modelling of dispersion variations in the interstellar medium, rather than the solar wind modelling.
ABSTRACT
Interstellar scattering (ISS) of radio pulsar emission can be used as a probe of the ionized interstellar medium (IISM) and causes corruptions in pulsar timing experiments. Two types of ISS ...phenomena (intensity scintillation and pulse broadening) are caused by electron density fluctuations on small scales (< 0.01 au). Theory predicts that these are related, and both have been widely employed to study the properties of the IISM. Larger scales (∼1 – 100 au) cause measurable changes in dispersion and these can be correlated with ISS observations to estimate the fluctuation spectrum over a very wide scale range. IISM measurements can often be modelled by a homogeneous power-law spatial spectrum of electron density with the Kolmogorov (−11/3) spectral exponent. Here, we aim to test the validity of using the Kolmogorov exponent with PSR J0826+2637. We do so using observations of intensity scintillation, pulse broadening and dispersion variations across a wide fractional bandwidth (20–180 MHz). We present that the frequency dependence of the intensity scintillation in the high-frequency band matches the expectations of a Kolmogorov spectral exponent, but the pulse broadening in the low-frequency band does not change as rapidly as predicted with this assumption. We show that this behaviour is due to an inhomogeneity in the scattering region, specifically that the scattering is dominated by a region of transverse size ∼40 au. The power spectrum of the electron density, however, maintains the Kolmogorov spectral exponent from spatial scales of 5 × 10−6 au to ∼100 au.
Annual variations of interstellar scintillation can be modelled to constrain parameters of the ionized interstellar medium. If a pulsar is in a binary system, then investigating the orbital ...parameters is possible through analysis of the orbital variation of scintillation. In observations carried out from 2011 to 2020 by the European Pulsar Timing Array radio telescopes, PSRs J0613–0200 and J0636+5128 show strong annual variations in their scintillation velocity, while the former additionally exhibits an orbital fluctuation. Bayesian theory and Markov-chain-Monte-Carlo methods are used to interpret these periodic variations. We assume a thin and anisotropic scattering screen model, and discuss the mildly and extremely anisotropic scattering cases. PSR J0613–0200 is best described by mildly anisotropic scattering, while PSR J0636+5128 exhibits extremely anisotropic scattering. We measure the distance, velocity, and degree of anisotropy of the scattering screen for our two pulsars, finding that scattering screen distances from Earth for PSRs J0613–0200 and J0636+5128 are 316
−20
+28
pc and 262
−38
+96
pc, respectively. The positions of these scattering screens are coincident with the shell of the Local Bubble towards both pulsars. These associations add to the growing evidence of the Local Bubble shell as a dominant region of scattering along many sightlines.
DNA replication programs have been studied extensively in yeast and animal systems, where they have been shown to correlate with gene expression and certain epigenetic modifications. Despite the ...conservation of core DNA replication proteins, little is known about replication programs in plants. We used flow cytometry and tiling microarrays to profile DNA replication of Arabidopsis thaliana chromosome 4 (chr4) during early, mid, and late S phase. Replication profiles for early and mid S phase were similar and encompassed the majority of the euchromatin. Late S phase exhibited a distinctly different profile that includes the remaining euchromatin and essentially all of the heterochromatin. Termination zones were consistent between experiments, allowing us to define 163 putative replicons on chr4 that clustered into larger domains of predominately early or late replication. Early-replicating sequences, especially the initiation zones of early replicons, displayed a pattern of epigenetic modifications specifying an open chromatin conformation. Late replicons, and the termination zones of early replicons, showed an opposite pattern. Histone H3 acetylated on lysine 56 (H3K56ac) was enriched in early replicons, as well as the initiation zones of both early and late replicons. H3K56ac was also associated with expressed genes, but this effect was local whereas replication time correlated with H3K56ac over broad regions. The similarity of the replication profiles for early and mid S phase cells indicates that replication origin activation in euchromatin is stochastic. Replicon organization in Arabidopsis is strongly influenced by epigenetic modifications to histones and DNA. The domain organization of Arabidopsis is more similar to that in Drosophila than that in mammals, which may reflect genome size and complexity. The distinct patterns of association of H3K56ac with gene expression and early replication provide evidence that H3K56ac may be associated with initiation zones and replication origins.
We present the interstellar scintillation analysis of fast radio burst (FRB) 20220912A during its extremely active episode in 2022 using data from the Five-hundred-meter Aperture Spherical Radio ...Telescope (FAST). We detect a scintillation arc in the FRB’s secondary spectrum, which describes the power in terms of the scattered FRB signals’ time delay and Doppler shift. The arc indicates that the scintillation is caused by a highly localized region. Our analysis favors a Milky Way origin of the ionized interstellar medium (IISM) for the localized scattering medium but cannot rule out a host galaxy origin. We present our method for detecting the scintillation arc, which can be applied generally to sources with irregularly spaced bursts or pulses. These methods could help shed light on the complex interstellar environment surrounding the FRBs and in our Galaxy.
Long-term exposure to estrogens including those in traditional hormone replacement therapy (HRT) increases the risk of developing hormone-dependent cancers. As a result, women are turning to ...over-the-counter (OTC) botanical dietary supplements, such as black cohosh (Cimicifuga racemosa) and hops (Humulus lupulus), as natural alternatives to HRT. The two major mechanisms which likely contribute to estrogen and/or HRT cancer risk are: the estrogen receptor-mediated hormonal pathway; and the chemical carcinogenesis pathway involving formation of estrogen quinones that damage DNA and proteins, hence initiating and promoting carcinogenesis. Because, OTC botanical HRT alternatives are in widespread use, they may have the potential for chemopreventive effects on estrogen carcinogenic pathways in vivo. Therefore, the effect of OTC botanicals on estrogen-induced malignant transformation of MCF-10A cells was studied. Cytochrome P450 catalyzed hydroxylation of estradiol at the 4-position leads to an o-quinone believed to act as the proximal carcinogen. Liquid chromatography/tandem mass spectrometry analysis of estradiol metabolites showed that 4-hydroxylation was inhibited by hops, whereas black cohosh was without effect. Estrogen-induced expression of CYP450 1B1 and CYP450 1A1 was attenuated by the hops extract. Two phenolic constituents of hops (xanthohumol, XH; 8-prenylnaringenin, 8-PN) were tested: 8-PN was a potent inhibitor, whereas XH had no effect. Finally, estrogen-induced malignant transformation of MCF-10A cells was observed to be significantly inhibited by hops (5 μg/mL) and 8-PN (50 nmol/L). These data suggest that hops extracts possess cancer chemopreventive activity through attenuation of estrogen metabolism mediated by 8-PN.
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