Identifying the floral composition of honey provides a method for investigating the plants that honey bees visit. We compared melissopalynology, where pollen grains retrieved from honey are ...identified morphologically, with a DNA metabarcoding approach using the rbcL DNA barcode marker and 454-pyrosequencing. We compared nine honeys supplied by beekeepers in the UK. DNA metabarcoding and melissopalynology were able to detect the most abundant floral components of honey. There was 92% correspondence for the plant taxa that had an abundance of over 20%. However, the level of similarity when all taxa were compared was lower, ranging from 22-45%, and there was little correspondence between the relative abundance of taxa found using the two techniques. DNA metabarcoding provided much greater repeatability, with a 64% taxa match compared to 28% with melissopalynology. DNA metabarcoding has the advantage over melissopalynology in that it does not require a high level of taxonomic expertise, a greater sample size can be screened and it provides greater resolution for some plant families. However, it does not provide a quantitative approach and pollen present in low levels are less likely to be detected. We investigated the plants that were frequently used by honey bees by examining the results obtained from both techniques. Plants with a broad taxonomic range were detected, covering 46 families and 25 orders, but a relatively small number of plants were consistently seen across multiple honey samples. Frequently found herbaceous species were Rubus fruticosus, Filipendula ulmaria, Taraxacum officinale, Trifolium spp., Brassica spp. and the non-native, invasive, Impatiens glandulifera. Tree pollen was frequently seen belonging to Castanea sativa, Crataegus monogyna and species of Malus, Salix and Quercus. We conclude that although honey bees are considered to be supergeneralists in their foraging choices, there are certain key species or plant groups that are particularly important in the honey bees environment. The reasons for this require further investigation in order to better understand honey bee nutritional requirements. DNA metabarcoding can be easily and widely used to investigate floral visitation in honey bees and can be adapted for use with other insects. It provides a starting point for investigating how we can better provide for the insects that we rely upon for pollination.
Celotno besedilo
Dostopno za:
DOBA, IZUM, KILJ, NUK, PILJ, PNG, SAZU, SIK, UILJ, UKNU, UL, UM, UPUK
Two theories address the origin of repeating patterns, such as hair follicles, limb digits, and intestinal villi, during development. The Turing reaction-diffusion system posits that interacting ...diffusible signals produced by static cells first define a prepattern that then induces cell rearrangements to produce an anatomical structure. The second theory, that of mesenchymal self-organisation, proposes that mobile cells can form periodic patterns of cell aggregates directly, without reference to any prepattern. Early hair follicle development is characterised by the rapid appearance of periodic arrangements of altered gene expression in the epidermis and prominent clustering of the adjacent dermal mesenchymal cells. We assess the contributions and interplay between reaction-diffusion and mesenchymal self-organisation processes in hair follicle patterning, identifying a network of fibroblast growth factor (FGF), wingless-related integration site (WNT), and bone morphogenetic protein (BMP) signalling interactions capable of spontaneously producing a periodic pattern. Using time-lapse imaging, we find that mesenchymal cell condensation at hair follicles is locally directed by an epidermal prepattern. However, imposing this prepattern's condition of high FGF and low BMP activity across the entire skin reveals a latent dermal capacity to undergo spatially patterned self-organisation in the absence of epithelial direction. This mesenchymal self-organisation relies on restricted transforming growth factor (TGF) β signalling, which serves to drive chemotactic mesenchymal patterning when reaction-diffusion patterning is suppressed, but, in normal conditions, facilitates cell movement to locally prepatterned sources of FGF. This work illustrates a hierarchy of periodic patterning modes operating in organogenesis.
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Dostopno za:
DOBA, IZUM, KILJ, NUK, PILJ, PNG, SAZU, SIK, UILJ, UKNU, UL, UM, UPUK
Abstract
The accretion disks of active galactic nuclei (AGNs) are promising locations for the merger of compact objects detected by gravitational wave (GW) observatories. Embedded within a ...baryon-rich, high-density environment, mergers within AGNs are the only GW channel where an electromagnetic (EM) counterpart must occur (whether detectable or not). Considering AGNs with unusual flaring activity observed by the Zwicky Transient Facility (ZTF), we describe a search for candidate EM counterparts to binary black hole (BBH) mergers detected by LIGO/Virgo in O3. After removing probable false positives, we find nine candidate counterparts to BBH mergers during O3 (seven in O3a, two in O3b) with a
p
-value of 0.0019. Based on ZTF sky coverage, AGN geometry, and merger geometry, we expect ≈3(
N
BBH
/83)(
f
AGN
/0.5) potentially detectable EM counterparts from O3, where
N
BBH
is the total number of observed BBH mergers and
f
AGN
is the fraction originating in AGNs. Further modeling of breakout and flaring phenomena in AGN disks is required to reduce our false-positive rate. Two of the events are also associated with mergers with total masses >100
M
⊙
, which is the expected rate for O3 if hierarchical (large-mass) mergers occur in the AGN channel. Candidate EM counterparts in future GW observing runs can be better constrained by coverage of the Southern sky as well as spectral monitoring of unusual AGN flaring events in LIGO/Virgo alert volumes. A future set of reliable AGN EM counterparts to BBH mergers will yield an independent means of measuring cosmic expansion (
H
0
) as a function of redshift.
We report a new changing-look quasar, WISE J105203.55+151929.5 at z = 0.303, found by identifying highly mid-IR-variable quasars in the Wide-field Infrared Survey Explorer (WISE)/Near-Earth Object ...WISE Reactivation (NEOWISE) data stream. Compared to multiepoch mid-IR photometry of a large sample of SDSS-confirmed quasars, WISE J1052+1519 is an extreme photometric outlier, fading by more than a factor of two at 3.4 and 4.6 m since 2009. Swift target-of-opportunity observations in 2017 show even stronger fading in the soft X-rays compared to the ROSAT detection of this source in 1995, with at least a factor of 15 decrease. We obtained second-epoch spectroscopy with the Palomar telescope in 2017 that, when compared with the 2006 archival SDSS spectrum, reveals that the broad Hβ emission has vanished and that the quasar has become significantly redder. The two most likely interpretations for this dramatic change are source fading or obscuration, where the latter is strongly disfavored by the mid-IR data. We discuss various physical scenarios that could cause such changes in the quasar luminosity over this timescale, and favor changes in the innermost regions of the accretion disk that occur on the thermal and heating/cooling front timescales. We discuss possible physical triggers that could cause these changes, and predict the multiwavelength signatures that could distinguish these physical scenarios.
The stochastic simulation algorithm commonly known as Gillespie’s algorithm (originally derived for modelling well-mixed systems of chemical reactions) is now used ubiquitously in the modelling of ...biological processes in which stochastic effects play an important role. In well-mixed scenarios at the sub-cellular level it is often reasonable to assume that times between successive reaction/interaction events are exponentially distributed and can be appropriately modelled as a Markov process and hence simulated by the Gillespie algorithm. However, Gillespie’s algorithm is routinely applied to model biological systems for which it was never intended. In particular, processes in which cell proliferation is important (e.g. embryonic development, cancer formation) should not be simulated naively using the Gillespie algorithm since the history-dependent nature of the cell cycle breaks the Markov process. The variance in experimentally measured cell cycle times is far less than in an exponential cell cycle time distribution with the same mean.
Here we suggest a method of modelling the cell cycle that restores the memoryless property to the system and is therefore consistent with simulation via the Gillespie algorithm. By breaking the cell cycle into a number of independent exponentially distributed stages, we can restore the Markov property at the same time as more accurately approximating the appropriate cell cycle time distributions. The consequences of our revised mathematical model are explored analytically as far as possible. We demonstrate the importance of employing the correct cell cycle time distribution by recapitulating the results from two models incorporating cellular proliferation (one spatial and one non-spatial) and demonstrating that changing the cell cycle time distribution makes quantitative and qualitative differences to the outcome of the models. Our adaptation will allow modellers and experimentalists alike to appropriately represent cellular proliferation—vital to the accurate modelling of many biological processes—whilst still being able to take advantage of the power and efficiency of the popular Gillespie algorithm.
The nature and extent of immune cell infiltration into solid tumours are key determinants of therapeutic response. Here, using a DNA methylation-based approach to tumour cell fraction deconvolution, ...we report the integrated analysis of tumour composition and genomics across a wide spectrum of solid cancers. Initially studying head and neck squamous cell carcinoma, we identify two distinct tumour subgroups: 'immune hot' and 'immune cold', which display differing prognosis, mutation burden, cytokine signalling, cytolytic activity and oncogenic driver events. We demonstrate the existence of such tumour subgroups pan-cancer, link clonal-neoantigen burden to cytotoxic T-lymphocyte infiltration, and show that transcriptional signatures of hot tumours are selectively engaged in immunotherapy responders. We also find that treatment-naive hot tumours are markedly enriched for known immune-resistance genomic alterations, potentially explaining the heterogeneity of immunotherapy response and prognosis seen within this group. Finally, we define a catalogue of mediators of active antitumour immunity, deriving candidate biomarkers and potential targets for precision immunotherapy.
Defects in cilium and centrosome function result in a spectrum of clinically-related disorders, known as ciliopathies. However, the complex molecular composition of these structures confounds ...functional dissection of what any individual gene product is doing under normal and disease conditions. As part of an siRNA screen for genes involved in mammalian ciliogenesis, we and others have identified the conserved centrosomal protein Azi1/Cep131 as required for cilia formation, supporting previous Danio rerio and Drosophila melanogaster mutant studies. Acute loss of Azi1 by knock-down in mouse fibroblasts leads to a robust reduction in ciliogenesis, which we rescue by expressing siRNA-resistant Azi1-GFP. Localisation studies show Azi1 localises to centriolar satellites, and traffics along microtubules becoming enriched around the basal body. Azi1 also localises to the transition zone, a structure important for regulating traffic into the ciliary compartment. To study the requirement of Azi1 during development and tissue homeostasis, Azi1 null mice were generated (Azi1(Gt/Gt)). Surprisingly, Azi1(Gt/Gt) MEFs have no discernible ciliary phenotype and moreover are resistant to Azi1 siRNA knock-down, demonstrating that a compensation mechanism exists to allow ciliogenesis to proceed despite the lack of Azi1. Cilia throughout Azi1 null mice are functionally normal, as embryonic patterning and adult homeostasis are grossly unaffected. However, in the highly specialised sperm flagella, the loss of Azi1 is not compensated, leading to striking microtubule-based trafficking defects in both the manchette and the flagella, resulting in male infertility. Our analysis of Azi1 knock-down (acute loss) versus gene deletion (chronic loss) suggests that Azi1 plays a conserved, but non-essential trafficking role in ciliogenesis. Importantly, our in vivo analysis reveals Azi1 mediates novel trafficking functions necessary for flagellogenesis. Our study highlights the importance of both acute removal of a protein, in addition to mouse knock-out studies, when functionally characterising candidates for human disease.
Celotno besedilo
Dostopno za:
DOBA, IZUM, KILJ, NUK, PILJ, PNG, SAZU, SIK, UILJ, UKNU, UL, UM, UPUK
We have prepared thousands of future STEM faculty around the world to adopt evidence-based instructional practices through their participation in two massive open online courses (MOOCs) and ...facilitated in-person learning communities. Our novel combination of asynchronous online and coordinated, structured face-to-face learning community experiences provides flexible options for STEM graduate students and postdoctoral fellows to pursue teaching professional development. A total of 14,977 participants enrolled in seven offerings of the introductory course held 2014-2018, with 1,725 participants (11.5% of enrolled) completing the course. Our results of high levels of engagement and learning suggest that leveraging the affordances of educational technologies and the geographically clustered nature of this learner demographic in combination with online flexible learning could be a sustainable model for large scale professional development in higher education. The preparation of future STEM faculty makes an important difference in establishing high-quality instruction that meets the diverse needs of all undergraduate students, and the initiative described here can serve as a model for increasing access to such preparation.
Celotno besedilo
Dostopno za:
DOBA, IZUM, KILJ, NUK, PILJ, PNG, SAZU, SIK, UILJ, UKNU, UL, UM, UPUK
ABSTRACT
We present the results of a systematic search for quasars in the Catalina Real-time Transient Survey exhibiting both strong photometric variability and spectroscopic variability over a ...decadal baseline. We identify 111 sources with specific patterns of optical and mid-infrared photometric behaviour and a defined spectroscopic change. These ‘changing-state’ quasars (CSQs) form a higher luminosity sample to complement existing sets of ‘changing-look’ AGNs and quasars in the literature. The CSQs (by selection) exhibit larger photometric variability than the changing-look quasars (CLQs). The spectroscopic variability is marginally stronger in the CSQs than CLQs as defined by the change in H β/$\rm {O \,\rm {\small {III}}}$ ratio. We find 48 sources with declining H β flux and 63 sources with increasing H β flux, and discover 8 sources with $z$ > 0.8, further extending the redshift arm. Our CSQ sample compares to the literature CLQ objects in similar distributions of H β flux ratios and differential Eddington ratios between high (bright) and low (dim) states. Taken as a whole, we find that this population of extreme varying quasars is associated with changes in the Eddington ratio and the time-scales imply cooling/heating fronts propagating through the disc.
The first high-redshift changing-look quasars Ross, Nicholas P; Graham, Matthew J; Calderone, Giorgio ...
Monthly notices of the Royal Astronomical Society,
10/2020, Letnik:
498, Številka:
2
Journal Article
Recenzirano
Odprti dostop
ABSTRACT
We report on three redshift z > 2 quasars with dramatic changes in their C iv emission lines, the first sample of changing-look quasars (CLQs) at high redshift. This is also the first time ...the changing-look behaviour has been seen in a high-ionization emission line. SDSS J1205+3422, J1638+2827, and J2228 + 2201 show interesting behaviour in their observed optical light curves, and subsequent spectroscopy shows significant changes in the C iv broad emission line, with both line collapse and emergence being displayed on rest-frame time-scales of ∼240–1640 d. These are rapid changes, especially when considering virial black hole mass estimates of MBH > 109M⊙ for all three quasars. Continuum and emission line measurements from the three quasars show changes in the continuum-equivalent width plane with the CLQs seen to be on the edge of the full population distribution, and showing indications of an intrinsic Baldwin effect. We put these observations in context with recent state-change models, and note that even in their observed low-state, the C iv CLQs are generally above ∼5 per cent in Eddington luminosity.
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