Automated generation of computationally hard feature models using evolutionary algorithms

This is the post-print version of the final paper published in Expert Systems with Applications. The published article is available from the link below. Changes resulting from the publishing process, such as peer review, editing, corrections, structural formatting, and other quality control mechanisms may not be reflected in this document. Changes may have been made to this work since it was submitted for publication. Copyright @ 2014 Elsevier B.V.A feature model is a compact representation of the products of a software product line. The automated extraction of information from feature models is a thriving topic involving numerous analysis operations, techniques and tools. Performance evaluations in this domain mainly rely on the use of random feature models. However, these only provide a rough idea of the behaviour of the tools with average problems and are not sufficient to reveal their real strengths and weaknesses. In this article, we propose to model the problem of finding computationally hard feature models as an optimization problem and we solve it using a novel evolutionary algorithm for optimized feature models (ETHOM). Given a tool and an analysis operation, ETHOM generates input models of a predefined size maximizing aspects such as the execution time or the memory consumption of the tool when performing the operation over the model. This allows users and developers to know the performance of tools in pessimistic cases providing a better idea of their real power and revealing performance bugs. Experiments using ETHOM on a number of analyses and tools have successfully identified models producing much longer executions times and higher memory consumption than those obtained with random models of identical or even larger size.European Commission (FEDER), the Spanish Government and the Andalusian Government

Algunas constantes de la poesía centroamericana contemporánea escrita por mujeres: de objeto a sujeto literario

La crítica literaria viene señalando grandes novedades en la poesía centroamericana de las últimas décadas escrita por mujeres. Se trata de una poesía caracterizada por una gran presencia del erotismo y de la reivindicación sociopolítica, temas frecuentemente unidos bajo una voz confesional marcadamente femenina y comprometida. No basta con registrar estas novedades temáticas en la historia de la literatura, sino que ha de presentarse desde la conformación de una retórica, entendida . como un sistema de procedimientos formales y estilísticos propios. Señalar algunos de estos rasgos característicos es el objetivo de nuestro estudio. Como conclusión, destacamos que las novedades temáticas tienen también su expresión desde la retórica en la que se desarrolla este discurso poético de género.Literary criticism is pointing out great novelties in the Central American poetry written by women in recent decades. It is a kind of poetry characterized by the constant presence of eroticism and sociopolitical gender demands, issues frequently united under a markedly female confessional voice. It is not enough to record these thematic novelties in the History of Literature. If a new literary trend is taking place, this must be reflected on different rhetorical devices, understood as a series of formal and stylistic procedures. Reporting any of these characteristics is the aim of our study. In conclusion, the thematic developments must also be reflected on the rhetoric devices used by this poetic gender discourse

AmelHap: Leveraging drone whole-genome sequence data to create a honey bee HapMap

Honey bee, Apis mellifera, drones are typically haploid, developing from an unfertilized egg, inheriting only their queen’s alleles and none from the many drones she mated with. Thus the ordered combination or ‘phase’ of alleles is known, making drones a valuable haplotype resource. We collated whole-genome sequence data for 1,407 drones, including 45 newly sequenced Scottish drones, collectively representing 19 countries, 8 subspecies and various hybrids. Following alignment to Amel_HAv3.1, variant calling and quality filtering, we retained 17.4 M high quality variants across 1,328 samples with a genotyping rate of 98.7%. We demonstrate the utility of this haplotype resource, AmelHap, for genotype imputation, returning >95% concordance when up to 61% of data is missing in haploids and up to 12% of data is missing in diploids. AmelHap will serve as a useful resource for the community for imputation from low-depth sequencing or SNP chip data, accurate phasing of diploids for association studies, and as a comprehensive reference panel for population genetic and evolutionary analyses.For the purpose of open access, the author has applied a Creative Commons Attribution (CC BY) licence to any Author Accepted Manuscript version arising from this submission. This work was supported by a grant from the CB Dennis British Beekeepers’ Research Trust awarded to MB and DW, and through strategic investment funding to the Roslin Institute from the Biotechnology and Biological Sciences Research Council (BBS/E/D/30002276). MP was supported by a Basque Government grant (IT1233-19)

Determination of annual periodicity in annuli formation in Atlantic bluefin tuna otoliths.

Controversies remain regarding the periodicity, or seasonality, of otolith growth band formation which directly influences a correct age determination of Atlantic bluefin tuna using otoliths. Thereby, the aim of this work was to apply marginal increment analysis (MIA) and marginal edge analysis (EA) to determine the timing of band deposition. The index of completion (MIA) was also analyzed using General Additive Models. Results indicated that the opaque band begin to form in July and would finish forming in November. From the end of the year and the beginning of the following year there is minimal marginal edge growth and this is when the translucent band begins to form and reaches its maximum development in June. MIA and EA has evidenced that the annulus has been formed in November in the Atlantic Bluefin tuna otolith. This would mean to delay the date of the current July 1st adjustment criterion to November 30

Evaluation of a Multiplex ELISA for Autoantibody Profiling in Patients with Autoimmune Connective Tissue Diseases

The performance of immunoassays for the detection of autoantibodies is of critical importance in the diagnosis and assessment of patients with autoimmune connective tissue diseases (ACTD). Our objective was to compare the features of two multiplexed assays—INNO-LIA ANA and Gennova-PictArray ENA ELISA—for measurement of multiple autoantibodies and their utility as a clinical tool in ACTD diagnosis. The antigens included SS-A/Ro (60 and 52), SSB/La, Sm, Sm/RNP, CENP-B, Jo-1, and Scl-70. Stored sera from 85 ACTD patients and 80 controls consisting of patients with vasculitis, rheumatoid arthritis and infectious diseases, as well as healthy subjects were analyzed jointly with clinical and laboratory data. Agreement between the two methods varied between 58 and 99% (Cohen’s kappa: 0.21–0.71) mostly for SSA and SSB. The frequency of specific autoantibodies measured using the two methods was more variable for SSA, SSB, and RNP/Sm. There were a higher number of ambiguous results when using INNO-LIA. The optimized cut-off values of the Gennova-PictArray resulted in over 99% specificities in samples obtained from the control group. Sensitivity patterns were more accurate in Gennova-PictArray than in INNO-LIA, as suggested in previously reported studies. A third method could be applied to determine which of the two methods is more accurate

Armed Rollers: Does Nestling’s Vomit Function as a Defence against Predators?

Chemical defences against predators are widespread in the animal kingdom although have been seldom reported in birds. Here, we investigate the possibility that the orange liquid that nestlings of an insectivorous bird, the Eurasian roller (Coracias garrulus), expel when scared at their nests acts as a chemical defence against predators. We studied the diet of nestling rollers and vomit origin, its chemical composition and deterrent effect on a mammal generalist predator. We also hypothesized that nestling rollers, as their main prey (i.e. grasshoppers) do from plants, could sequester chemicals from their prey for their use. Grasshoppers, that also regurgitate when facing to a threat, store the harmful substances used by plants to defend themselves against herbivores. We found that nestling rollers only vomit after being grasped and moved. The production of vomit depended on food consumption and the vomit contained two deterrent chemicals (hydroxycinnamic and hydroxybenzoic acids) stored by grasshoppers and used by plants to diminish herbivory, suggesting that they originate from the rollers’ prey. Finally, we showed for the first time that the oral secretion of a vertebrate had a deterrent effect on a model predator because vomit of nestling rollers made meat distasteful to dogs. These results support the idea that the vomit of nestling rollers is a chemical defence against predators.Financial support was provided by the Junta de Andalucía (project P06-RNM-02177) and the Spanish Ministry of Science and Education/FEDER (projects CGL2008-00718 and CGL2011-27561)

Evaluation of Suppressed Mite Reproduction (SMR) Reveals Potential for Varroa Resistance in European Honey Bees (Apis melliferaL.)

Simple Summary The miteVarroa destructorrepresents a great threat to honey bees and the beekeeping industry. The opportunity to select and breed honey bees that are naturally able to fight the mite stands a sustainable solution. This can be achieved by evaluation of the failure of mite reproduction (SMR, suppressed mite reproduction). We conducted a large European experiment to assess the SMR trait in different populations of honey bees spread over 13 different countries, and representing different honey bee populations. The first goal was to standardize and validate the SMR evaluation method, and then to compare the SMR trait between the different populations. Our results indicate that it is necessary to examine at least 35 brood cells infested by a single mite to reliably estimate the SMR score of any given colony. Several colonies from our dataset display high SMR scores, indicating that this trait is present within the European honey bee populations. No major differences could be identified between countries for a given population, or between populations in different countries. This study shows the potential to increase selection efforts to breedV. destructorhoney bee resistant populations. In the fight against theVarroa destructormite, selective breeding of honey bee (Apis melliferaL.) populations that are resistant to the parasitic mite stands as a sustainable solution. Selection initiatives indicate that using the suppressed mite reproduction (SMR) trait as a selection criterion is a suitable tool to breed such resistant bee populations. We conducted a large European experiment to evaluate the SMR trait in different populations of honey bees spread over 13 different countries, and representing different honey bee genotypes with their local mite parasites. The first goal was to standardize and validate the SMR evaluation method, and then to compare the SMR trait between the different populations. Simulation results indicate that it is necessary to examine at least 35 single-infested cells to reliably estimate the SMR score of any given colony. Several colonies from our dataset display high SMR scores indicating that this trait is present within the European honey bee populations. The trait is highly variable between colonies and some countries, but no major differences could be identified between countries for a given genotype, or between genotypes in different countries. This study shows the potential to increase selective breeding efforts ofV. destructorresistant populations

An experimental test of host’s life history traits modulation in response to cuckoo parasitism risk

Hosts can counteract parasites through defences based on resistance and/or tolerance. The mechanistic basis of tolerance, which involve defensive mechanisms minimizing parasite damage after a successful parasitic attack, remains poorly explored in the study of cuckoo-host interactions. Here, we experimentally explore the possibility that the risk of great spotted cuckoo Clamator glandarius parasitism may induce tolerance defences in magpie Pica pica hosts through plasticity in life-history traits. We predict that magpies exposed to auditory cues indicating high parasitism risk will more likely exhibit resistance and/or modify their life-history traits to minimize parasitism costs (i.e. tolerance) compared to magpies under low parasitism risk. We found that manipulating the perceived parasitism risk did not affect host resistance (i.e. rejection of parasitic eggs) nor host life-history traits. Unexpectedly, host's egg volume increased over the season in nests exposed to auditory cues of control non-harmful hoopoes Upupa epops. Our results do not provide support for inducible defences (either based on resistance or tolerance) in response to risk of parasitism in magpie hosts. Even so, we encourage studying plastic expression of breeding strategies in response to risk of cuckoo parasitism to achieve a better understanding of the mechanistic basis of tolerance defences.This work was supported by the Spanish Ministry of Education and Science/FEDER (Projects CGL2011-27561/BOS and CGL2014-56769-P to D. P. and J.M.A.). D.P. was supported by the Government of Extremadura while writing (contract number TA13002). M.E.G. was supported by the Spanish Ministry of Economy and Competitiveness (grant number BES-2012-051898).

Stereoscopic disambiguation of vector magnetograms: first applications to SO/PHI-HRT data

Spectropolarimetric reconstructions of the photospheric vector magnetic field are intrinsically limited by the 180$^\circ$-ambiguity in the orientation of the transverse component. So far, the removal of such an ambiguity has required assumptions about the properties of the photospheric field, which makes disambiguation methods model-dependent. The basic idea is that the unambiguous line-of-sight component of the field measured from one vantage point will generally have a non-zero projection on the ambiguous transverse component measured by the second telescope, thereby determining the ``true'' orientation of the transverse field. Such an idea was developed and implemented in the Stereoscopic Disambiguation Method (SDM), which was recently tested using numerical simulations. In this work we present a first application of the SDM to data obtained by the High Resolution Telescope (HRT) onboard Solar Orbiter during the March 2022 campaign, when the angle with Earth was 27 degrees. The method is successfully applied to remove the ambiguity in the transverse component of the vector magnetogram solely using observations (from HRT and from the Helioseismic and Magnetic Imager), for the first time. The SDM is proven to provide observation-only disambiguated vector magnetograms that are spatially homogeneous and consistent. A discussion about the sources of error that may limit the accuracy of the method, and of the strategies to remove them in future applications, is also presented.Comment: 32 pages, 12 figures, accepted in A&A on 09/07/202

Formation and Photoinduced Electron Transfer in Porphyrin- and Phthalocyanine-Bearing N-Doped Graphene Hybrids Synthesized by Click Chemistry

Graphene doped with heteroatoms such as nitrogen, boron, and phosphorous by replacing some of the skeletal carbon atoms is emerging as an important class of two-dimensional materials as it offers the much-needed bandgap for optoelectronic applications and provides better access for chemical functionalization at the heteroatom sites. Covalent grafting of photosensitizers onto such doped graphenes makes them extremely useful for light-induced applications. Herein, we report the covalent functionalization of N-doped graphene (NG) with two well-known electron donor photosensitizers, namely, zinc porphyrin (ZnP) and zinc phthalocyanine (ZnPc), using the simple click chemistry approach. Covalent attachment of ZnP and ZnPc at the N-sites of NG in NG−ZnP and NG−ZnPc hybrids was confirmed by using a range of spectroscopic, thermogravimetric and imaging techniques. Ground- and excited-state interactions in NG−ZnP and NG−ZnPc were monitored by using spectral and electrochemical techniques. Efficient quenching of photosensitizer fluorescence in these hybrids was observed, and the relatively easier oxidations of ZnP and ZnPc supported excited-state charge-separation events. Photoinduced charge separation in NG−ZnP and NG−ZnPc hybrids was confirmed by using the ultrafast pump-probe technique. The measured rate constants were of the order of 1010 s,−1 thus indicating ultrafast electron transfer phenomena