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A dual selection system for directed evolution to identify allosteric transcription factor PobR variants responsive to different aromatic compounds

This dataset includes all the raw data of our characterization experiments during the work titled “A dual selection system for directed evolution to identify allosteric transcription factor PobR variants responsive to different aromatic compounds”.

openother-openOct 2022View details →

Questionnaire Response About Weight Of Criteria For Selecting Online Course Using Weighted Product Method

This dataset is a response to a questionnaire that we already delivered to some Institut Teknologi Sepuluh Nopember Surabaya students. In this questionnaire, they chose which criteria are important for selecting an online course, and by that data, we can get the weights of each criteria and we use that data to do our Weighted Product selection.

Innovation Systems & Policy Insight 3_2022 "Responsible Research & Innovation approach for transitioning the traditional industry regions into digitalized industry territories"

In this ISP Insight Video, coordinator Marianne Hörlesberger tells you more about the EU Project DigiTeRRI which deals with a Responsible Research & Innovation Approach for transitioning the traditional industry regions into digitalised industry territories. The EU project DigiTeRRI empowers 3 traditional industry regions to harness the opportunities presented by digitalisation. The project has co-created a framework and roadmaps for a responsible transition to self-sustaining, digitalised industrial innovation ecosystems. It has worked out the challenges in the interplay between business, academia, government and society to initiate openness, democratic accountability and responsiveness in a process that will in turn promote resilience within these new, digitalised innovation ecosystems. Important attributes for this transition are also gender equality, science education, open access, public engagement, and ethics, which support both organisations and citizens in adapting the transformation that is revolutionising research, industry, economy, & society. Finally, 12 actions, based on the roadmap goals and objectives in each territory have been developed and implemented. This project has received funding from the European Union’s Horizon 2020 research and innovation programme under grant agreement nº 873010.

opencc-by-4.0Jan 2022View details →

Figure 2 in Functional and numerical responses of the predatory mite Amblyseius aerialis (Acari: Phytoseiidae) toAceria guerreronis (Acari: Eriophyidae)

Figure 2 Mean number of eggs laid byAmblyeius aerialis females provided with different densities

opencc-by-4.0Jan 2022View details →

Figure 3 in Functional and numerical responses of the predatory mite Amblyseius aerialis (Acari: Phytoseiidae) toAceria guerreronis (Acari: Eriophyidae)

Figure 3 Average oviposition rates (eggs/female ± SE) byAmbyseius aerialis females given different

opencc-by-4.0Aug 2022View details →

Distinct mechanisms of mismatch repair deficiency delineate two modes of response to PD-1 immunotherapy in endometrial carcinoma

Responses to immune checkpoint blockade (ICB) are variable even among mismatch repair deficient (MMRd) cancers. We completed a phase 2 clinical trial of the PD-1 inhibitor pembrolizumab in 24 patients with MMRd endometrial cancer (NCT02899793). Patients with mutational MMRd tumors (6 patients) had higher response rates and longer survival than those with epigenetic MMRd tumors (18 patients). Mutation burden was higher in tumors with mutational MMRd compared to epigenetic MMRd; however, within each category of MMRd, mutation burden was not associated with ICB response. Notably, JAK1 mutations did not confer resistance to pembrolizumab. Longitudinal single-cell RNA-seq of circulating immune cells revealed contrasting modes of anti-tumor immunity against mutational and epigenetic MMRd tumors. Whereas effector CD8+ T cell responses correlated with mutational MMRd, highly active CD16+ NK cells were associated with epigenetic MMRd tumors responsive to ICB. These data highlight factors beyond neoantigen burden that influence ICB response.

Time-history datasets of input accelerations and experimental structural responses

This repository contains the data of input accelerations and measured structural responses for ten different cyclic tests supported by JSPS KAKENHI (No. JP19H02286) and conducted by Makoto Ohsaki and others.

opencc-by-nc-4.0Sep 2021View details →

Figure 3 in Macroinvertebrates responses based on chemical and physical variables in urban streams

Figure 3. Canonical correspondence analysis (CCA) between the benthic macroinvertebrates groups and the water variables from the sampled streams.

opencc-by-nc-4.0Mar 2022View details →

Figure 1 in Acoustic analysis of vocalization and the behavioral response associated to sound production of the nine banded armadillo Dasypus novemcinctus (Mammalia, Cingulata, Dasypodidae)

Figure 1. Oscillogram (top) and spectrogram (bottom) of the agonistic vocalizations of Dasypus novemcinctus, HCLP-S 1028, recorded from individual M1. (A) A single vocalization composed of the pattern A-I, A-I, B-I, B-II; (B) A single vocalization composed of the pattern A-I, A-II, B-I, A-II, B-I, B-II.

opencc-by-nc-4.0Mar 2022View details →

Figure 2. M1 in Acoustic analysis of vocalization and the behavioral response associated to sound production of the nine banded armadillo Dasypus novemcinctus (Mammalia, Cingulata, Dasypodidae)

Figure 2. M1 (marked with white tape at the middle of its moveable bands) Behavior (A) when cornered after being submitted to the presence of other male subject, (B) at a second moment, when the other animal approaches from its back, and then (C) M1 bends its body left to prevent the contact, with the other male scratching the basis of its tail. In (D) the other male bipedally projects its belly against M1's back, and the latter finally changes its position.

opencc-by-nc-4.0Sep 2021View details →

Figure 1 in Macroinvertebrates responses based on chemical and physical variables in urban streams

Figure 1. Map showing the sampled streams. Letters represent the following streams: E = Espraiado, B = Belvedere, C = Canchim, P = Ponte de Tábua, S = São Rafael and D = Douradinho.

Effects of warming temperatures on germination responses and trade-offs between seed traits in an alpine plant

1. Climate warming may affect multiple aspects of plant life history, including important factors such as germination responses and the key trade-off between offspring size and number. As a case study to address these concepts, we used an alpine plant (waxy bluebell, Wahlenbergia ceracea; Campanulaceae) that shows plasticity to warming in seed traits and in which seed dormancy status regulates germination. We chose an alpine species because alpine environments are ecosystems particularly under threat by climate change. 2. We conducted germination assays under cool and warm temperatures using seeds produced by individuals that were grown under historical (cooler) and future (warmer) temperature scenarios. We assessed the presence of a seed size vs number trade-off, and then examined the effects of seed number and size on germination percentage, the fractions of dormant and viable seeds, and germination velocity. Further, we examined whether warming during parental growth and during germination affected these relationships. 3. We found evidence for a seed size vs number trade-off only under historical parental temperatures. Indeed, under future growth temperatures, parental plants produced fewer and smaller seeds and there was no evidence of a trade-off. However, the reductions in both seed traits under warming did not affect germination, despite correlations of seed size and number with germination traits. Warming increased germination, particularly of larger seeds, but overall it resulted in more than fourfold reductions in parental fitness. 4. Synthesis. Our study shows the importance of growth conditions when evaluating the seed size vs number trade-off. Stressful conditions, such as warmer temperatures, can restrain the ability of plants to reach optimal investment in reproduction, masking the trade-off. By analysing responses across the whole life cycle, we show here an overall detrimental effect of warming, highlighting the potential risk of climate change for W. ceracea, and, potentially, for alpine plant communities more widely.

opencc-zeroDec 2021View details →

Seasonality modulates habitat cover effects on avian cross-boundary responses and spillover

Species cross-boundary response is a key mechanism affecting species spillover into agricultural fields. However, temporal changes in edge permeability, which may depend on the seasonal availability of resources in both matrix and native habitats, remain poorly understood. Here we tested how edge crossing behavior and the associated spillover of birds into sun coffee plantations respond to landscape structure and seasonality. We monitored the movement of six insectivorous understory bird species (four forest-specialists and two forest-generalists) using an automated telemetry system along a gradient of forest cover (7-60%) during two seasons (dry vs. wet) at nine sampling sites at the Brazilian Atlantic forest. We monitored 116 individuals and obtained a total of 15,129 bird detections across seasons. Bird resistance to crossing edges was strongly driven by an interaction between seasonality and forest cover in the surrounding landscape, with higher resistance to crossing edges along the dry season and in landscapes with lower amount of forest cover. Furthermore, spillover patterns in plantations were driven by an interaction between forest cover and distance from forest edges, but this was most pronounced for forest-specialist bird species. Forest-specialists moved more intensively and farther from edges in more forested landscapes, whereas forest-generalists showed similar patterns of occupation regardless of forest cover and isolation. Our study contributes to a better understanding of avian cross-boundary responses and spillover in response to landscape structure across seasons and the factors driving bird movement decisions in anthropogenic landscapes. There are a myriad of possible mechanisms governing movement decisions, and these mechanisms may interact in complex ways and remain important foci for research within fields of tropical ecology and evolution in the tropics.

Data from: Transcriptomic responses to the consumption of nuptial food gifts by female decorated crickets

Nuptial food gifts offered by males to females at mating are shaped by sexual conflict, allowing males direct access to female physiology. However, a molecular dissection of their effect on females is rare. In decorated crickets, the male's nuptial gift comprises part of the male's spermatophore, the spermatophylax, which functions to deter the female from prematurely removing the sperm-containing portion, the ampulla, from her genital opening. However, ingested spermatophylax compounds and proteins contained in the ampulla could also influence female physiology and behavior to the male's benefit. We investigated how mating per se and these two distinct routes of potential male-mediated manipulation influence the transcriptional response of females. We conducted an RNA-sequencing experiment on the gut and head tissue from females for whom consumption of nuptial food gifts and receipt of an ejaculate had been independently manipulated. In the gut tissue, we found that females not permitted to feed during mating exhibit a decreased expression of many genes, which seems to be caused by reduced gut function, but this was countered by female feeding on the spermatophylax or a sham gift. In the head tissue, we found only low numbers of differentially expressed genes, but a gene co-expression network analysis revealed that both the attachment of the ampulla and the consumption of the spermatophylax independently induce their own distinct patterns of gene expression. This study provides evidence that spermatophylax feeding alters the female post-mating transcriptomic response in decorated crickets, highlighting its potential to mediate sexual conflict in this system.

Smoke responsiveness of peatland bryophyte spores

Northern peatlands are globally important carbon stores, but with increasing fire frequency, the re-establishment of bryophytes (notably Sphagnum) becomes crucial for their carbon sequestration. Smoke-responsive germination is a common trait in seeds in fire-prone ecosystems but has not been demonstrated in bryophyte spores. To investigate the potential role of smoke in post-fire peatland recovery, we tested the germination of spores of fifteen bryophyte species after treatment with smoke-water. Comparison of smoke responsiveness between spores of different laboratory storage times and burial depths/age (3-200 yrs old) were subsequently tested. Smoke increased germination percentage for 10 of the 15 study species, and increased germination speed for four of these. Smoke responsiveness increased along the fire frequency gradient from open expanse to forest margin, consistent with the theory that this selects for the maintenance of fire-adapted traits. Smoke enhanced germinability of 1-yr but not 4-yr laboratory-stored spores. Smoke, however, considerably increased germinability of spores naturally buried in peat for decades and up to c. 200 yrs. The effect of fire may be overlooked in non-fire-prone ecosystems, e.g. those in which wetland bryophytes dominate. Hence, an expected increase in fire frequency may lead to shifts in species dominance, for which our study provides one mechanism, which may affect long-term carbon sequestration in peatlands.

Sexual selection moderates heat stress response in males and females

1. A widespread effect of climate change is the displacement of organisms from their thermal optima. The associated thermal stress imposed by climate change has been argued to have a particularly strong impact on male reproduction but evidence for this postulated sex-specific stress response is equivocal. 2. One important factor that may explain intra- and interspecific variation in stress responses is sexual selection, which is predicted to magnify negative effects of stress. Nevertheless, empirical studies exploring the interplay of sexual selection and heat stress are still scarce. 3. We tested experimentally for an interaction between sexual selection and thermal stress in the red flour beetle Tribolium castaneum by contrasting heat responses in male and female reproductive success between setups of enforced monogamy versus polygamy. 4. We found that polygamy magnifies detrimental effects of heat stress in males but relaxes the observed negative effects in females. Our results suggest that sexual selection can reverse sex differences in thermal sensitivity, and may therefore alter sex-specific selection on alleles associated with heat tolerance. 5. Assuming that sexual selection and natural selection are aligned to favour the same genetic variants under environmental stress, our findings support the idea that sexual selection on males may promote the adaptation to current global warming.

Data from: The viewer doesn't always seem to care - response to fake animal rescues on YouTube and implications for social media self-policing policies

Animal-related content on social media is hugely popular but is not always appropriate in terms of how animals are portrayed or how they are treated. This has potential implications beyond the individual animals involved, for viewers, for wild animal populations, and for societies and their interactions with animals. Whilst social media platforms usually publish guidelines for permitted content, enforcement relies at least in part on viewers reporting inappropriate posts. Currently, there is no external regulation of social media platforms. Based on a set of 241 "fake animal rescue" videos that exhibited clear signs of animal cruelty and strong evidence of being deliberately staged (i.e. fake), we found little evidence that viewers disliked the videos and an overall mixed response in terms of awareness of the fake nature of the videos, and their attitudes towards the welfare of the animals involved. Our findings suggest, firstly, that despite the narrowly defined nature of the videos used in this case study, exposure rates can be extremely high (one of the videos had been viewed over 100 million times), and, secondly, that many YouTube viewers cannot identify (or are not concerned by) animal welfare or conservation issues within a social media context. In terms of the current policy approach of social media platforms, our findings raise questions regarding the value of their current reliance on consumers as watch dogs.

opencc-by-4.0Jun 2022View details →

Viral mimicry response is associated with clinical outcome in pleural mesothelioma

Raw data supporting the manuscript

Dataset for: Stronger Response to the Aerosol Indirect Effect due to Cooling in Remote Regions

Data and Python scripts for generating the figures in Huusko, L., Modak, A., & Mauritsen, T. (2022): Stronger Response to the Aerosol Indirect Effect due to Cooling in Remote Regions. Geophysical Research Letters, 49, e2022GL101184. <a href="https://doi.org/10.1029/2022GL101184">https://doi.org/10.1029/2022GL101184</a>

First steps in the development of a support application for Easy-to-Read adaptation: Questionnaire Responses

This csv document contains the responses obtained in our user study performed in the context of the paper entitled "First steps in the development of a support application for Easy-to-Read adaptation".