101 Works

Additional file 3 of Using skin temperature and activity profiles to assign chronotype in birds

Aurelia F. T. Strauß, Dominic J. McCafferty, Andreas Nord, Marina Lehmann & Barbara Helm
Additional file 3: R documentation of changepoint functions.

sj-docx-2-acr-10.1177_02841851221130612 - Supplemental material for Virtual monoenergetic images by spectral detector computed tomography may improve image quality and diagnostic ability for ischemic lesions in acute ischemic stroke

Helena Mellander, Pär Bengtsson, Veronica Fransson, Birgitta Ramgren, Per Undrén, Mattias Drake, Kristina Ydström, Jimmy Lätt, Amir Hilal, Johan Wassélius & Teresa Ullberg
Supplemental material, sj-xls-2-acr-10.1177_02841851221130612 for Virtual monoenergetic images by spectral detector computed tomography may improve image quality and diagnostic ability for ischemic lesions in acute ischemic stroke by Helena Mellander, Pär Bengtsson, Veronica Fransson, Birgitta Ramgren, Per Undrén, Mattias Drake, Kristina Ydström, Jimmy Lätt, Amir Hilal, Johan Wassélius and Teresa Ullberg in Acta Radiologica

Phenotypic plasticity is aligned with phenological adaptation on micro- and macroevolutionary timescales

Stephen De Lisle, Maarit Mäenpää & Erik Svensson
In seasonally-variable environments, phenotypic plasticity in phenology may be critical for adaptation to fluctuating environmental conditions. Using an 18-generation longitudinal dataset from natural damselfly populations, we show that phenology has strongly advanced. Individual fitness data suggest this is likely an adaptive response towards a temperature-dependent optimum. A laboratory experiment revealed that developmental plasticity qualitatively matches the temperature-dependence of selection, partially explaining observed advance in phenology. Expanding our analysis to the macroevolutionary level, we use a...

A single locus regulates a female-limited color pattern polymorphism in a reptile

Nathalie Feiner
Animal coloration is often expressed in periodic patterns that can arise from differential cell migration, yet how these processes are regulated remains elusive. We show that a female-limited polymorphism in dorsal patterning (diamond/chevron) in the brown anole is controlled by a single Mendelian locus. This locus contains the gene CCDC170 that is adjacent to, and co-expressed with, the Estrogen receptor-1 gene, explaining why the polymorphism is female-limited. CCDC170 is an organizer of the Golgi-microtubule network...

Predictors of genomic differentiation within a hybrid taxon

Angelica Cuevas, Fabrice Eroukhmanoff, Mark Ravinet, Glenn-Peter Sætre & Anna Runemark
Hybridization is increasingly recognized as an important evolutionary force. Novel genetic methods now enable us to address how the genomes of parental species are combined in hybrid lineages. However, we still do not know the relative importance of admixed proportions, genome architecture and local selection in shaping hybrid genomes. Here, we take advantage of the genetically divergent island populations of Italian sparrow on Crete, Corsica and Sicily to investigate the predictors of genomic variation within...

Dataset and reference: Marine gastropods at higher trophic level show stronger tolerance to ocean acidification

Nan Hu
Climate change and anthropogenic activities are producing a range of new selection pressures, both abiotic and biotic, on marine organisms. Although it is known that climate change can differentially affect fitness-related traits at different trophic levels of the food web, it is not clear if different trophic levels will respond via phenotypic plasticity in the form of maintenance of phenotypes in the face of abiotic and biotic environmental stress similarly. To answer this question, we...

Morphological measurements of two host specialists of the dipteran Tephritis conura, both in sympatry and allopatry

Kalle Nilsson, Jesús Ortega, Magne Friberg & Anna Runemark
Adaptation to new ecological niches is known to spur population diversification and may lead to speciation if gene flow is ceased. While adaptation to the same ecological niche is expected to be parallel, it is more difficult to predict whether selection against maladaptive hybridization in secondary sympatry results in parallel divergence also in traits that are not directly related to the ecological niches. Such parallelisms in response to selection for reproductive isolation can be identified...

Arrival dates of male and female willow warblers (Phylloscopus trochilus) to their breeding site in Sweden 1979-2016

Johanna Hedlund, Thord Fransson, Cecilia Kullberg, Jan-Olov Persson & Sven Jakobsson
Protandry is a widespread life-history phenomenon describing how males precede females at the site or state of reproduction. In migratory birds, protandry has important influence on individual fitness, the migratory syndrome and phenological response to climate change. Despite its significance, accurate analyses on the dynamics of protandry using data sets collected at the breeding site, are lacking. Basing our study on records collected daily, spanning a period of 38 years, we aim to investigate protandry...

Ancestral environment determines the current reaction to ultraviolet radiation in Daphnia magna

Yongcui Sha & Lars-Anders Hansson
An individual’s phenotype can be altered by direct contact with its present environment but also by environmental features experienced by previous generations, i.e. parental or grandparental effects. However, the strength and direction of these transgenerational effects may be highly variable according to the ecological conditions experienced by ancestral generations. Here we performed a reciprocal split-brood experiment to compare transgenerational responses to the threat of ultraviolet radiation (UVR) in the zooplankter Daphnia magna, which had, or...

Selection results of two native parasitoids on the invasive spotted wing drosophila

Marianna Szucs, Shelley Linder, Benjamin Jarrett, Rufus Isaacs & Philip Fanning
Co-evolved natural enemies provide sustainable and long-term control of numerous invasive insect pests, but the introduction of such enemies has declined sharply due to increasing regulations. In the absence of co-evolved natural enemies, native species may attack exotic invasive pests; however, they usually lack adaptations to control novel hosts effectively. We investigated the potential of two native pupal parasitoids, Pachycrepoideus vindemmiae, and Trichopria drosophilae, to increase their developmental success on the invasive Drosophila suzukii. Replicated...

From Black Box to Shining Spotlight: Using Random Forest Prediction Intervals to Illuminate the Impact of Assumptions in Linear Regression

Andrew J. Sage, Yang Liu & Joe Sato
We introduce a pair of Shiny web applications that allow users to visualize random forest prediction intervals alongside those produced by linear regression models. The apps are designed to help undergraduate students deepen their understanding of the role that assumptions play in statistical modeling by comparing and contrasting intervals produced by regression models with those produced by more flexible algorithmic techniques. We describe the mechanics of each approach, illustrate the features of the apps, provide...

Data for: Sex matters: Predator presence induces sexual dimorphism in a monomorphic prey, from stress genes to morphological defenses

Jerker Vinterstare, Kaj Hulthén, P. Anders. Nilsson, R. Brian Langerhans, Pallavi Chauhan, Bengt Hansson & Christer Brönmark
Inducible defences allow prey to increase survival chances when predators are present while avoiding unnecessary costs in their absence. Many studies report considerable inter-individual variation in inducible-defence expression, yet what underlies this variation is poorly understood. A classic vertebrate example of a predator‐induced morphological defence is the increased body depth in crucian carp (Carassius carassius), which reduces the risk of predation from gape‐size limited predators. Here, we report that among-individual variation in morphological defence expression...

IMPROVING EXPLOSIVE BODY CAPACITY IN FEMALE SHORT TRACK SPEED SKATERS

Jianjun Li, Xinchao Ge & Yang Liu
ABSTRACT Introduction The peculiar characteristics of short track speed skating should be integrated into the psychology of competitions; it is considered that elite athletes engaged in this particular sport should have a healthy psychic condition. Objective Investigate the explosive power of female speed skaters in short track speed skating. Methods 10 key athletes from the national short track speed skating team were selected, and explosive power was tested by T-test, hexagonal test, and pro sensitivity...

Data for: Hybrids between Rubus caesius and Rubus sect. Corylifolii (Rosaceae) and their relation to R. cyclomorphus, R. tiliaster, R. glauciformis, R. slesvicensis and R. firmus

Ulf Ryde, Marcus Lewin, Mingyue Zhou, Melanie Montes, Tore Mattsson, Tomas Burén & Mikael Hedrén
Using flow cytometry and microsatellite DNA analysis (MSDA), we studied hybrids between Rubus caesius and various other Rubus species, with an emphasis on Sweden. We show that hybrids between Rubus caesius and Rubus sect. Corylifolii arise easily. They show a large variation in morphology, but can normally be recognised by a number of characters. They are typically hexaploids, but ~13% of the hybrids are pentaploids and ~8% tetraploids. With MSDA, they are harder to identify...

Additional file 24 of Proteogenomic insights into the biology and treatment of pancreatic ductal adenocarcinoma

Yexin Tong, Mingjun Sun, Lingli Chen, Yunzhi Wang, Yan Li, Lingling Li, Xuan Zhang, Yumeng Cai, Jingbo Qie, Yanrui Pang, Ziyan Xu, Jiangyan Zhao, Xiaolei Zhang, Yang Liu, Sha Tian, Zhaoyu Qin, Jinwen Feng, Fan Zhang, Jiajun Zhu, Yifan Xu, Wenhui Lou, Yuan Ji, Jianyuan Zhao, Fuchu He, Yingyong Hou … & Chen Ding
Additional file 24: Table S2. The Impacts of Somatic Copy Number Alterations in PDAC Cohort. Table S2A Matrix of amplification peaks, followed by the genes contained in them, 95% confidence level. Table S2B Matrix of deletion peaks, followed by the genes contained in them, 95% confidence level. Table S2C Matrix of the top 10 mutated genes in PDAC of Fudan cohort. Table S2D Matrix of the 10 mutated genes used in Figure 1C of ICGC,...

Additional file 27 of Proteogenomic insights into the biology and treatment of pancreatic ductal adenocarcinoma

Yexin Tong, Mingjun Sun, Lingli Chen, Yunzhi Wang, Yan Li, Lingling Li, Xuan Zhang, Yumeng Cai, Jingbo Qie, Yanrui Pang, Ziyan Xu, Jiangyan Zhao, Xiaolei Zhang, Yang Liu, Sha Tian, Zhaoyu Qin, Jinwen Feng, Fan Zhang, Jiajun Zhu, Yifan Xu, Wenhui Lou, Yuan Ji, Jianyuan Zhao, Fuchu He, Yingyong Hou … & Chen Ding
Additional file 27: Table S5. 8p11.22 Amplification Associated with PDAC Metastasis. Table S5A The matrix describing mutations in PDAC metastatic patients and non-metastatic patients. Table S5B Matrix of GSVA scores of pathways significantly altered in PDAC metastatic patients and non-metastatic patients, proteome level. Table S5C Matrix of xCell signatures significantly altered in PDAC metastatic patients and non-metastatic patients, transcriptome level. Table S5D Matrix describing the cis-effects of genes located on chromosome 8p11.22. Table S5E Matrix...

Additional file 27 of Proteogenomic insights into the biology and treatment of pancreatic ductal adenocarcinoma

Yexin Tong, Mingjun Sun, Lingli Chen, Yunzhi Wang, Yan Li, Lingling Li, Xuan Zhang, Yumeng Cai, Jingbo Qie, Yanrui Pang, Ziyan Xu, Jiangyan Zhao, Xiaolei Zhang, Yang Liu, Sha Tian, Zhaoyu Qin, Jinwen Feng, Fan Zhang, Jiajun Zhu, Yifan Xu, Wenhui Lou, Yuan Ji, Jianyuan Zhao, Fuchu He, Yingyong Hou … & Chen Ding
Additional file 27: Table S5. 8p11.22 Amplification Associated with PDAC Metastasis. Table S5A The matrix describing mutations in PDAC metastatic patients and non-metastatic patients. Table S5B Matrix of GSVA scores of pathways significantly altered in PDAC metastatic patients and non-metastatic patients, proteome level. Table S5C Matrix of xCell signatures significantly altered in PDAC metastatic patients and non-metastatic patients, transcriptome level. Table S5D Matrix describing the cis-effects of genes located on chromosome 8p11.22. Table S5E Matrix...

Additional file 29 of Proteogenomic insights into the biology and treatment of pancreatic ductal adenocarcinoma

Yexin Tong, Mingjun Sun, Lingli Chen, Yunzhi Wang, Yan Li, Lingling Li, Xuan Zhang, Yumeng Cai, Jingbo Qie, Yanrui Pang, Ziyan Xu, Jiangyan Zhao, Xiaolei Zhang, Yang Liu, Sha Tian, Zhaoyu Qin, Jinwen Feng, Fan Zhang, Jiajun Zhu, Yifan Xu, Wenhui Lou, Yuan Ji, Jianyuan Zhao, Fuchu He, Yingyong Hou … & Chen Ding
Additional file 29: Table S7. Characterization of Immune Infiltration in PDAC. Table S7A Matrix of xCell signatures significantly altered in 5 immune subgroups. Table S7B Matrix describing the expression of proteins in 5 immune subgroups. Table S7C Matrix of GSVA scores of pathways significantly altered in 5 immune subgroups, transcriptome level. Table S7D Matrix of amplification/deletion events of genes in 5 immune subgroups. Table S7E Matrix describing the expression of proteins involved in TCA cycle.

Exploring links between climatic predictability and the evolution of within- and transgenerational plasticity

Sridhar Halali & Marjo Saastamoinen
In variable environments, phenotypic plasticity can increase fitness by providing tight environment-phenotype matching. However, adaptive plasticity is expected to evolve only when the future selective environment can be predicted based on the prevailing conditions. That is, the juvenile environment should be predictive of the adult environment (within-generation plasticity) or the parental environment should be predictive of the offspring environment (transgenerational plasticity). Moreover, environmental predictability can also shape transient responses such as stress responses in an...

Data from: Turnover and nestedness drive plant diversity benefits of organic farming from local to landscape scales

Romain Carrié
Biodiversity-benefits of organic farming have mostly been documented at the field scale. However, these benefits from organic farming to species diversity may not propagate to larger scales, because variation in the management of different crop types and semi-natural habitats in conventional farms might allow species to cope with intensive crop management. We studied flowering plant communities using a spatially replicated design in different habitats (cereal, ley and semi-natural grasslands) in organic and conventional farms, distributed...

Data for fitness analyses used in: Environmentally-induced DNA methylation is inherited across generations in water fleas (Daphnia magna)

Reinder Radersma, Alexander Hegg, Nathalie Feiner & Tobias Uller
Data of fitness effects of environmental stressors on Daphnia magna over multiple generations. Ages of first and second reproduction, and sizes of first and second brood were measured and used to calculate replacement rate. This data is part of a study on whole-genome bisulphate sequencing on individual Daphnia magna to assess whether environmentally-induced DNA methylation can persist for up to four generations.

The genomic architecture of the passerine MHC region: high repeat content and contrasting evolutionary histories of single copy and tandemly duplicated MHC genes

Helena Westerdahl
The Major Histocompatibility Complex (MHC) is of central importance to the immune system, and an optimal MHC diversity is believed to maximize pathogen elimination. Birds show substantial variation in MHC diversity, ranging from few genes in most bird orders to very many genes in passerines. Our understanding of the evolutionary trajectories of the MHC in passerines is hampered by lack of data on genomic organization. Therefore, we assemble and annotate the MHC genomic region of...

Data from: Traits across trophic levels interact to influence parasitoid establishment in biological control releases

Benjamin Jarrett & Marianna Szűcs
A central goal in ecology is to predict what governs a species’ ability to establish in a new environment. One mechanism driving establishment success is individual species’ traits, but the role of trait combinations among interacting species across different trophic levels are less clear. Deliberate or accidental species additions to existing communities provide opportunities to study larger scale patterns of establishment success. Biological control introductions are especially valuable because they contain data on both the...

Data from: Evaluating staging habitat quality to advance the conservation of a declining migratory shorebird, Red Knot Calidris canutus

Tong Mu, Shangxiao Cai, Hebo Peng, Chris J. Hassell, Adrian Boyle, Zhengwang Zhang, Theunis Piersma & David Wilcove
Identifying where and when population “bottlenecks” occur is critical to the conservation of migratory species, many of which are declining precipitously worldwide. Especially challenging is the evaluation of changes to staging sites. These sites are indispensable links in the migratory cycle but are typically used only briefly. We devised a field-based approach to assess the quality and carrying capacity of a critical staging site in Nanpu, China, for the declining, migratory Red Knot (Calidris canutus...

Allometric scaling of a superposition eye optimises sensitivity and acuity in large and small hawkmoths

Anna Stöckl, Anna Stöckl, Rebecca Grittner, Gavin Taylor, Christoph Rau, Andrew J. Bodey, Almut Kelber & Emily Baird
Animals vary widely in body size within and across species. This has consequences for the function of organs and body parts in both large and small individuals. How these scale, in relation to body size, reveals evolutionary investment strategies, often resulting in trade-offs between functions. Eyes exemplify these trade-offs, as they are limited by their absolute size in two key performance features: sensitivity and spatial acuity. Due to their size polymorphism, insect compound eyes are...

Registration Year

  • 2022
    101

Resource Types

  • Dataset
    101

Affiliations

  • Lund University
    101
  • Sun Yat-sen University
    35
  • Chinese Academy of Tropical Agricultural Sciences
    34
  • London School of Hygiene & Tropical Medicine
    34
  • Zhejiang University
    34
  • Central South University
    34
  • Fudan University Shanghai Cancer Center
    34
  • Fairy Lake Botanical Garden
    34
  • Tangshan Gongren Hospital
    34
  • Shanghai University of Traditional Chinese Medicine
    34