https://researchdata.se/en/catalogue Search results en Phylogeny of LysM paralogs with sequences harvested from newly sequenced transcriptomes from Datisca glomerata and Ceanothus thyrsiflorus plus the following species as references: Arabidopsis thaliana, Cicer arietinum, Cucurbita pepo, Fragaria vesca, Glycine max, Lotus japonicus, Manihot esculenta, Medicago trunculata, Morus notabilis, Oryza sativa, Prunus persica, Ricinus communis, Solanum lycopersicum, Sorghum bicolor, Theobroma cacao, Vigna radiata and Ziziphus jujuba. Sequences were collected with blastp searches against the RefSeq database subset by the above list of species, using presumed D. glomerata and C. thyrsiflorus orthologs. Sequences were aligned with Clustal Omega (http://www.clustal.org/omega/; Sievers et al. 2014) and reliable alignment positions were selected with the BMGE algorithm (Criscuolo and Gribaldo 2010) using the BLOSUM62 substitution matrix. Sequences that were identical after BMGE, were discarded. The tree was estimated with RAxML v. 8.2.4 (https://sco.h-its.org/exelixis/web/software/raxml/index.html; Stamatakis 2014) using the PROTGAMMAAUTO model and automatic bootstopping. Files provided are: 1. The full alignment after BMGE selection of positions and removal of identical sequences: lysm.refseq_harvest_plus_selected.co.BLOSUM62.bmge.rx.red.phylip 2. The maximum likelihood tree labelled with bootstrap values in:a. newick format: lysm.refseq_harvest_plus_selected.co.BLOSUM62.bmge.rx.red.PROTGAMMAAUTO.raxml.besttree.newickb. Dendroscope (http://dendroscope.org/; Huson et al. 2007): lysm.refseq_harvest_plus_selected.co.BLOSUM62.bmge.rx.red.PROTGAMMAAUTO.raxml.bipartitions.nexml Tue, 29 May 2018 00:00:00 GMT https://researchdata.se/en/catalogue/dataset/doi-10-17045-sthlmuni-6384200 https://researchdata.se/en/catalogue/dataset/doi-10-17045-sthlmuni-6384200 Stockholm University Daniel Lundin Marco Guedes Salgado Here is presented all data and code used in the article "Strong diel variation in the activity of insect taxa sampled by Malaise traps" by Viktor Gårdman, Emme McDonald & Tomas Roslin. The sampling of insects through Malaise traps was conducted by the authors. 24 malaise traps were erected in a boreal forest in central Sweden (Lat. 60.024855, long. 17.751336) and emptied every second hour, with the exception of night (samplng events during night = 22:00, 02:00, 06:00) for five consecutive days between 14-19th of July 2022. The sampling design is described in further detail in the article (Fig. 1B). Insects were identified to taxonomic Family for Diptera, Coleoptera, and Hymenoptera, except for the superfamilies of Chalcidoidea and Cynipoidea (Hymenoptera). Chalcidoids and Cynipoids were only identified to the superfamily level, due to difficulties in assigning lower taxonomic levels without risking misidentification. Hemiptera was divided into taxonomic families for Heteroptera, and into suborders for Auchenorrhyncha and Sternorrhyncha. To simplify identification of a large group with similar morphology, all microlepidopteras were grouped as such with no further identification. Furthermore, to speed up the identification task, all insects not belonging to Diptera, Hymenoptera, Coleoptera, Lepidoptera or Hemiptera were identified to Order alone. The HRS_SpeciesData file contains information about each captured individual across all taxa for each 2 hour sampling interval during the five days of sampling. Dates are given as DD/M. TrapID refers to which of the 24 traps used the individual was found in. Time is given in hh:mm and refers to the time of sampling, Time_con refers to time in only hh, and time_Num shows time of day as a fraction between 0 (00:00) and 1 (23:59). The superfamily belonging for each taxon used is given. Note that for taxa were only taxonomic Order or Suborders are given, the superfamily column refers to this Order or Suborder. The HRS_EnviData file contains information about how many individual were captured at each timestep for the 17 most common taxa (appearing as >49 individuals or in >19 timesteps), along with weather covariates for each timestep. The weather covariates are average values from the five half hour measurements per sampling period (expect for 22:00-02:00 and 02:00-06:00 where n=9). The taxonomic columns follow the same principle as in HRS_SpeciesData, with an additional column of taxonomic Order. Times and date also follow the same principle as in HRS_SpeciesData. ID is a unique mix of Date and time, given as DDHH (Date, Hour). The emptying of trap at 20:00 on the 15h would have ID 1520. Temperature is given in degrees Celsius (°C), wind speed in m/s, cloud cover as a fraction between 0 (no cloud) and 1 (complete cloud cover), rain in mm, wind direction in cardinal directions, and relative humidity in %. Data on weather covariates was provided by the Swedish Transport Administration (https://www.trafikverket.se/) from weather station 327 Björklinge (Lat. 60.05042, long. 17.62149). All code was created using R version 4.4.0 and is presented through Rmarkdown Fri, 05 Dec 2025 12:45:22 GMT https://researchdata.se/en/catalogue/dataset/2025-211 https://researchdata.se/en/catalogue/dataset/2025-211 Swedish University of Agricultural Sciences Viktor Gårdman Emme McDonald Tomas Roslin This study makes part of the research project GINFRA – green rights-of-way infrastructure for biodiversity and ecosystem services. The aim of the project was to quantify whether linear infrastructure habitats (road verges and power-line corridors) support biodiversity by assessing the influence of the area of these habitats in the landscape, their contribution to landscape connectivity and population persistence. The linked data was collected by surveying butterflies, bumblebees, and vascular plants in five types of prevalent grasslands (pastures, road verges along small gravel roads, road verges along big paved roads, power line corridors, and field borders). These grasslands were embedded in 32 landscapes with area 4 km² each, that differed in the area of linear infrastructure habitats (road verges and power line corridors) and semi-natural grasslands of high nature value, while other land-use types were kept constant. The landscapes were dominated by forest. Within each grassland habitat, the surveyor established a 200 m transect and then identified all butterflies and bumblebees along it. For plants, a 1 x 1 m quadrat was established at the centre of a 50 m section in each transect, i.e. each transect had four plots in which all plant species were identified. Denna studie är en del av projektet GINFRA – green rights-of-way infrastructure for biodiversity and ecosystem services. Projektets huvudsyfte var att kvantifiera om linjära infrastrukturmiljöer (vägkanter och kraftledningsgator) bidrar till mångfalden av växter och insekter i olika rumsliga skalor. Detta gjordes genom att uppskatta hur linjära infrastrukturmiljöers mängd i landskapet bidrar till mångfalden samt hur mycket de bidrar till landskapets konnektivitet. Datan samlades genom att inventera dagfjärilar, humlor, och växter i fem typer av gräsmarker (betesmarker, vägrenar längs enskilda vägar, vägrenar längs allmänna vägar, kraftledningsgator, och åkerkanter). Alla dessa habitat typer fanns inom 32 landskap med area 4 km2 som skilde sig i areal av linjära infrastrukturmiljöer (vägrenar och kraftledningsgator) och ängs-och betesmarker. Arealen av andra markanvändningar var konstanta mellan landskap och alla landskap var skogsdominerade. Thu, 04 Apr 2024 09:16:47 GMT https://researchdata.se/en/catalogue/dataset/2023-23-1 https://researchdata.se/en/catalogue/dataset/2023-23-1 Swedish University of Agricultural Sciences Juliana Dániel-Ferreira Yoan Fourcade Riccardo Bommarco Jörgen Wissman Erik Öckinger