Find research datasets worth reusing

opencc-by-4.0May 2023View details →

Supplements: Comparison of different validation methods for single-step genomic evaluations based on a simulated cattle population

Supplementary Figures Supplemental Figures to show true and estimated dispersion for the different scenarios

Figure 18 in One step forward and two steps back: on three jumping spiders described by H. D. Badcock deposited in the Natural History Museum, London, and two species newly recorded for Argentina (Araneae: Salticidae)

Figure 18. Map showing the distribution of Gastromicans australis (Badcock, 1932) comb.

Figure 19 in One step forward and two steps back: on three jumping spiders described by H. D. Badcock deposited in the Natural History Museum, London, and two species newly recorded for Argentina (Araneae: Salticidae)

Figure 19. Map showing the distribution of Psecas chapoda (G. W. Peckham & E. G. Peckham,

Figures 7–12 in One step forward and two steps back: on three jumping spiders described by H. D. Badcock deposited in the Natural History Museum, London, and two species newly recorded for Argentina (Araneae: Salticidae)

Figures 7–12. Gastromicans australis (Badcock, 1932) comb. nov. non-type female

Figures 1–2. Plexippus luteus Badcock, 1932 in One step forward and two steps back: on three jumping spiders described by H. D. Badcock deposited in the Natural History Museum, London, and two species newly recorded for Argentina (Araneae: Salticidae)

Figures 1–2. Plexippus luteus Badcock, 1932 nomen dubium holotype immature (BMNH

Figures 3–6 in One step forward and two steps back: on three jumping spiders described by H. D. Badcock deposited in the Natural History Museum, London, and two species newly recorded for Argentina (Araneae: Salticidae)

Figures 3–6. Gastromicans australis (Badcock, 1932) comb. nov. holotype female (BMNH

opencc-by-4.0Jun 2023View details →

Numerical experimental data about mixing time step of tracer-aided model

This is the numerical experimental data about mixing time step of tracer-aided model related to the response letter of manuscript HYDROL49160 in Journal of Hydrology

opencc-by-4.0Jul 2023View details →

LCA results of alternative steps in EoL procedure

Open access to analysed data generated by the ReINTEGRA project (GA 886609, H2020, European Union, through Clean Sky 2 JU) along the research, at single-stringer coupon level, of the End-of-Life of novel welded Al-Li aerostructures.Research pertaining to Task 6.3 (WP6), Deliverable D6.3. Analysed data on environmental impacts associated with recycling different scrap fractions coming from EoL welded structures made of Al-Li alloys, at coupon level.  The inventory of flows during cutting, decoating and remelting 9 references of welded coupons for closed-loop recycling of the scrap into aeronautical Al-Li alloys was used for calculating 4 LCA-based environmental indicators: GWP (Climate Change), ADP-fossil (Use of Resources, fossil), ADP-elem (Use of Resources, minerals & metals) and Toxicity (aggregated score for weighted normalised indicators of Human Toxicity Cancer & Non-Cancer + Ecotoxicity Freshwater categories). For the closed-loop recycling 4 target Al-Li alloys are considered: AA2198, AA2196, AA2060, AA2099. Data analysis: -       Computing environmental impacts associated with the cutting of scrap using a handheld angle grinder. -       Computing environmental impacts associated with the decoating of scrap using corundum blasting. -       Computing environmental impacts associated with the chemical elements corrections (alloying) of the composition of remelted coupon scrap within each target Al-Li alloy limits. -       Graphical comparison for R1 of total impact of closed-loop recycling following 4 different scrapping strategies 0C, 1C, 2C, 3C) -       Graphical comparison of the recommended EoL routes for coupon R1 and coupon R11. -       Environmental ranking of all the closed-loop recycling options proposed (3 options * 9 coupon references) The data, analysed as part of the environmental screening of EoL alternatives in WP6 (Task 6.3), are the basis for selection of the best EOL routes in WP3 and providing ecodesign tips (DfR) to ecoTECH for welded panels manufacturing.

dryad32/100

Data from: A step in the deep evolution of Alvinellidae (Annelida: Polychaeta): A phylogenomic comparative approach based on transcriptomes

Alvinellid worms are a family of endemic and closely related species from deep-sea hydrothermal vents in the Pacific and Indian Oceans. These annelid worms, sister group to the Ampharetidae, occupy a wide range of ecological niches, some of which include the most thermotolerant marine animals described to date such as the Pompeii worm Alvinella pompejana, and other species living at much lower temperatures such as Paralvinella grasslei or Paralvinella pandorae. The phylogeny of this family has not yet been studied extensively. It is, however, a complex case with conflicting molecular phylogenies, the main question being the monophyletic or polyphyletic character of the genus Paralvinella. We carried out a comprehensive study of the phylogeny of this family using the best molecular data currently available from RNAseq datasets. The study is based on the assembly of several hundred transcripts for 11 of the 14 species described or in description. The results obtained by the most popular phylogenetic inference models (gene concatenation and maximum likelihood, or coalescent-based methods from gene trees) are compared, and an attempt is made to use sequence insertion and deletion information to evaluate and strengthen our choice over the different phylogenies using a newly-developed maximum likelihood method. Although our study does not allow to definitively assert the phylogeny of the Alvinellidae (three species are still missing), we propose to support the initial hypothesis of the monophyly of the Paralvinella proposed by Desbruy`eres and Laubier on the basis of the morphology of the species, in which the species Paralvinella pandorae and Paralvinella unidentata are basal in the genus Paralvinella and grouped together within the subgenus nautalvinella. Following a clock calibration, the radiation of the Alvinellidae, dated between 55 and 78 Myr, took place very rapidly, resulting in high rates of incomplete lineage sorting between the first ancestors and probable gene transfers between the Alvinella, Nautalvinella and the rest of the Paralvinella lineages.

opencc-zeroAug 2023View details →

Fig. 2 in Comparison of glucosinolate diversity in the crucifer tribe Cardamineae and the remaining order Brassicales highlights repetitive evolutionary loss and gain of biosynthetic steps

Fig. 2. The essence of glucosinolate (GSL) biosynthesis as imagined for the presumably ancient 2-methylpropylGSL and a β-hydroxylated derivative, 2-hydroxy-2-methylpropylGSL. The three steps between the CYP83 product and thiohydroximic acid in general GSL biosynthesis involves glutathione, serving as the donor of sulfur. The illustrated hypothetic pathway is based on the known biosynthetic pathway of more recently evolved GSLs (Sønderby et al., 2010).

Fig. 8 in Comparison of glucosinolate diversity in the crucifer tribe Cardamineae and the remaining order Brassicales highlights repetitive evolutionary loss and gain of biosynthetic steps

Fig. 8. Biochemical aspects of aliphatic side chain oxidation of glucosinolates (GSLs). A. Biosynthesis of three well-investigated GSLs, all involving enzymes of the class "2-oxoglutarate-dependent dioxygenases", although the case of BAR biosynthesis is still tentative (Byrne et al., 2017). B. Conserved metabolism of an OAT into the corresponding oxazolidine-2-one (OAO) in three Brassicales species (Barbarea vulgaris, Nasturtium officinale and Reseda luteola). MYR, myrosinase; GS-OH, glucosinolate hydroxylating enzyme; GRS, glucoraphasatin synthase.

Fig. 7 in Comparison of glucosinolate diversity in the crucifer tribe Cardamineae and the remaining order Brassicales highlights repetitive evolutionary loss and gain of biosynthetic steps

Fig. 7. Stages in the biosynthesis of parent glucosinolates (GSLs) without (A) or with (B) chain elongation of the precursor standard amino acid. A CYP79 enzyme catalyzes the first reaction in the known (cytosolic) core structure biosynthesis pathways, followed by six enzymatic steps constituting the remaining core structure biosynthesis pathway, abbreviated "r. csb". For GSLs without chain elongation (A), the CYP79 catalyzed reaction is the committed step. For GSLs needing chain elongation (B), however, the chain elongation machinery as well as transport ("T") across the chloroplast membrane and reversible amino transferase reactions collectively constitute the committed step, illustrated as a box-like reaction arrow containing the individual reactions.

Fig. 4 in Comparison of glucosinolate diversity in the crucifer tribe Cardamineae and the remaining order Brassicales highlights repetitive evolutionary loss and gain of biosynthetic steps

Fig. 4. All glucosinolates (GSLs) derived from aliphatic amino acids known from the tribe Cardamineae. The constant part of the GSLs is abbreviated GSL in most structures and exemplified in case of 107. Abbreviations of individual GSLs follow a comprehensive system explained in the text (Section 1.1.); spaces have occasionally been inserted in some long names and abbreviations for easier reading. BCAA; branched chain amino acid.

Fig. 1 in Comparison of glucosinolate diversity in the crucifer tribe Cardamineae and the remaining order Brassicales highlights repetitive evolutionary loss and gain of biosynthetic steps

Fig. 1. An archetypic glucosinolate-myrosinase system, leading to an isothiocyanate (A) and an oxazolidine-2-thione (B) from myrosinase-catalyzed hydrolysis of two ancient glucosinolates, 11 and 31. The hydrolysis reactions are unbalanced; water is an additional reactant and glucose, sulfate and hydrogen ion are also released during the myrosinase-catalyzed hydrolysis. A rearrangement precedes the formation of isothiocyanate (Blaˇzevi´c et al., 2020).

Fig. 3 in Comparison of glucosinolate diversity in the crucifer tribe Cardamineae and the remaining order Brassicales highlights repetitive evolutionary loss and gain of biosynthetic steps

Fig. 3. All glucosinolates (GSLs) derived from aromatic amino acids known from the tribe Cardamineae. The constant part of the GSLs is abbreviated GSL in most structures and exemplified in case of 11, a similar system is used for 6′-isoferuloylated GSLs as exemplified for 129. Abbreviations of individual GSLs follow a comprehensive system systematically explained in an accompanying paper (Agerbirk et al., 2021); spaces have occasionally been inserted in some long names and abbreviations for easier reading. The semisystematic name of "glucobarbarin" is (S)-2-hydroxy-2-phenylethylGSL, and for "epiglucobarbarin" it is (R)-2-hydroxy-2-phenylethylGSL.

Fig. 3 in 21-Hydroxypregnane 21-O-malonylation, a crucial step in cardenolide biosynthesis, can be achieved by substrate-promiscuous BAHD-type phenolic glucoside malonyltransferases from Arabidopsis thaliana and homolog proteins from Digitalis lanata

Fig. 3. Size exclusion chromatography (SEC) and indication of relative 21MaT activity investigation pools III (A) and IV (B) of the ammonium sulfate precipitation.

Fig. 4 in 21-Hydroxypregnane 21-O-malonylation, a crucial step in cardenolide biosynthesis, can be achieved by substrate-promiscuous BAHD-type phenolic glucoside malonyltransferases from Arabidopsis thaliana and homolog proteins from Digitalis lanata

Fig. 4. Docking of modeled AtPMaT1 (ribbon diagram) with an overlay of the potential pregnane substrates (Sub) (shown in grey). The catalytic histidine (His) and the cosubstrate (CoS) are also shown.

Fig. 1 in 21-Hydroxypregnane 21-O-malonylation, a crucial step in cardenolide biosynthesis, can be achieved by substrate-promiscuous BAHD-type phenolic glucoside malonyltransferases from Arabidopsis thaliana and homolog proteins from Digitalis lanata

Fig. 1. Postulated biosynthetic pathway of cardenolide formation in Digitalis. The malonylation step [8] is marked by a rectangle. 1 Putative side chain cleaving enzyme (SCCE), 2 NAD:3β-hydroxysteroid dehydrogenase (3βHSD), 3 Δ4,5-3-ketosteroid-isomerase (3KSI), 4 progesterone-5β-reductase (P5βR), 5 NAD:3β-hydroxysteroid dehydrogenase (3βHSD), 6 putative pregnane 14β-hydroxylase, 7 putative pregnane 21β-hydroxylase, 8 malonyl coenzyme A:21- hydroxypregnane 21-O-malonyltransferase (21MaT).

Fig. 6 in 21-Hydroxypregnane 21-O-malonylation, a crucial step in cardenolide biosynthesis, can be achieved by substrate-promiscuous BAHD-type phenolic glucoside malonyltransferases from Arabidopsis thaliana and homolog proteins from Digitalis lanata

Fig. 6. Docking of homology modeled malonyltransferases with 3-O-acetylketol (displayed in grey) showing the distances between the catalytic histidine (His), the hydroxy group to be malonylated (Sub) and the malonyl residue presented by the co-substrate (CoA). A AtPMaT1 B AtPMaT2 C DlMaT1.

Fig. 5 in 21-Hydroxypregnane 21-O-malonylation, a crucial step in cardenolide biosynthesis, can be achieved by substrate-promiscuous BAHD-type phenolic glucoside malonyltransferases from Arabidopsis thaliana and homolog proteins from Digitalis lanata

Fig. 5. Expression of Dlmat1, Dlmat2, Dlmat3, and Dlmat4 in different plant tissues measured by real-time quantitative PCR (qPCR). Expression rates are standardized to the values of the actin transcript in each tissue and were displayed in relation to the expression in young leaves (set to equal 1) for each Dlmat gene.