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Fig. 5 in New species of deep-sea Heteropolypus soft corals (Anthozoa: Octocorallia) from the Kurile Islands, Sea of Okhotsk (Northwest Pacific), with summary data on distinctive characters of the known species of the genus

Fig. 5. Heteropolypus annae sp. nov., paratype (MIMB 42494); sclerites from the autozooid pharynx, anthocodiae, and the colony body. A. Waisted plates. B. Waisted rods. C. Anthocodiae capstans. D. Capitulum surface capstans. E. Stalk surface capstans. F. Needles. G. Ends of the same needle. Scale bars: A–F = 0.1 mm; G = 0.02 mm.

Fig. 4 in New species of deep-sea Heteropolypus soft corals (Anthozoa: Octocorallia) from the Kurile Islands, Sea of Okhotsk (Northwest Pacific), with summary data on distinctive characters of the known species of the genus

Fig. 4. Heteropolypus annae sp. nov., paratype (MIMB 42494); sclerites from the autozooid tentacles. A. Waisted plates. B. Plates. C. Flanged spindles. D. Warty spindles. E. Club-like spindle. F. Clubs. G. Capstans. H. Slender capstans. Scale bar = 0.1 mm.

Fig. 3 in New species of deep-sea Heteropolypus soft corals (Anthozoa: Octocorallia) from the Kurile Islands, Sea of Okhotsk (Northwest Pacific), with summary data on distinctive characters of the known species of the genus

Fig. 3. Heteropolypus annae sp. nov., holotype (MIMB 42493); sclerites from the autozooid pharynx, anthocodiae, and colony body. A. Waisted plates. B. Waisted rods. C. Anthocodiae capstans. D. Capitulum surface capstans. E. Stalk surface capstans. F. Needles. G. Ends of the same needle. Scale bars: A–F = 0.1 mm; G = 0.02 mm.

Fig. 2 in New species of deep-sea Heteropolypus soft corals (Anthozoa: Octocorallia) from the Kurile Islands, Sea of Okhotsk (Northwest Pacific), with summary data on distinctive characters of the known species of the genus

Fig. 2. Heteropolypus annae sp. nov., holotype (MIMB 42493); sclerites from the autozooid tentacles. A. Waisted plates. B. Plates. C. Flanged spindles. D. Warty spindles. E. Club-like spindle. F. Clubs. G. Capstans. H. Slender capstans. Scale bar = 0.1 mm.

Fig. 1 in New species of deep-sea Heteropolypus soft corals (Anthozoa: Octocorallia) from the Kurile Islands, Sea of Okhotsk (Northwest Pacific), with summary data on distinctive characters of the known species of the genus

Fig. 1. Heteropolypus annae sp. nov. A. Holotype (MIMB 42493), Kurile Islands, Sea of Okhotsk. View from above. B. Holotype (MIMB 42493), Kurile Islands, Sea of Okhotsk. View from below. C. One specimen, Kurile Islands, Sea of Okhotsk (MIMB 42496). D. One specimen, Kurile Islands, Sea of Okhotsk (MIMB 42496). E. Paratype (MIMB 42494), Kurile Islands, Sea of Okhotsk. F. Holotype (MIMB 42493); section of the capitulum; 1 = autozooid, 2 = mesozooid. G. Holotype (MIMB 42493); surface of the capitulum; 1 = mesozooids. Scale bars: A–E = 10 mm; F–G = not to scale.

opencc-by-4.0Dec 2020View details →

Host and pathogen gene expression profiles in Necrotizing Soft Tissue Infections

Data underlying the article Analysis of host-pathogen gene association networks reveals patient-specific response to streptococcal and poly-microbial necrotizing soft tissue infections Sanjeevan Jahagirdar1, Lorna Morris2, Nirupama Benis3, Oddvar Oppegaard4, Mattias Svenson5, Ole Hyldegaard6, Steinar Skrede4,7, Anna Norrby-Teglund5, INFECT Study group, Vitor A. P. Martins dos Santos1,2, Edoardo Saccenti1* Contains Data described in 4.3.2 Sample Selection and in Figure 6: INFECT_DualRNASeq_norm_counts_Human.txt  Normalised counts from Kallisto mapping to GRCh38 (release 91) for 81 NSTI patients INFECT_DualRNASeq_relative_abundance_Bacteria.txt Relative abundance for all species from HumanN2 mapping for 81 NSTI patients BStrep_filtered_D1 - INFECT_DualRNASeq_relative_abundance_Bacteria.txt filtered for samples classified as Streptococcal from Thänert et al (2019) taken on the day of admission (day 1). BPoly_filtered_D1 - INFECT_DualRNASeq_relative_abundance_Bacteria.txt filtered for samples classified as polymicrobial from Thänert et al (2019) taken on the day of admission (day 1). HStrep_filtered_D1 - INFECT_DualRNASeq_norm_counts_Human.txt filtered for samples classified as Streptococcal from Thänert et al (2019) taken on the day of admission (day 1). HPoly_filtered_D1 - INFECT_DualRNASeq_norm_counts_Human.txt filtered for samples classified as polymicrobial from Thänert et al (2019) taken on the day of admission (day 1).

opencc-by-4.0Apr 2022View details →

Figs 11–24 in Soft-winged flower beetles (Coleoptera: Malachiidae) of the United Arab Emirates

Figs 11–24. Tonycolotes kovari (Švihla, 1987) gen. et. comb. nov., ♂ (SCH_ISEA). 11. External appearance, dorsal view. 12. External appearance, lateral view. 13. Head and pronotum, subdorsal view. 14. Head and pronotum, dorsal view. 15. Right antenna. 16–18. Scapus in different positions. 19. Left palp. 20. Left anterior leg. 21. Pygidium. 22. Ultimate abdominal ventrite. 23. Aedeagus, lateral view. 24. Tegmen. Scale bars: 0.5 mm.

opencc-by-4.0Apr 2022View details →

Figs 1–10 in Soft-winged flower beetles (Coleoptera: Malachiidae) of the United Arab Emirates

Figs 1–10. Tonyattalus vanharteni gen. et sp. nov., holotype (SCH_ISEA_000133), ♂ (1–8), ♀ (9– 10). 1, 9. External appearance, dorsal view. 2, 10. External appearance, lateral view. 3. Left antenna. 4. Head and pronotum, dorsal view. 5. Left anterior tarsus. 6. Pygidium. 7. Ultimate abdominal ventrite. 8. Aedeagus, and tegmen, lateral view. Scale bars: 0.5 mm.

opencc-by-4.0Jun 2022View details →

Magnetic Soft Robotic Bladder for Assisted Urination

The poor contractility of the detrusor muscle in underactive bladders (UABs) fails to increase the pressure inside the UAB, leading to strenuous and incomplete urination. However, existing therapeutic strategies by modulating/repairing detrusor muscles, e.g., neurostimulation and regenerative medicine, still have low efficacy and/or adverse effects. Here, we present an implantable magnetic soft robotic bladder (MRB) that can directly apply mechanical compression to the UAB to assist urination. Composed of a biocompatible elastomer composite with optimized magnetic domains, the MRB enables on-demand contraction of the UAB when actuated by magnetic fields. A representative MRB for an UAB in a porcine model is demonstrated and MRB-assisted urination is validated by in situ computed tomography imaging after 14-day implantation. The urodynamic tests show a series of successful urination with a high pressure increase and fast urine flow. Our work paves the way for developing MRB to assist urination for humans with UABs.

opencc-by-4.0Jul 2022View details →

A fluidic relaxation oscillator for reprogrammable sequential actuation in soft robots

This dataset contains data and code to replicate main and supplemental figures for the related article published in Matter: Title: A fluidic relaxation oscillator for reprogrammable sequential actuation in soft robots DOI: 10.1016/j.matt.2022.06.002 In the article we introduce a simple and compact soft valve with intentional hysteresis, analogous to an electronic relaxation oscillator. By integrating the valve with a soft actuator, we transform a continuous inflow to cyclic activation. Importantly, we show that our circuits can activate up to five actuators in various sequences, and that we can physically reprogram the activation order by varying the (initial) conditions in the fluidic circuit. Moreover, we show the feasibility of our approach under more realistic conditions by building a four-legged robot. This dataset contains measurement data and simulation files. The data are recorded (in human-readable format) from experiments on our fluidic circuits (e.g., pressure, flow data), and are accompanied by MATLAB scripts for data processing as well as generating figures. The simulation files are MATLAB and LTspice files for simulating our fluidic circuits making use of the analogy with electronic circuits. For more involved parameter sweeps we generate, run, and post-process LTspice input and result files using MATLAB. More details and instruction for use are provided in the included readme.txt files.

opencc-by-4.0Oct 2020View details →

From silk to sand: Multiple dimensions of perceived softness

From silk to sand: Hand explorations are determined by the characteristics of the perceptual space of real-world materials   Perceiving mechanical properties of objects, i.e., how they react to physical forces, is a crucial ability in many aspects of life, from choosing an avocado to picking your clothes. There is, a wide variety of materials that differ substantially in their mechanical properties. For example, both, silk and sand deform and change shape in response to exploration forces, but each does so in very different ways. Studies show that the haptic perceptual space has multiple dimensions corresponding to the physical properties of textures, however in these experiments the range of materials or exploratory movements were restricted. Here we investigate the perceptual dimensionality in a large set of real materials in a free haptic exploration task. Thirty-two participants actively explored deformable and non-deformable materials with their hands and rated them on several attributes. Using the semantic differential technique, video analysis and linear classification, we found four haptic dimensions, each associated with a distinct set of hand and finger movements during active exploration. Taken together our findings suggest that the physical, particularly the mechanical, properties of a material systematically affect how it is explored on a much more fine-grained level than originally thought.   The folder contains raw data related to video event coding of 5 raters: R1_20180820.txt R2_14082018.txt R3_14082018.txt R4_20180610firstlist55.txt R5_20180610firstlist64v2.txt Same data are also shared in Matlab format after deleting unnecessary information such as file paths or fps: a.mat, h.mat, o.mat, s.mat, v.mat Ethogram file contains exploratory procedure names and materials file contains material names. Matlab files include codes for calculating inter-rater reliability (plot_correlate_EP_permaterial.m), resulting data for inter-rater reliability (IRR_overall_corrcoeffs.mat, IRR_permaterial_corrcoeffs.mat). We also include scripts to plot timelines and EP frequencies, plot_timelines_materials_alex.m and plot_durations_material_meansub_alex.m respectively. Finally, the script for classification from Mathworks Inc. uses built-in Matlab functions, we include our script where we only changed variable names (sort_svmdata4.m).

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Environmental DNA reveals fine-scale habitat associations for sedentary and resident marine species across a coastal mosaic of soft and hard-bottom habitats

Accurate knowledge on spatiotemporal distributions of marine species and their association with surrounding habitats is crucial to inform adaptive management actions responding to coastal degradation across the globe. Here, we investigate the potential use of environmental DNA (eDNA) to detect species-habitat associations in a patchy coastal area of the Baltic Sea. We directly compare species-specific qPCR analysis of eDNA with baited remote underwater video systems (BRUVS), two non-invasive methods widely used to monitor marine habitats. Four focal species (cod Gadus morhua, flounder Platichthys flesus, plaice Pleuronectes platessa and goldsinny wrasse Ctenolabrus rupestris) were selected based on contrasting habitat associations (reef- vs. sand-associated species), as well as differential levels of mobility and residency, to investigate whether these factors affected the detection of species-habitat associations from eDNA. To this end, a species-specific qPCR assay for goldsinny wrasse is developed and made available herein. In addition, potential correlations between eDNA signals and abundance counts (MaxN) from videos were assessed. Results from Bayesian multi-level models revealed strong evidence for a sand association for sedentary flounder (98% posterior probability) and a reef association for highly resident wrasse (99% posterior probability) using eDNA, in agreement with BRUVS. However, contrary to BRUVS, eDNA sampling did not detect habitat associations for cod or plaice. We found a positive correlation between eDNA detection and MaxN for wrasse (posterior probability 95%), but not for the remaining species and explanatory power of all relationships was generally limited. Our results indicate that eDNA sampling can detect species-habitat associations on a fine spatial scale, yet this ability likely depends on the mobility and residency of the target organism, with associations for sedentary or resident species most likely to be detected. Combined sampling with conventional non-invasive methods is advised to improve detection of habitat associations for mobile and transient species, or for species with low eDNA concentrations.

opencc-zeroSep 2022View details →

Fig. 37 in Dead man's fingers point to new taxa: two new genera of New Zealand soft corals (Anthozoa, Octocorallia) and a revision of Alcyonium aurantiacum Quoy & Gaimard, 1833

Fig. 37. Maximum likelihood phylogeny (identical in topology to Bayesian inference phylogeny) of Kotatea gen. nov., Ushanaia gen. nov., and associated taxa based on combined, partitioned analysis of mtMutS and 28S. New species are identified by individual colours. The type species for Alcyonium Linnaeus, 1758 – A. digitatum Linnaeus, 1758 – appears in bold. ML bootstrap support values are given above each branch and BI posterior probabilities below.

Fig. 36 in Dead man's fingers point to new taxa: two new genera of New Zealand soft corals (Anthozoa, Octocorallia) and a revision of Alcyonium aurantiacum Quoy & Gaimard, 1833

Fig. 36. Ushanaia solida gen. et sp. nov., holotype (NIWA 102133), SEMs of sclerites. A. Polyp mound. B. Lobe surface, proximal region (close proximity to substrate). C. Lobe surface, distal region. D. Interior.

Fig. 35 in Dead man's fingers point to new taxa: two new genera of New Zealand soft corals (Anthozoa, Octocorallia) and a revision of Alcyonium aurantiacum Quoy & Gaimard, 1833

Fig. 35. Ushanaia solida gen. et sp. nov., holotype (NIWA 102133), SEMs of sclerites. A. Collaret and points. B. Tentacles. C. Polyp neck. D. Distal points.

Fig. 34 in Dead man's fingers point to new taxa: two new genera of New Zealand soft corals (Anthozoa, Octocorallia) and a revision of Alcyonium aurantiacum Quoy & Gaimard, 1833

Fig. 34. SEMs of sclerites from polyps (in situ). A. Ushanaia fervens gen. et sp. nov., holotype (NIWA 156311). B. U. solida gen. et sp. nov., holotype (NIWA 102133).

Fig. 32 in Dead man's fingers point to new taxa: two new genera of New Zealand soft corals (Anthozoa, Octocorallia) and a revision of Alcyonium aurantiacum Quoy & Gaimard, 1833

Fig. 32. Ushanaia fervens gen. et sp. nov., holotype (NIWA 156311), SEMs of sclerites. A. Collaret and points. B. Distal points. C. Tentacles. D. Polyp neck.

Fig. 31 in Dead man's fingers point to new taxa: two new genera of New Zealand soft corals (Anthozoa, Octocorallia) and a revision of Alcyonium aurantiacum Quoy & Gaimard, 1833

Fig. 31. In situ photographs of Ushanaia fervens gen. et sp. nov. A–B. Encrusting on black coral (uncollected specimen), Fiordland, photos by Richard Kinsey.C. Small colonies (uncollected specimens), Fiordland, photo by Ian Skipworth (ianskipworth.com). Scale bars = ~2 cm.

Fig. 30 in Dead man's fingers point to new taxa: two new genera of New Zealand soft corals (Anthozoa, Octocorallia) and a revision of Alcyonium aurantiacum Quoy & Gaimard, 1833

Fig. 30. Ushanaia ferruginea gen. et sp. nov., holotype (NIWA 156313), SEMs of sclerites. A. Surface (of thick, fleshy areas of colony). B. Interior (of thick, fleshy areas of colony).

Fig. 28. Selected preserved specimens. A in Dead man's fingers point to new taxa: two new genera of New Zealand soft corals (Anthozoa, Octocorallia) and a revision of Alcyonium aurantiacum Quoy & Gaimard, 1833

Fig. 28. Selected preserved specimens. A. Ushanaia ferruginea gen. et sp. nov. B. U. fervens gen. et sp. nov. C. U. solida gen. et sp. nov. Note that most specimen lots include additional fragments that are not depicted. * = holotype.