cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.5613921
title: Paleoceanographic proxies obtained from core M77/2-024-5 off Peru

description: This dataset includes paleoceanographic proxies developed in sediment core M77/2-024-5 (11°05.01'S; 78°00.91'W) collected at 210 meters depth off Peru during Meteor expedition M77/2 in 2008 (Meteor station No. M772/677). This dataset includes δ<sup>18</sup>O measurements, depth-age relationship, Uk’37 values, two records of ocean temperatures (alkenone and TEXH86), the difference between these two temperatures, δ<sup> 15</sup>N values (proxy for water column denitrification), diatom assemblages, fish vertebrae abundances and fluxes, the average and standard deviation of the width of fish vertebrae, the number of observations per sample and a preservation index of fish vertebrae. The δ<sup>18</sup>O record was obtained from at least 10 specimens of <em>Bolivina seminuda </em>per sampling interval<em>,</em> that did not show signs of degradation or alteration. According to the age model developed, core M77/2-024-5 covers the last 142 kyr BP including the last interglacial (MIS5e). The temperature difference between the UKˈ37 and the TEX86 can be attributed to changes in water column stratification, with higher offsets interpreted to indicate a deeper thermocline. The fish vertebrae identification includes the following species/groups: anchovy (<em>Engraulis ringens</em>), goby-like fishes, juvenile fishes, <em>Vinciguerria lucetia</em>, hake (<em>Merluccius gayi peruanus</em>), blue lanternfish (<em>Tarletonbeania crenularis</em>), eel-shaped fish and other unidentified species. The fish debris fluxes (#debris × cm−2 × y-1) were calculated by multiplying the fish debris abundance (number of fish debris x g-1) by the sedimentation rates (cm x y-1) by the dry bulk density (g x cm-3). Finally, the fluxes were multiplied by 1000. The widths of the complete vertebrae per sample were measured and the average per sample is presented in this dataset. The preservation index of fish vertebrae estimates the surface of the vertebrae that is not affected by bio-erosion. This index was calculated per each vertebra and an average per sample interval was done, where higher values indicate better preservation of the fish vertebrae remains.
DOI: 10.25721/m6yn-6h29
title: Je vous souhaite une bonne année
DOI: 10.24378/exe.3643
title: Probing vibrational strong coupling of molecules with Wavelength-modulated Raman spectroscopy (dataset)

description: Raman spectroscopy is a powerful technique that enables fingerprinting of materials, molecules, and chemical environments by probing vibrational resonances. In many applications the desired Raman signals are masked by fluorescence, either from the molecular system being studied, or from adjacent metallic nanostructures. Here we show that wavelength-modulated Raman spectroscopy provides a powerful way to significantly reduce the strength of the fluorescence background, thereby allowing the desired Raman signals to be clearly recorded. We make use of this approach to explore Raman scattering in the context of vibrational strong coupling, an area that has thus far been problematic to visualise. Specifically we look at strong coupling between the vibrational modes in a polymer and two types of confined light field, the fundamental mode of a metal-clad microcavity, and the surface-plasmon modes of an adjacent thin metal film. Whilst we find clear advantages in using the wavelength-modulated Raman approach, our results on strong coupling are inconclusive, and highlight the need for more work in this exciting topic area.
description: This is the dataset used for the Menghranjani et al. (2021) article "Probing vibrational strong coupling of molecules with Wavelength-modulated Raman spectroscopy" published in Advanced Optical Materials.
description: Experimentally/Computationally calculated data of all the figures.
DOI: 10.25721/wygf-vw43
title: A bonne-maman
DOI: 10.5281/zenodo.5578594
title: Ecol-Lett_Fuzessy-et-al-2021_Phylogenetic_congruence_between_Neotropical_primates_and_plants

description: Data supporting the results in the Ecology Letters paper DOI: 10.1111/ele.13918: Title: Phylogenetic congruence between Neotropical primates and plants is driven by frugivory Authors: Fuzessy L (lfuzessy@gmail.com), Silveira F A, Culot L, Jordano P, Verdu M. Abstract: Seed dispersal benefits plants and frugivores, and potentially drives co-evolution, with consequences to diversification evidenced for e.g., primates. Evidence for macro-coevolutionary patterns in multi-specific, plant-animal mutualisms is scarce, and the mechanisms driving them remain unexplored. We tested for phylogenetic congruences in primate-plant interactions and showed strong co-phylogenetic signals across Neotropical forests, suggesting that both primates and plants share evolutionary history. Phylogenetic congruence between Platyrrhini and Angiosperms was driven by the most generalist primates, modulated by their functional traits, interacting with a wide-range of Angiosperms. Consistently similar eco-evolutionary dynamics seem to be operating irrespective of local assemblages, since co-phylogenetic signal emerged independently across three Neotropical regions. Our analysis supports the idea that macroevolutionary, coevolved patterns among interacting mutualistic partners are driven by super-generalist taxa. Trait convergence among multiple partners within multi-specific assemblages appears as a mechanism favouring these likely coevolved outcomes.
DOI: 10.5281/zenodo.5578593
title: Ecol-Lett_Fuzessy-et-al-2021_Phylogenetic_congruence_between_Neotropical_primates_and_plants

description: Data supporting the results in the Ecology Letters paper DOI: 10.1111/ele.13918: Title: Phylogenetic congruence between Neotropical primates and plants is driven by frugivory Authors: Fuzessy L (lfuzessy@gmail.com), Silveira F A, Culot L, Jordano P, Verdu M. Abstract: Seed dispersal benefits plants and frugivores, and potentially drives co-evolution, with consequences to diversification evidenced for e.g., primates. Evidence for macro-coevolutionary patterns in multi-specific, plant-animal mutualisms is scarce, and the mechanisms driving them remain unexplored. We tested for phylogenetic congruences in primate-plant interactions and showed strong co-phylogenetic signals across Neotropical forests, suggesting that both primates and plants share evolutionary history. Phylogenetic congruence between Platyrrhini and Angiosperms was driven by the most generalist primates, modulated by their functional traits, interacting with a wide-range of Angiosperms. Consistently similar eco-evolutionary dynamics seem to be operating irrespective of local assemblages, since co-phylogenetic signal emerged independently across three Neotropical regions. Our analysis supports the idea that macroevolutionary, coevolved patterns among interacting mutualistic partners are driven by super-generalist taxa. Trait convergence among multiple partners within multi-specific assemblages appears as a mechanism favouring these likely coevolved outcomes.
DOI: 10.25721/gnzf-ye18
title: Chers Mamie et Papi
DOI: 10.6084/m9.figshare.16902823
title: Source file Shahneh et al.xlsx

description: Source data file that contains the raw data underlying all graphs and charts presented in the figures
DOI: 10.6084/m9.figshare.16902823.v1
title: Source file Shahneh et al.xlsx

description: Source data file that contains the raw data underlying all graphs and charts presented in the figures
DOI: 10.25721/5mxm-wj08
title: A vous grands-parents
DOI: 10.25721/b8n2-qy84
title: Chers grands-parents
DOI: 10.6084/m9.figshare.16902844.v1
title: QC_result_patient.new.txt

description: QC result
DOI: 10.25721/j911-z064
title: Chers grands-parents
DOI: 10.5519/qd.r6h0khjw
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (1 records)
DOI: 10.25721/wcfv-t780
title: Plouf, plouf
DOI: 10.25721/tkx1-y279
title: Le bon Dieu a dit
DOI: 10.5281/zenodo.4970181
title: Bibliometric Analysis of Research on Boesenbergia Rotunda, Pinostrobin, and Their Derivatives using VOSviewer

description: Bibliometric Analysis of Research on <em>Boesenbergia Rotunda</em>, Pinostrobin, and Their Derivatives using VOSviewer
DOI: 10.5281/zenodo.4970180
title: Bibliometric Analysis of Research on Boesenbergia Rotunda, Pinostrobin, and Their Derivatives using VOSviewer

description: Bibliometric Analysis of Research on <em>Boesenbergia Rotunda</em>, Pinostrobin, and Their Derivatives using VOSviewer
DOI: 10.5281/zenodo.5614241
title: TripAdvisor hoteles y reviews de Barcelona

description: Datasets de hoteles y opiniones de hoteles en la ciudad de Barcelona, con información como el nombre del hotel, número de reviews de este, fecha de la review, texto de la review y puntuación dada.
DOI: 10.5281/zenodo.5614240
title: TripAdvisor hoteles y reviews de Barcelona

description: Datasets de hoteles y opiniones de hoteles en la ciudad de Barcelona, con información como el nombre del hotel, número de reviews de este, fecha de la review, texto de la review y puntuación dada.
DOI: 10.25721/rsrp-9q83
title: Une automobile
DOI: 10.3886/e153541v1
title: Prostitution Policy Worldwide: A Scoping Review

description: This dataset contains a scoping review of the field of prostitution policy worldwide.
DOI: 10.25721/21r4-zf47
title: Mi Gwadloup a nou cher
DOI: 10.25721/k4am-nw93
title: Mam'zell' Marie fermé po't'là
DOI: 10.6084/m9.figshare.12847945
title: Articulating the new urban water paradigm

description: Urban water systems in industrialized countries have underpinned unprecedented improvements in urban living standards through effective drinking water supply, sanitation and drainage. However, conventional urban water systems are increasingly regarded as too rigid and not sufficiently resilient to confront growing social, technological and environmental complexity and uncertainty, manifested, for example, in the maladaptation to climate change, depletion of nonrenewable resources, and degrading urban livability. In response, a new urban water paradigm has emerged in the last two decades within the context of a broader societal change that promotes a more organic worldview over the classical mechanistic and technocratic understanding of reality. This article develops and applies an analytical framework to coherently describe the new paradigm and contrast it with the old urban water paradigm. The framework includes a philosophical foundation and set of methodological principles that shape the new paradigm’s approach to governance, management, and infrastructure.
DOI: 10.6084/m9.figshare.12847945.v1
title: Articulating the new urban water paradigm

description: Urban water systems in industrialized countries have underpinned unprecedented improvements in urban living standards through effective drinking water supply, sanitation and drainage. However, conventional urban water systems are increasingly regarded as too rigid and not sufficiently resilient to confront growing social, technological and environmental complexity and uncertainty, manifested, for example, in the maladaptation to climate change, depletion of nonrenewable resources, and degrading urban livability. In response, a new urban water paradigm has emerged in the last two decades within the context of a broader societal change that promotes a more organic worldview over the classical mechanistic and technocratic understanding of reality. This article develops and applies an analytical framework to coherently describe the new paradigm and contrast it with the old urban water paradigm. The framework includes a philosophical foundation and set of methodological principles that shape the new paradigm’s approach to governance, management, and infrastructure.
DOI: 10.25721/h4jj-3g79
title: Réunion du club du troisième âge "Le temps de vivre de Basse-Terre à l'école du Carmel". "K'a zot tou ça ka gardé moin", monologue
DOI: 10.15151/esrf-es-571806055
title: Structural remodelling of photosynthetic membrane complexes

description: We aim at solving the structure of temporal supercomplexes formed around Photosystem I (PSI) during steady state and under stress conditions by the cryo EM technique. We will use thylakoid membranes isolated from green algae as the source for the membrane complexes. The membranes will be treated by a combination of detergents, developed in our laboratory, and the various complexes will be isolated using sucrose gradient. We will utilize membranes isolated from Chlamydomonas reinhardtii temperature-sensitive mutant developed in our laboratory. At permissive temperature the isolated complexes are indistinguishable from the wild-type organism. In the none-permissive temperature b6f disintegrated and its subunits are degraded. In this stage the organism utilizes exclusively PSI and the complexes relevant to cyclic phosphorylation are organized accordingly. This provides an unprecedented opportunity for structural determination of the relevant supercomplexes by the cryo EM technique.
DOI: 10.6084/m9.figshare.16902895
title: File S7 (separate file). Phylogenetic tree (Newick format) of Psu from To catch a hijacker: abundance, evolution and genetic diversity of P4-like bacteriophage satellites

description: Bacteriophages (phages) are bacterial parasites that can themselves be parasitized by phage satellites. The molecular mechanisms used by satellites to hijack phages are sometimes understood in great detail, but the origins, abundance, distribution and composition of these elements are poorly known. Here, we show that P4-like elements are present in more than 30% of the genomes of Enterobacterales, and in almost half of those of <i>Escherichia coli</i>, sometimes in multiple distinct copies. We identified over 1000 P4-like elements with very conserved genetic organization of the core genome and a few hotspots with highly variable genes. These elements are never found in plasmids and have very little homology to known phages, suggesting an independent evolutionary origin. Instead, they are scattered across chromosomes, possibly because their integrases are often exchanged with other elements. The rooted phylogenies of hijacking functions are correlated and suggest longstanding coevolution. They also reveal broad host ranges in P4-like elements, since almost identical elements can be found in distinct bacterial genera. Our results show that P4-like phage satellites constitute a very distinct, widespread and ancient family of mobile genetic elements. They pave the way for studying the molecular evolution of antagonistic interactions between phages and their satellites.This article is part of the theme issue ‘The secret lives of microbial mobile genetic elements’.
DOI: 10.6084/m9.figshare.16902901
title: File S3 (separate file). Phylogenetic tree (Newick format) of the alpA nucleotide sequence alignments from To catch a hijacker: abundance, evolution and genetic diversity of P4-like bacteriophage satellites

description: Bacteriophages (phages) are bacterial parasites that can themselves be parasitized by phage satellites. The molecular mechanisms used by satellites to hijack phages are sometimes understood in great detail, but the origins, abundance, distribution and composition of these elements are poorly known. Here, we show that P4-like elements are present in more than 30% of the genomes of Enterobacterales, and in almost half of those of <i>Escherichia coli</i>, sometimes in multiple distinct copies. We identified over 1000 P4-like elements with very conserved genetic organization of the core genome and a few hotspots with highly variable genes. These elements are never found in plasmids and have very little homology to known phages, suggesting an independent evolutionary origin. Instead, they are scattered across chromosomes, possibly because their integrases are often exchanged with other elements. The rooted phylogenies of hijacking functions are correlated and suggest longstanding coevolution. They also reveal broad host ranges in P4-like elements, since almost identical elements can be found in distinct bacterial genera. Our results show that P4-like phage satellites constitute a very distinct, widespread and ancient family of mobile genetic elements. They pave the way for studying the molecular evolution of antagonistic interactions between phages and their satellites.This article is part of the theme issue ‘The secret lives of microbial mobile genetic elements’.
DOI: 10.6084/m9.figshare.16902904.v1
title: File S1 (separate file). Table with all the 1037 P4-like sets (Types A, B and C) found in bacterial genomes from To catch a hijacker: abundance, evolution and genetic diversity of P4-like bacteriophage satellites

description: Bacteriophages (phages) are bacterial parasites that can themselves be parasitized by phage satellites. The molecular mechanisms used by satellites to hijack phages are sometimes understood in great detail, but the origins, abundance, distribution and composition of these elements are poorly known. Here, we show that P4-like elements are present in more than 30% of the genomes of Enterobacterales, and in almost half of those of <i>Escherichia coli</i>, sometimes in multiple distinct copies. We identified over 1000 P4-like elements with very conserved genetic organization of the core genome and a few hotspots with highly variable genes. These elements are never found in plasmids and have very little homology to known phages, suggesting an independent evolutionary origin. Instead, they are scattered across chromosomes, possibly because their integrases are often exchanged with other elements. The rooted phylogenies of hijacking functions are correlated and suggest longstanding coevolution. They also reveal broad host ranges in P4-like elements, since almost identical elements can be found in distinct bacterial genera. Our results show that P4-like phage satellites constitute a very distinct, widespread and ancient family of mobile genetic elements. They pave the way for studying the molecular evolution of antagonistic interactions between phages and their satellites.This article is part of the theme issue ‘The secret lives of microbial mobile genetic elements’.
DOI: 10.6084/m9.figshare.16902895.v1
title: File S7 (separate file). Phylogenetic tree (Newick format) of Psu from To catch a hijacker: abundance, evolution and genetic diversity of P4-like bacteriophage satellites

description: Bacteriophages (phages) are bacterial parasites that can themselves be parasitized by phage satellites. The molecular mechanisms used by satellites to hijack phages are sometimes understood in great detail, but the origins, abundance, distribution and composition of these elements are poorly known. Here, we show that P4-like elements are present in more than 30% of the genomes of Enterobacterales, and in almost half of those of <i>Escherichia coli</i>, sometimes in multiple distinct copies. We identified over 1000 P4-like elements with very conserved genetic organization of the core genome and a few hotspots with highly variable genes. These elements are never found in plasmids and have very little homology to known phages, suggesting an independent evolutionary origin. Instead, they are scattered across chromosomes, possibly because their integrases are often exchanged with other elements. The rooted phylogenies of hijacking functions are correlated and suggest longstanding coevolution. They also reveal broad host ranges in P4-like elements, since almost identical elements can be found in distinct bacterial genera. Our results show that P4-like phage satellites constitute a very distinct, widespread and ancient family of mobile genetic elements. They pave the way for studying the molecular evolution of antagonistic interactions between phages and their satellites.This article is part of the theme issue ‘The secret lives of microbial mobile genetic elements’.
DOI: 10.6084/m9.figshare.16902901.v1
title: File S3 (separate file). Phylogenetic tree (Newick format) of the alpA nucleotide sequence alignments from To catch a hijacker: abundance, evolution and genetic diversity of P4-like bacteriophage satellites

description: Bacteriophages (phages) are bacterial parasites that can themselves be parasitized by phage satellites. The molecular mechanisms used by satellites to hijack phages are sometimes understood in great detail, but the origins, abundance, distribution and composition of these elements are poorly known. Here, we show that P4-like elements are present in more than 30% of the genomes of Enterobacterales, and in almost half of those of <i>Escherichia coli</i>, sometimes in multiple distinct copies. We identified over 1000 P4-like elements with very conserved genetic organization of the core genome and a few hotspots with highly variable genes. These elements are never found in plasmids and have very little homology to known phages, suggesting an independent evolutionary origin. Instead, they are scattered across chromosomes, possibly because their integrases are often exchanged with other elements. The rooted phylogenies of hijacking functions are correlated and suggest longstanding coevolution. They also reveal broad host ranges in P4-like elements, since almost identical elements can be found in distinct bacterial genera. Our results show that P4-like phage satellites constitute a very distinct, widespread and ancient family of mobile genetic elements. They pave the way for studying the molecular evolution of antagonistic interactions between phages and their satellites.This article is part of the theme issue ‘The secret lives of microbial mobile genetic elements’.
DOI: 10.6084/m9.figshare.16902904
title: File S1 (separate file). Table with all the 1037 P4-like sets (Types A, B and C) found in bacterial genomes from To catch a hijacker: abundance, evolution and genetic diversity of P4-like bacteriophage satellites

description: Bacteriophages (phages) are bacterial parasites that can themselves be parasitized by phage satellites. The molecular mechanisms used by satellites to hijack phages are sometimes understood in great detail, but the origins, abundance, distribution and composition of these elements are poorly known. Here, we show that P4-like elements are present in more than 30% of the genomes of Enterobacterales, and in almost half of those of <i>Escherichia coli</i>, sometimes in multiple distinct copies. We identified over 1000 P4-like elements with very conserved genetic organization of the core genome and a few hotspots with highly variable genes. These elements are never found in plasmids and have very little homology to known phages, suggesting an independent evolutionary origin. Instead, they are scattered across chromosomes, possibly because their integrases are often exchanged with other elements. The rooted phylogenies of hijacking functions are correlated and suggest longstanding coevolution. They also reveal broad host ranges in P4-like elements, since almost identical elements can be found in distinct bacterial genera. Our results show that P4-like phage satellites constitute a very distinct, widespread and ancient family of mobile genetic elements. They pave the way for studying the molecular evolution of antagonistic interactions between phages and their satellites.This article is part of the theme issue ‘The secret lives of microbial mobile genetic elements’.