cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.7284/107367
title: Singlebeam Echosounder data collected during research cruise EN496 using a Knudsen 320B/R instrument system onboard the platform RV Endeavor

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/108752
title: Speedlog data collected during research cruise EN496 using a EDO MRQ-4015D instrument system onboard the platform RV Endeavor

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/108751
title: TSG (Thermosalinograph) data collected during research cruise EN496 using a Sea-Bird SBE-45 instrument system onboard the platform RV Endeavor

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7638353
title: Jacques Bertin’s legacy and continuing impact for cartography

description: Jacques Bertin’s legacy and continuing impact for cartography
DOI: 10.7284/108753
title: TSG (Thermosalinograph) data collected during research cruise EN496 using a Sea-Bird SBE-21 instrument system onboard the platform RV Endeavor

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7638353.v1
title: Jacques Bertin’s legacy and continuing impact for cartography

description: Jacques Bertin’s legacy and continuing impact for cartography
DOI: 10.7284/107263
title: Winch data collected during research cruise EN496 using a Markey DUSH-5 instrument system onboard the platform RV Endeavor

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7638266
title: Prenatal stress decreases sperm quality, mature follicles and fertility in rats

description: Prenatal stress disrupts reproductive function in females and males. These alterations have primarily been related to maternal corticosteroid fetal programming due to the stress response, affecting the fetus and causing long-lasting effects. The aim of this study was to investigate the influence of prenatal stress on male and female fertility. Dams were exposed to stress by immersion in cold water twice a day for the last week of gestation (days 15–21). In the adulthood, sperm quality, mature follicles, sexual hormones and fertility were assessed in female and male progeny. The results in prenatally stressed females showed lower body weight, longer estrous cycles, lower estradiol and progesterone, and lower number of pups. In prenatally stressed males, lower body weight, increased testicular cell death, as well as decreased testosterone levels, sperm quality, and fertility were observed. Aside from these effects, corticosterone levels in prenatally stressed males and females increased. These results show that prenatal stress can markedly influence infertility in adult female and male progeny. <b>Abbreviations</b>: 3β-HSD: 3β hydroxysteroid dehydrogenase; CRH: corticotropin releasing hormone; DEX: dexamethasone; ERα: estrogen receptor alpha; H-E: hematoxylin-eosine; HPA: hypothalamus-pituitary-adrenal; KISS: Kisspeptin; ORW: ovarian relative weight; PBS: phosphates; PS: prenatally stressed; PRW: prostatic relative weight; ROS: reactive oxygen species; SRW: seminal relative weight; TdT: terminal deoxynucleotidyl transferase; TUNEL: terminal deoxynucleotidyl transferase dUTP Nick-end labelling; TRW: testicular relative weight; URW: uterine relative weight
DOI: 10.6084/m9.figshare.7638266.v1
title: Prenatal stress decreases sperm quality, mature follicles and fertility in rats

description: Prenatal stress disrupts reproductive function in females and males. These alterations have primarily been related to maternal corticosteroid fetal programming due to the stress response, affecting the fetus and causing long-lasting effects. The aim of this study was to investigate the influence of prenatal stress on male and female fertility. Dams were exposed to stress by immersion in cold water twice a day for the last week of gestation (days 15–21). In the adulthood, sperm quality, mature follicles, sexual hormones and fertility were assessed in female and male progeny. The results in prenatally stressed females showed lower body weight, longer estrous cycles, lower estradiol and progesterone, and lower number of pups. In prenatally stressed males, lower body weight, increased testicular cell death, as well as decreased testosterone levels, sperm quality, and fertility were observed. Aside from these effects, corticosterone levels in prenatally stressed males and females increased. These results show that prenatal stress can markedly influence infertility in adult female and male progeny. <b>Abbreviations</b>: 3β-HSD: 3β hydroxysteroid dehydrogenase; CRH: corticotropin releasing hormone; DEX: dexamethasone; ERα: estrogen receptor alpha; H-E: hematoxylin-eosine; HPA: hypothalamus-pituitary-adrenal; KISS: Kisspeptin; ORW: ovarian relative weight; PBS: phosphates; PS: prenatally stressed; PRW: prostatic relative weight; ROS: reactive oxygen species; SRW: seminal relative weight; TdT: terminal deoxynucleotidyl transferase; TUNEL: terminal deoxynucleotidyl transferase dUTP Nick-end labelling; TRW: testicular relative weight; URW: uterine relative weight
DOI: 10.7284/107266
title: ADCP (Acoustic Doppler Current Profiler) data collected during research cruise EN497 using a Hawaii UHDAS instrument system onboard the platform RV Endeavor

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7638272.v1
title: Comparative transcriptomics in <i>Leishmania braziliensis</i>: disclosing differential gene expression of coding and putative noncoding RNAs across developmental stages

description: Leishmaniasis is a worldwide public health problem caused by protozoan parasites of the genus <i>Leishmania. Leishmania braziliensis</i> is the most important species responsible for tegumentary leishmaniases in Brazil. An understanding of the molecular mechanisms underlying the success of this parasite is urgently needed. An in-depth study on the modulation of gene expression across the life cycle stages of <i>L. braziliensis</i> covering coding and noncoding RNAs (ncRNAs) was missing and is presented herein. Analyses of differentially expressed (DE) genes revealed that most prominent differences were observed between the transcriptomes of insect and mammalian proliferative forms (6,576 genes). Gene ontology (GO) analysis indicated stage-specific enriched biological processes. A computational pipeline and 5 ncRNA predictors allowed the identification of 11,372 putative ncRNAs. Most of the DE ncRNAs were found between the transcriptomes of insect and mammalian proliferative stages (38%). Of the DE ncRNAs, 295 were DE in all three stages and displayed a wide range of lengths, chromosomal distributions and locations; many of them had a distinct expression profile compared to that of their protein-coding neighbors. Thirty-five putative ncRNAs were submitted to northern blotting analysis, and one or more hybridization-positive signals were observed in 22 of these ncRNAs. This work presents an overview of the <i>L. braziliensis</i> transcriptome and its adjustments throughout development. In addition to determining the general features of the transcriptome at each life stage and the profile of protein-coding transcripts, we identified and characterized a variety of noncoding transcripts. The novel putative ncRNAs uncovered in <i>L. braziliensis</i> might be regulatory elements to be further investigated.
DOI: 10.7284/107371
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise EN497 using a Sea-Bird SBE-911+ instrument system onboard the platform RV Endeavor

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/108760
title: Fluorometer data collected during research cruise EN497 using a Turner 10-AU instrument system onboard the platform RV Endeavor

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/103262
title: GNSS (Global Navigation Satellite System) data collected during research cruise EN497 using a Northstar 952 instrument system onboard the platform RV Endeavor

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7638206
title: Proteogenomics in the context of the Human Proteome Project (HPP)

description: <b>Introduction</b>: The technological and scientific progress performed in the Human Proteome Project (HPP) has provided to the scientific community a new set of experimental and bioinformatic methods in the challenging field of shotgun and SRM/MRM-based Proteomics. The requirements for a protein to be considered experimentally validated are now well-established, and the information about the human proteome is available in the neXtProt database, while targeted proteomic assays are stored in SRMAtlas. However, the study of the missing proteins continues being an outstanding issue. <b>Areas covered</b>: This review is focused on the implementation of proteogenomic methods designed to improve the detection and validation of the missing proteins. The evolution of the methodological strategies based on the combination of different omic technologies and the use of huge publicly available datasets is shown taking the Chromosome 16 Consortium as reference. <b>Expert commentary</b>: Proteogenomics and other strategies of data analysis implemented within the C-HPP initiative could be used as guidance to complete in a near future the catalog of the human proteins. Besides, in the next years, we will probably witness their use in the B/D-HPP initiative to go a step forward on the implications of the proteins in the human biology and disease.
DOI: 10.7284/107369
title: GNSS (Global Navigation Satellite System) data collected during research cruise EN497 using a Furuno GP-90D instrument system onboard the platform RV Endeavor

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7638206.v1
title: Proteogenomics in the context of the Human Proteome Project (HPP)

description: <b>Introduction</b>: The technological and scientific progress performed in the Human Proteome Project (HPP) has provided to the scientific community a new set of experimental and bioinformatic methods in the challenging field of shotgun and SRM/MRM-based Proteomics. The requirements for a protein to be considered experimentally validated are now well-established, and the information about the human proteome is available in the neXtProt database, while targeted proteomic assays are stored in SRMAtlas. However, the study of the missing proteins continues being an outstanding issue. <b>Areas covered</b>: This review is focused on the implementation of proteogenomic methods designed to improve the detection and validation of the missing proteins. The evolution of the methodological strategies based on the combination of different omic technologies and the use of huge publicly available datasets is shown taking the Chromosome 16 Consortium as reference. <b>Expert commentary</b>: Proteogenomics and other strategies of data analysis implemented within the C-HPP initiative could be used as guidance to complete in a near future the catalog of the human proteins. Besides, in the next years, we will probably witness their use in the B/D-HPP initiative to go a step forward on the implications of the proteins in the human biology and disease.
DOI: 10.7284/111961
title: GNSS (Global Navigation Satellite System) data collected during research cruise EN497 using a Trimble NT-300D instrument system onboard the platform RV Endeavor

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7638113
title: A diverse new spider (Araneae) fauna from the Jinju Formation, Cretaceous (Albian) of Korea

description: A collection of spiders from the Cretaceous (Albian) Jinju Formation of Korea is described. These finds increase the number of known spiders from the Jinju Formation from one to 11. There is considerable diversity of mygalomorphs and araneomorphs, including palpimanoids (including lagonomegopids), as well as cribellate and ecribellate entelegynes. Such diversity among so few specimens hints that an even greater range of families will come to light as more specimens are discovered in the future. The first non-amber Lagonomegopidae are described, with the first preservation of a spider eye tapetum in the fossil record, providing evidence for lagonomegopid enlarged eyes being posterior medians. The female-biased sex ratio of lagonomegopids is discussed and it is concluded that the bias is fortuitous. http://zoobank.org/urn:lsid:zoobank.org:pub:7926A54F-1B64-417E-91B4-027FAFCC8C0A
DOI: 10.6084/m9.figshare.7638110
title: <i>In situ</i> acetylation dispersive liquid–liquid microextraction followed by gas chromatography–mass spectrometry for the simultaneous determination of musks, triclosan and methyl-triclosan in wastewaters

description: A rapid and environmental-friendly analytical method for the simultaneous analysis of different personal care products (PCPs) namely synthetic musks (nitro-, polycyclic and macrocyclic musks) and the disinfectant triclosan (TCS) and its transformation product methyl-TCS in wastewater samples has been developed. The method combines dispersive liquid–liquid microextraction with <i>in situ</i> aqueous derivatisation using acetic anhydride (Ac2O) prior to gas chromatography–mass spectrometry analysis. Several parameters affecting both extraction and derivatisation efficiency (e.g. type and volume of extractor and dispersive solvents, volume of derivatising reagent, etc.) were optimised to achieve reliable conditions. Validation of the method for all compounds under study showed good linearity with coefficient of correlation &gt; 0.9947. Limits of quantification (LOQs) ranged between 2 and 72 ng/L for musks and 28 and 31 ng/L for TCS and methyl-TCS, respectively. Accuracy, expressed as the average recoveries, ranged between 76% and 87%, and precision, expressed in terms of intraday repeatability (%RSD), was better than 13% for all analytes. The application of the method to the analysis of 24 wastewater samples enabled the detection of all the target PCPs at concentration levels up to 2.7 μg/L, being galaxolide (HHCB) and tonalide (AHTN) the more prevalent, present in 88% and 46% of the samples, respectively.
DOI: 10.7284/108755
title: Gyrocompass data collected during research cruise EN497 using a Sperry MK-37 instrument system onboard the platform RV Endeavor

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7638110.v1
title: <i>In situ</i> acetylation dispersive liquid–liquid microextraction followed by gas chromatography–mass spectrometry for the simultaneous determination of musks, triclosan and methyl-triclosan in wastewaters

description: A rapid and environmental-friendly analytical method for the simultaneous analysis of different personal care products (PCPs) namely synthetic musks (nitro-, polycyclic and macrocyclic musks) and the disinfectant triclosan (TCS) and its transformation product methyl-TCS in wastewater samples has been developed. The method combines dispersive liquid–liquid microextraction with <i>in situ</i> aqueous derivatisation using acetic anhydride (Ac2O) prior to gas chromatography–mass spectrometry analysis. Several parameters affecting both extraction and derivatisation efficiency (e.g. type and volume of extractor and dispersive solvents, volume of derivatising reagent, etc.) were optimised to achieve reliable conditions. Validation of the method for all compounds under study showed good linearity with coefficient of correlation &gt; 0.9947. Limits of quantification (LOQs) ranged between 2 and 72 ng/L for musks and 28 and 31 ng/L for TCS and methyl-TCS, respectively. Accuracy, expressed as the average recoveries, ranged between 76% and 87%, and precision, expressed in terms of intraday repeatability (%RSD), was better than 13% for all analytes. The application of the method to the analysis of 24 wastewater samples enabled the detection of all the target PCPs at concentration levels up to 2.7 μg/L, being galaxolide (HHCB) and tonalide (AHTN) the more prevalent, present in 88% and 46% of the samples, respectively.
DOI: 10.6084/m9.figshare.7638113.v2
title: A diverse new spider (Araneae) fauna from the Jinju Formation, Cretaceous (Albian) of Korea

description: A collection of spiders from the Cretaceous (Albian) Jinju Formation of Korea is described. These finds increase the number of known spiders from the Jinju Formation from one to 11. There is considerable diversity of mygalomorphs and araneomorphs, including palpimanoids (including lagonomegopids), as well as cribellate and ecribellate entelegynes. Such diversity among so few specimens hints that an even greater range of families will come to light as more specimens are discovered in the future. The first non-amber Lagonomegopidae are described, with the first preservation of a spider eye tapetum in the fossil record, providing evidence for lagonomegopid enlarged eyes being posterior medians. The female-biased sex ratio of lagonomegopids is discussed and it is concluded that the bias is fortuitous. http://zoobank.org/urn:lsid:zoobank.org:pub:7926A54F-1B64-417E-91B4-027FAFCC8C0A
DOI: 10.7284/108756
title: Gyrocompass data collected during research cruise EN497 using a Sperry MK-37 instrument system onboard the platform RV Endeavor

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7638113.v1
title: A diverse new spider (Araneae) fauna from the Jinju Formation, Cretaceous (Albian) of Korea

description: A collection of spiders from the Cretaceous (Albian) Jinju Formation of Korea is described. These finds increase the number of known spiders from the Jinju Formation from one to 11. There is considerable diversity of mygalomorphs and araneomorphs, including palpimanoids (including lagonomegopids), as well as cribellate and ecribellate entelegynes. Such diversity among so few specimens hints that an even greater range of families will come to light as more specimens are discovered in the future. The first non-amber Lagonomegopidae are described, with the first preservation of a spider eye tapetum in the fossil record, providing evidence for lagonomegopid enlarged eyes being posterior medians. The female-biased sex ratio of lagonomegopids is discussed and it is concluded that the bias is fortuitous. http://zoobank.org/urn:lsid:zoobank.org:pub:7926A54F-1B64-417E-91B4-027FAFCC8C0A
DOI: 10.6084/m9.figshare.7638134.v1
title: Travel time to cities and ports in the year 2015

description: travel_time_to_cities_x.tif (x has values from 1 to 12)The value of each pixel is the estimated travel time in minutes to the nearest urban area in 2015. There are 12 data layers based on different sets of urban areas, defined by their population in year 2015 (see PDF report).<br><br>travel_time_to_ports_x (x ranges from 1 to 5)<br>The value of each pixel is the estimated travel time to the nearest port in 2015. There are 5 data layers based on different port sizes.<br><br>FormatRaster Dataset, GeoTIFF, LZW compressed<br><br>UnitMinutes<br><br>Data typeByte (16 bit Unsigned Integer)<br><br>No data value65535<br><br>FlagsNone<br><br>Spatial resolution30 arc seconds<br><br>Spatial extentUpper left -180, 85<br>Lower left -180, -60Upper right 180, 85Lower right 180, -60<br>Spatial Reference System (SRS)EPSG:4326 - WGS84 - Geographic Coordinate System (lat/long)<br>Temporal resolution2015<br>Temporal extentUpdates may follow for future years, but these are dependent on the availability of updated inputs on travel times and city locations and populations.<br>MethodologyTravel time to the nearest city or port was estimated using an accumulated cost function (accCost) in the gdistance R package (van Etten, 2018). This function requires two input datasets: (i) a set of locations to estimate travel time to and (ii) a transition matrix that represents the cost or time to travel across a surface. The set of locations were based on populated urban areas in the 2016 version of the Joint Research Centre’s Global Human Settlement Layers (GHSL) datasets (Pesaresi and Freire, 2016) that represent low density (LDC) urban clusters and high density (HDC) urban areas (https://ghsl.jrc.ec.europa.eu/datasets.php). These urban areas were represented by points, spaced at 1km distance around the perimeter of each urban area.<br>Marine ports were extracted from the 26th edition of the World Port Index (NGA, 2017) which contains the location and physical characteristics of approximately 3,700 major ports and terminals. Ports are represented as single points<br>The transition matrix was based on the friction surface (https://map.ox.ac.uk/research-project/accessibility_to_cities) from the 2015 global accessibility map (Weiss et al, 2018). The R code used to generate the 12 travel time maps is included in the report “A suite of global accessibility indicators for sustainable rural development” (Nelson, 2019) that can be downloaded with these data layers.<br>
DOI: 10.7284/107370
title: Singlebeam Echosounder data collected during research cruise EN497 using a Knudsen 320B/R instrument system onboard the platform RV Endeavor

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7638026
title: R script

description: Script used to assess convergence of Migrate-n analyses, using R.<br>
DOI: 10.6084/m9.figshare.7638047
title: Air pollution, respiratory illness and behavioral adaptation: evidence from South Korea

description: Dataset and Figures for the paper "Air pollution, respiratory illness and behavioral adaptation: evidence from South Korea" by Tackseung Jun and In-sik Min
DOI: 10.7284/108758
title: Speedlog data collected during research cruise EN497 using a EDO MRQ-4015D instrument system onboard the platform RV Endeavor

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7638026.v1
title: R script

description: Script used to assess convergence of Migrate-n analyses, using R.<br>
DOI: 10.6084/m9.figshare.7638008
title: Non-hyperdiverse mtDNA dataset B

description: Same DNA sequence alignment as dataset A, including 399 concatenated sequences of the partial gene fragments of the 16S, COI and Cytb genes, but shorter length (1429 base pairs). From 399 specimens of <i>Melarhaphe neritoides</i> collected in the Azores archipelago, Spain, Portugal, Scotland and Rhodes.<br>
DOI: 10.6084/m9.figshare.7638017
title: Electronic Supplementary Material: Range expansion of the Common Dwarf Gecko, Lygodactylus capensis: South Africa’s most successful reptile invader

description: Extralimital records of<i> </i><i>Lygodactylus capensis</i> in South Africa
DOI: 10.6084/m9.figshare.7638017.v1
title: Electronic Supplementary Material: Range expansion of the Common Dwarf Gecko, Lygodactylus capensis: South Africa’s most successful reptile invader

description: Extralimital records of<i> </i><i>Lygodactylus capensis</i> in South Africa
DOI: 10.7284/108757
title: TSG (Thermosalinograph) data collected during research cruise EN497 using a Sea-Bird SBE-45 instrument system onboard the platform RV Endeavor

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.17028/rd.lboro.7637921
title: Rate dependency of incremental capacity analysis (dQ/dV) as a diagnostic tool for lithium-ion batteries (supplementary information)

description: Underlying data using in the publication "Rate dependency of incremental capacity analysis (dQ/dV) as a diagnostic tool for lithium-ion batteries". Data is in the form of MATLAB data files and figures <br>
DOI: 10.6084/m9.figshare.7637951
title: Hyperdiverse mtDNA dataset A

description: DNA sequence alignment of 399 concatenated sequences of the partial gene fragments of the 16S, COI and Cytb genes. 1775 base pairs. From 399 specimens collected in the Azores archipelago, Spain, Portugal, Scotland and Rhodes.<br>