cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15470/oaffix
title: Long-term monitoring of the relative density of genus Felis with track counts in Do?ana National Park 2007-2022

description: The long-term monitoring of carnivore tracks in Do?ana is part of a harmonised protocol for the Long-term Ecological Monitoring Program of Natural Resources and Processes targeting mammals' populations. The general aim of this protocol is to study the temporal evolution of the relative density of the main species of carnivores in the main habitats of the Do?ana National Park. Tracks surveys were done annually after the first rains of the hydrological year, i.e. the first autumn rains, usually in October. Due to climate change, in recent years the rainy season has been delayed until the beginning of the year. This protocol has stablished in 2007 and it has done annually until the present (2022), except in 2021 when due to logistical problems no census was made. Censuses are carried out through 12 prefixed transects, with sand substrate, in Do?ana National Park. Each transect consists of a 2 km of length and 1.5 m of width that is done by a car at a constant speed between 10 and 15 km/h. Transects are cleaned the day before of the census with a metal beam to facilitate the read of the tracks and to ensure that the foot prints were from the previous day. Each transect is repeated in three consecutive days, and during the transect the sand is cleaned for the next day. In the census an expert in mammals? tracks identifies all the tracks, i.e. groups of carnivore foot prints, and he/she records them in Cybertracker. That way, tracks' information like coordinates, hour, species identification and observation was recorded; and also the information of each transect was recorded: surveyors, drivers, date, start and end (hour and coordinates). This method enables to calculate Kilometric Abundance Indexes (KAI) for each species and transect. In order to clarify all carnivore datasets, the data was separated by species, this allows concrete analysis by species. In this dataset Felis genus? data is presented.
DOI: 10.15470/kffxc0
title: Checklist of the Crambidae of the Region of Murcia (Spain) with new records (Lepidoptera: Pyraloidea, Crambidae)

description: The Murcia Region (Southeastern Iberian Peninsula) has a great diversity of Lepidopteran fauna, as a zoogeographical crossroads and biodiversity hotspot. A list of Crambidae moths (Lepidoptera: Pyraloidea) is synthesised based on an examination of museum specimens, published records and new samples. In total, 9 subfamilies, Acentropinae, Crambinae, Cybalomiinae, Evergestinae, Scopariinae, Glaphyriinae, Odontiinae, Pyraustinae and Spilomeninae, 50 genera and 106 species have been recorded of which forty nine species are newly recorded for the Murcia region.
DOI: 10.15468/du6nyg
title: EDP Foz-Tua: American Mink (Neovison vison) (transects) - Ecological Monitoring Program (2018-20)

description: The dataset contains records of American Mink (Neovison vison, Mammalia) collected in the river Tua sub-basin and included in the Ecological Monitoring Program (2018-20) of the Environmental Impact Assessment of the Foz Tua Hydroelectric Dam, promoted by EDP – Energias de Portugal, S.A. Data were collected between July 2018 and July 2020 during field visits to 20 sampling transects in the riverbeds of the selected water lines with favourable habitats in the river Tua sub-basin. The presence of individuals was recorded by direct observation of signs (scats and/or footprints). No evidence of the species presence was detected in the surveyed plots.
DOI: 10.15468/ny1f9n
title: Land and freshwater molluscs of Gran Canaria (Spain)

description: The Canary Islands (Spain) are an archipelago of the coast of northwest Africa. Gran Canaria is the third-largest island and located in the centre (Carracedo & Troll, 2016). The island contains a number endemic land snail species (e.g. Brito & Fraga, 2010). Freshwater molluscs are of smaller significance, but are also present. The research of land and freshwater molluscs of the Canaries mainly goes back to the 19th century with the famous works of Webb & Berthelot (1833), Shuttleworth (1852a, 1852b), Mousson (1872), Wollaston (1878), Mabille (1884), Odhner (1931), and others. Recent checklists are available (Groh, 1985; Bank et al., 2002; Brito & Fraga, 2010; Helixebas, 2019) and some more recent papers are cited further in this article. Nevertheless, taxonomic research is still largely based on these old works and many species were never found again since their description or the ecology or proper range is not known. This, together with the threats of global warming (Luque et al., 2013) and the increase of demographic and touristic pressure (Ibáñez et al., 1997) could (and probably already has) detrimental consequences for the survival of these species (see also the assessments on https://www.iucnredlist.org/). Therefore, there is an urgent need for information on ecology, distribution and taxonomy. “Land and freshwater molluscs of Gran Canaria (Spain)” is an occurrence dataset containing 389 observations of 62 different taxa of land and freshwater molluscs encountered on Gran Canaria, an island central in the Canarian archipelago (Spain). Various sites were inspected in a period between 1988 to 2020. The aim is to contribute to the knowledge on the ecology and distribution of these species on the island such that it may aid conservation and research of these organisms in the future. The dataset is published as a standardized Darwin Core Archive and includes for each observation a stable occurrenceID, scientific name, date, and location of the observation, as well as info on lifeStage and organismQuantity, and supplementary remarks on the determination and the observation itself. We have released this dataset to the public domain under a CC0 1.0 Universal (CC0 1.0) Public Domain Dedication (https://creativecommons.org/publicdomain/zero/1.0/).
DOI: 10.15468/uk1hlz
title: Aquatic Hyphomycetes from insular streams (Madeira, Portugal)

description: This dataset presente the distribution of aquatic hyphomycetes in Madeira island streams.
DOI: 10.15468/8bwk66
title: EDP Foz-Tua: Phytobenthos – Ecological Monitoring Program – Exploration Phase [2018-2020]

description: The dataset contains records of Phytobenthos (Diatoms) collected in the watershed of River Tua, and included in the Ecological Monitoring Program of the Environmental Impact Assessment of the Foz Tua Hydroelectric Dam, promoted by EDP – Energias de Portugal, S.A. Data were collected in the springs of 2018-2020 during field visits to two sampling points, upstream the reservoir, in rivers Tua and Tinhela. The first phase of the Ecological Monitoring Program (2018-2020) aims to evaluate the impacts of dam exploration in the water quality of the river. The occurrence of the target taxa was documented through 4777 records of species presence and number of individuals (valve counts).
DOI: 10.15470/yinvps
title: Winter bird censuses in pine processionary moth (Thaumetopoea pityocampa) monitoring plots

description: This dataset contains censuses of winter birds performed in a series of pine forest plots distributed throughout the Granada province (SE Spain). The plots are part of a monitoring network to study the phenology and intensity of defoliation by pine processionary moth (Thaumetopoea pityocampa), a lepidopteran that occasionally causes severe defoliation in Mediterranean pine forests. Although the initial objective is to seek for a relationship between the presence and abundance of pine processionary moth and birds that can potentially feed on it, the data can be useful for other purposes.
DOI: 10.15468/vmtzeu
title: EDP Foz-Tua: Pyrenean Desman (Galemys pyrenaicus) - Ecological Monitoring Program (2017-2020)

description: The dataset contains records of Pyrenean desman (Galemys pyrenaicus, Mammalia) collected in the River Tua sub-basin and included in the Ecological Monitoring Program (2011-17) of the Environmental Impact Assessment of the Foz Tua Hydroelectric Dam, promoted by EDP – Energias de Portugal, S.A. Data were collected between November 2017 and September 2020 during field visits to 15 sampling transects in the riverbeds of the selected water lines with favourable habitats for the species. The presence of individuals was recorded by direct observation of signs (scats and/or footprints).
DOI: 10.5281/zenodo.10721180
title: Supplementary Table Chapter 4 - Coco Duizer

description: Supplementary Table Chapter 4 - Coco Duizer

Table S2. DEG ORA HT29 ADP-heptose.Differentially expressed genes (DEG) in HT-29 cells after stimulation with ADP-heptose as calculated using DESeq2. Genes with a minimum fold-change of 2 with a false discovery rate of 0.05 as calculated by Benjamini-Hochberg correction are shown. Upregulated genes are shown in green, downregulated genes are shown in red. Differentially regulated pathways and genesets as calculated by KEGG or MSigDB over-representation (ORA) analysis in HT-29 cells following stimulation with ADP-heptose. Genes with a minimum fold-change of 1 with a false discovery rate of 0.05 as calculated by Benjamini-Hochberg correction are included. Pathways and geneset with an adjusted p value of <0.05 are shown.
DOI: 10.5281/zenodo.10695789
title: Supplementary Table Chapter 4 - Coco Duizer

description: Supplementary Table Chapter 4 - Coco Duizer

Table S2. DEG ORA HT29 ADP-heptose.Differentially expressed genes (DEG) in HT-29 cells after stimulation with ADP-heptose as calculated using DESeq2. Genes with a minimum fold-change of 2 with a false discovery rate of 0.05 as calculated by Benjamini-Hochberg correction are shown. Upregulated genes are shown in green, downregulated genes are shown in red. Differentially regulated pathways and genesets as calculated by KEGG or MSigDB over-representation (ORA) analysis in HT-29 cells following stimulation with ADP-heptose. Genes with a minimum fold-change of 1 with a false discovery rate of 0.05 as calculated by Benjamini-Hochberg correction are included. Pathways and geneset with an adjusted p value of <0.05 are shown.
DOI: 10.5281/zenodo.10695790
title: Supplementary Table Chapter 4 - Coco Duizer

description: Supplementary Table Chapter 4 - Coco Duizer

Table S1. DEG_ORA HT29 ADP-heptose.Differentially expressed genes in HT-29 cells after stimulation with ADP-heptose as calculated using DESeq2. Genes with a minimum fold-change of 2 with a false discovery rate of 0.05 as calculated by Benjamini-Hochberg correction are shown. Upregulated genes are shown in green, downregulated genes are shown in red. Differentially regulated pathways and genesets as calculated by KEGG or MSigDB over-representation (ORA) analysis in HT-29 cells following stimulation with ADP-heptose. Genes with a minimum fold-change of 1 with a false discovery rate of 0.05 as calculated by Benjamini-Hochberg correction are included. Pathways and geneset with an adjusted p value of <0.05 are shown.
DOI: 10.15468/6zz3yp
title: Standardised sampling of odonates (Odonata) in Serra da Estrela (Portugal) - 2013 and 2014

description: Mountain ecosystems are crucial for biodiversity conservation since they host high biodiversity. This study reports novel information on odonate species diversity, distribution and abundance from Serra da Estrela Natural Park (Portugal). Twenty six odonate species were sampled in this protected area, including the first finding of Macromia splendens (Pictet, 1843). New populations of Oxygastra curtisii (Dale, 1834), a protected species under the Habitats Directive, was found in this Natural Park and novel distribution and ecological data was collected for most species, including several rare species (e.g., Aeshna juncea (Linnaeus, 1758), Sympetrum flaveolum (Linnaeus, 1758)). All data were collected using standardised sampling allowing its use as baseline for long-term monitoring of Serra da Estrela mountain biodiversity.
DOI: 10.15468/4rgvsu
title: Movhera Hidroelétricas do Norte, S.A.: Foz-Tua: Phytobenthos – Ecological Monitoring Program – Exploration Phase [2021]

description: The dataset contains records of Phytobenthos (Diatoms) collected in the watershed of River Tua, and included in the Ecological Monitoring Program of the Environmental Impact Assessment of the Foz Tua Hydroelectric Dam, initially promoted by EDP – Energias de Portugal, S.A., and subsequenly assumed by Movhera – Hidroelétricas do Norte, S.A. Data were collected in the spring of 2021 during field visits to two sampling points, upstream the reservoir, in rivers Tua and Tinhela. The Ecological Monitoring Program aims to evaluate the impacts of dam exploration in the water quality of the river. After 2020, the sampling became triennial. The present dataset is the first of the period 2021-2025). The occurrence of the target taxa was documented through 934 records of species presence and number of individuals (valve counts).
DOI: 10.15468/m74aqv
title: Biodiversity data of ladybeetles (Coleoptera: Coccinellidae) of the Azores archipelago (Portugal)

description: A recent review study from 2021 presents a comprehensive checklist of ladybirds of Portugal, including the Azores and Madeira Archipelagos. Until then, the available information was very scattered and based on a single revision dating back to 1986, a few international catalogues and databases, individual records, and studies on communities of agroecosystems. However, no information is available on faunal composition across the Azorean islands and their habitats, using standardized inventory. Here, we present data about biodiversity of ladybirds and their distribution and abundance in five Islands of the Azores (São Miguel, Graciosa, Faial, Pico, and S. Jorge). Surveys included herbaceous and arboreal habitats from native to anthropogenic managed habitats: ruderal road vegetation, vegetable garden, mixed forest of endemic and non-native habitats, costal prairies, costal mixed vegetation, cornfields, urban areas, and evergreen of endemic and exotic forest. We aimed to contribute to the ongoing effort to document the terrestrial biodiversity of Portugal, including the archipelago of the Azores, within the research project AZORESBIOPORTAL–PORBIOTA (ACORES-01-0145-FEDER-000072).
DOI: 10.15468/dxugeh
title: EDP Foz Tua: Bat Habitats - Ecological Monitoring Program (PME) and Program of Mitigation/Compensatory Measures (PMC, MC12H) - Exploration Phase (2018-2020)

description: The dataset contains records of bats (Chiroptera) collected in the lower valley of River Tua. Data were collected in the scope of the Ecological Monitoring Program (PME) and Program of Compensatory Measures (PMC, MC12H) of the Foz Tua Hydroelectric Dam, promoted by EDP – Energias de Portugal, S.A. Data were collected from March 2018 to October 2020 during field visits to 60 points located in suitable foraging habitats for bats, within a 5-km radius buffer around the lower valley of River Tua. The presence and identity of the bat species were assessed by acoustic sampling of the echo-location calls emitted in flight. The records include taxa identified at the species, genus, family or order level, as well as several potential species present in several acoustic “species complexes”.
DOI: 10.15468/5htsbv
title: EDP Foz Tua: Black Wheatear (Oenanthe leucura, Aves Muscicapidae) - Ecological Monitoring (PME) and Compensatory Measures (PMC) Programs, Exploration Phase [2017-2020]

description: This dataset contains records of Black Wheatear (Oenanthe leucura) (Aves, Muscicapidae) collected in the River Tua lower valley included in the Ecological Monitoring (PME) and Compensatory Measures (PMC, measure MC46d) Programs (2017-2020) of the Exploration Phase of the Foz Tua Hydroelectric Dam, promoted by EDP – Energias de Portugal, S.A. Data were collected every season, from the autumn of 2017 to the autumn of 2020 during field visits to the known occurrence target species area at Tua lower valley, within a 5-km radius buffer around the river. All observations were carried out with binoculars and/or telescopes.
DOI: 10.15468/je5nez
title: EDP Foz-Tua: Terrestrial Birds – Compensatory Measures Program, Compensatory Measures MC40a/MC46a1 (Protection of Important Areas for Avifauna) – Exploration Phase [2018-20]

description: This dataset contains records of terrestrial birds (Aves) collected in selected woodlands and shrublands in the Tua lower river valley (NE Portugal), in the scope of the Compensatory Measures Program (PMC) of the Foz Tua Hydroelectric Dam (measures MC40a/MC46a1: “Protection of Important Areas for Avifauna”) between 2018 and 2020 (Exploration Phase), promoted by EDP – Energias de Portugal, S.A. Data were collected in 20 sampling points visited in spring: 10 “intervention” points in the designated micro-reserves of the Tua valley, and 10 “control” points (identified with a “c” in the name) located in the vicinity, outside the protected areas. All observations were carried out with binoculars and/or telescopes.
DOI: 10.15468/tvtpa3
title: EDP Foz Tua Nocturnal Birds - Ecological Monitoring Program, Exploration Phase [2018-2020]

description: This dataset contains records of nocturnal birds (Aves: Strigidae) and particularly Eagle Owl (Bubo bubo) collected in the lower valley of the River Tua (NE Portugal), in the scope of the long-term Ecological Monitoring Program (PME) of the Foz-Tua Hydroelectric Dam (AHFT) in the Exploration Phase, promoted by EDP – Energias de Portugal, S.A. Data were collected between January 2018 and June 2020 during field visits to 11 sampling points on lower Tua valley area directly influenced of Foz-Tua dam. The presence of individuals was recorded play-back responses.
DOI: 10.6084/m9.figshare.11981898.v1
title: Additional file 10 of Combined single-cell profiling of expression and DNA methylation reveals splicing regulation and heterogeneity

description: Table S9. AUC, effect and sign of all features when predicting splicing categories switching from iPS to endoderm (tenfold cross-validation). The effect is defined as the absolute effect size weighted by the standard deviation of the feature and the sign is the sign of the effect size. a-j. Prediction of presence/absence of category switching between the two tissue types, for each splicing category, with and without methylation features. (XLSX 314 kb)
DOI: 10.6084/m9.figshare.11981901
title: Additional file 1 of Combined single-cell profiling of expression and DNA methylation reveals splicing regulation and heterogeneity

description: Table S1. Sample meta-data and quality control characteristics per cell. a. iPS cells and endoderm, c. mouse ES cells. (XLSX 68 kb)
DOI: 10.6084/m9.figshare.11981901.v1
title: Additional file 1 of Combined single-cell profiling of expression and DNA methylation reveals splicing regulation and heterogeneity

description: Table S1. Sample meta-data and quality control characteristics per cell. a. iPS cells and endoderm, c. mouse ES cells. (XLSX 68 kb)
DOI: 10.6084/m9.figshare.11981904
title: Additional file 2 of Combined single-cell profiling of expression and DNA methylation reveals splicing regulation and heterogeneity

description: Table S2. Splicing rates per cell and tissue type. a. iPS cells, b. endoderm, c. mouse ES cells. (XLSX 6381 kb)
DOI: 10.6084/m9.figshare.11981898
title: Additional file 10 of Combined single-cell profiling of expression and DNA methylation reveals splicing regulation and heterogeneity

description: Table S9. AUC, effect and sign of all features when predicting splicing categories switching from iPS to endoderm (tenfold cross-validation). The effect is defined as the absolute effect size weighted by the standard deviation of the feature and the sign is the sign of the effect size. a-j. Prediction of presence/absence of category switching between the two tissue types, for each splicing category, with and without methylation features. (XLSX 314 kb)
DOI: 10.6084/m9.figshare.11981904.v1
title: Additional file 2 of Combined single-cell profiling of expression and DNA methylation reveals splicing regulation and heterogeneity

description: Table S2. Splicing rates per cell and tissue type. a. iPS cells, b. endoderm, c. mouse ES cells. (XLSX 6381 kb)
DOI: 10.6084/m9.figshare.11981910
title: Additional file 4 of Combined single-cell profiling of expression and DNA methylation reveals splicing regulation and heterogeneity

description: Table S3. Associations between DNA methylation and splicing as observed in the iPS (a-g) and endoderm (h-n) single cells. Each table contains significant associations per sequence context per tissue. The cassette exon, P value (nominal and after multiple testing correction), effect size and effect direction are shown. a. C1 iPS. b. I1 ‘5 iPS. c. I1 ‘3 iPS. d. A iPS. e. I2 ‘5 iPS. f. I2 ‘3 iPS. g. C2 iPS. h. C1 endoderm. i. I1 ‘5 endoderm. j. I1 ‘3 endoderm. k. A endoderm. l. I2 ‘5 endoderm S. m. I2 ‘3 iPS. n. C2 endoderm. (XLSX 163 kb)
DOI: 10.6084/m9.figshare.11981910.v1
title: Additional file 4 of Combined single-cell profiling of expression and DNA methylation reveals splicing regulation and heterogeneity

description: Table S3. Associations between DNA methylation and splicing as observed in the iPS (a-g) and endoderm (h-n) single cells. Each table contains significant associations per sequence context per tissue. The cassette exon, P value (nominal and after multiple testing correction), effect size and effect direction are shown. a. C1 iPS. b. I1 ‘5 iPS. c. I1 ‘3 iPS. d. A iPS. e. I2 ‘5 iPS. f. I2 ‘3 iPS. g. C2 iPS. h. C1 endoderm. i. I1 ‘5 endoderm. j. I1 ‘3 endoderm. k. A endoderm. l. I2 ‘5 endoderm S. m. I2 ‘3 iPS. n. C2 endoderm. (XLSX 163 kb)
DOI: 10.6084/m9.figshare.11981913
title: Additional file 5 of Combined single-cell profiling of expression and DNA methylation reveals splicing regulation and heterogeneity

description: Table S4. Description of features that are used per sequence context to predict splicing, and assignment of these features to the models that include them. (XLSX 59 kb)
DOI: 10.6084/m9.figshare.11981913.v1
title: Additional file 5 of Combined single-cell profiling of expression and DNA methylation reveals splicing regulation and heterogeneity

description: Table S4. Description of features that are used per sequence context to predict splicing, and assignment of these features to the models that include them. (XLSX 59 kb)
DOI: 10.6084/m9.figshare.11981916
title: Additional file 6 of Combined single-cell profiling of expression and DNA methylation reveals splicing regulation and heterogeneity

description: Table S5. Pearson r2, effect and sign of features predicting sPSI using linear ridge regressions, for both tissue types. (6 sheets). a. effect sizes, sign and correlation value of each genomic feature to prediction of PSI in single iPS cells. b. effect sizes, sign and correlation value of each genomic feature to prediction of PSI in single endoderm cells. c. effect sizes, sign and correlation value of each genomic & mean methylation feature to prediction of PSI in single iPS cells. d. effect sizes, sign and correlation value of each genomic & mean methylation feature to prediction of PSI in single endoderm cells. e. effect sizes, sign and correlation value of each genomic & single cell methylation feature to prediction of PSI in single iPS cells. f. effect sizes, sign and correlation value of each genomic & single cell methylation feature to prediction of PSI in single endoderm cells. (XLSX 572 kb)