cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/4cnhw9
title: Monitoring ground arthropods in maize and pasture fields of São Miguel and São Jorge Islands: IPM-Popillia Project

description: The dataset presented here is the delivery of the European project “Integrated Pest Management of the Invasive Japanese Beetle, Popillia japonica (IPM-Popillia)”. This project aims to address the challenge of a new risk to plant health in Europe, the invasion of the Japanese beetle, Popillia japonica, and to provide an environmentally friendly IPM-Toolbox to control the pest in infested areas, protecting the agricultural systems and control this pest populations current in expansion across Europe. The present study targets to record, in maize and pasture fields of the Azores, ground arthropods with the potential to be used in futures Integrated Pest Management programs against P. japonica. A sampling program was conducted in two Islands (São Miguel and São Jorge) in the summer of 2022. We provided an inventory of the arthropods recorded in two Azorean agroecosystems (maize and pasture fields) from São Miguel and S. Jorge Islands. A total of ten maize and ten pasture fields were sampled, and a total of 360 pitfall traps were installed, 216 in São Miguel and 144 in São Jorge, for seven consecutive days in August and September of 2022. We collected 18559 specimens belonging to the phylum Arthropoda, four classes, twelve orders, twenty-six families, and forty morphospecies ( two identified at the family level and 38 identified at the species level). We identified only 38 taxa at the species level (n = 18281). Of the 38 identified taxa, 18 species were predators, 15 were plant feeders, and 5 were omnivores. The 18 predators belong to the following families: 10 species were Carabidae, two Staphylinidae, one Anisolabididae, one Chrysopidae, one Leiobunidae, one Nabidae, one Phalangiidae and one Scathophagidae.
DOI: 10.15468/nf2sam
title: EDP Baixo Sabor: Construction and Reservoir Filling Phases – Natural Wolf Prey (Roe Deer) [2010-2014]

description: The dataset contains records of the Roe Deer (Capreolus capreolus), a major wild prey of the Iberian Wolf, collected in the lower valley of River Sabor (NE Portugal), in the scope of the long-term Ecological Monitoring Program (PME) of the Baixo Sabor Hydroelectric Dams (AHBS), promoted by EDP – Energias de Portugal, S.A. This dataset includes results of surveys made in and around the area affected by the dam, from June 2010 to April 2014. Sampling was performed in transects distributed along the lower Sabor river valley (and some tributaries), and in rivers Maçãs and Angueira, from the river mouth up to 42 km upstream. The presence of the target species was assessed through faecal pellet surveys, due to difficulties in directly observing the species.
DOI: 10.15468/z2xb3k
title: EDP Foz-Tua: Terrestrian Birds (count points) – Compensatory Measures Program, MC46B (Management of Raptors’ Feeding Habitats) [2018-19]

description: The dataset contains records of terrestrian birds (Aves) collected in the two breeding territories of Bonelli’s Eagle (Aquila fasciata) in the lower valley of the River Tua and included in the Compensatory Measure MC46b (“Management of Raptor’s Feeding Habitats”) (2018-2020) of the Compensatory Measures Program of the Foz Tua Hydroelectric Dam, promoted by EDP – Energias de Portugal, S.A. Data were collected in late winter (February-March) of 2018-2019, during field visits to 120 sampling points: 60 “intervention” points (identified with a “I”) located near the structures purposely built to promote the occurrence/fixation of the prey species (deforested areas, feeders and drinkers for birds, artificial shelters for rabbits) in the two territories, and 60 “control” points (identified with a “c”) located in the vicinity of the intervention areas. Each point is sampled every two years. All observations were made with binoculars and/or telescopes. Although the main objective of this monitoring was to assess the occurrence status of the main prey species of birds for Bonelli’s Eagle (Columba spp. And Alectoris rufa) after the implementation of the Compensatory Measure, all bird species seen of heard were also included. Due to the movement restrictions imposed by the covid-19 pandemics, no data were collected in 2020.
DOI: 10.25592/uhhfdm.8358
title: Molecular consequences of SARS-CoV-2 liver tropism

description: Extrapulmonary manifestations of COVID-19 have gained attention, not only due to their links to clinical outcomes, but also due to their potential long-term sequelae. Recent evidence has shown multi-organ tropism of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), including heart, kidney and liver. Previous studies have shown that close to 20% of hospitalized patients with COVID-19 develop liver injury, showing an association to disease severity. Here, we characterized SARS-CoV-2 liver tropism in autopsy samples, based on the expression of cell-entry facilitators in parenchymal cells, clinical polymerase chain reaction (PCR) positivity, subgenomic SARS-CoV-2 identification using RNA sequencing, and viral RNA detection by in situ hybridization. Next, we unraveled the transcriptomic  landscape of SARS-CoV-2 liver tropism, revealing significant increases in interferon alpha and gamma signaling and compensatory liver-specific metabolic regulation. While these results reflect changes in tissues from patients with severe SARS-CoV-2 infection, the profound molecular alterations raise questions about the potential long-term consequences of COVID-19 infection.
DOI: 10.25592/uhhfdm.8372
title: Molecular consequences of SARS-CoV-2 liver tropism

description: Extrapulmonary manifestations of COVID-19 have gained attention, not only due to their links to clinical outcomes, but also due to their potential long-term sequelae. Recent evidence has shown multi-organ tropism of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), including heart, kidney and liver. Previous studies have shown that close to 20% of hospitalized patients with COVID-19 develop liver injury, showing an association to disease severity. Here, we characterized SARS-CoV-2 liver tropism in autopsy samples, based on the expression of cell-entry facilitators in parenchymal cells, clinical polymerase chain reaction (PCR) positivity, subgenomic SARS-CoV-2 identification using RNA sequencing, and viral RNA detection by in situ hybridization. Next, we unraveled the transcriptomic landscape of SARS-CoV-2 liver tropism, revealing significant increases in interferon alpha and gamma signaling and compensatory liver-specific metabolic regulation. While these results reflect changes in tissues from patients with severe SARS-CoV-2 infection, the profound molecular alterations raise questions about the potential long-term consequences of COVID-19 infection.
DOI: 10.15468/48axjg
title: Macroinvertebrates distribution in Madeira Island streams (Portugal)

description: This dataset presents the distribution of freshwater macroinvertebrates in Madeira Island streams.
DOI: 10.25592/uhhfdm.8357
title: Molecular consequences of SARS-CoV-2 liver tropism

description: Extrapulmonary manifestations of COVID-19 have gained attention, not only due to their links to clinical outcomes, but also due to their potential long-term sequelae. Recent evidence has shown multi-organ tropism of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), including heart, kidney and liver. Previous studies have shown that close to 20% of hospitalized patients with COVID-19 develop liver injury, showing an association to disease severity. Here, we characterized SARS-CoV-2 liver tropism in autopsy samples, based on the expression of cell-entry facilitators in parenchymal cells, clinical polymerase chain reaction (PCR) positivity, subgenomic SARS-CoV-2 identification using RNA sequencing, and viral RNA detection by in situ hybridization. Next, we unraveled the transcriptomic  landscape of SARS-CoV-2 liver tropism, revealing significant increases in interferon alpha and gamma signaling and compensatory liver-specific metabolic regulation. While these results reflect changes in tissues from patients with severe SARS-CoV-2 infection, the profound molecular alterations raise questions about the potential long-term consequences of COVID-19 infection.
DOI: 10.25592/uhhfdm.8371
title: Molecular consequences of SARS-CoV-2 liver tropism

description: Extrapulmonary manifestations of COVID-19 have gained attention, not only due to their links to clinical outcomes, but also due to their potential long-term sequelae. Recent evidence has shown multi-organ tropism of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), including heart, kidney and liver. Previous studies have shown that close to 20% of hospitalized patients with COVID-19 develop liver injury, showing an association to disease severity. Here, we characterized SARS-CoV-2 liver tropism in autopsy samples, based on the expression of cell-entry facilitators in parenchymal cells, clinical polymerase chain reaction (PCR) positivity, subgenomic SARS-CoV-2 identification using RNA sequencing, and viral RNA detection by in situ hybridization. Next, we unraveled the transcriptomic landscape of SARS-CoV-2 liver tropism, revealing significant increases in interferon alpha and gamma signaling and compensatory liver-specific metabolic regulation. While these results reflect changes in tissues from patients with severe SARS-CoV-2 infection, the profound molecular alterations raise questions about the potential long-term consequences of COVID-19 infection.
DOI: 10.15468/ut55sa
title: EDP Baixo Sabor: Fishes – Ecological Monitoring and Complementary Measures Programs [2015-2020]

description: The dataset contains records of Fishes (Pisces) collected in the lower valley of River Sabor (NE Portugal) in the scope of the long-term Ecological Monitoring (PME) and Complementary Measures (PMC) Programs of the Baixo Sabor Hydroelectric Dams (AHBS), promoted by EDP – Energias de Portugal, S.A, to evaluate the impacts of dam construction in the fish communities and water quality of the river. This dataset refers to the years of 2015-2020, during the exploration phase. Fishes were captured in 68 sampling points (61 sampling stations by electrofishing, with restitution in lotic habitats, and 7 sampling stations by surface and deep netting (4) and electrofishing (3) in lentic habitats), in the summer of each year. A total of 39443 records of 17 species and one genus were recorded. The most abundant species (&gt;5000 records) were Luciobarbus bocagei (10208 individuals), Pseudochodrostoma duriense (9029) and Alburnus alburnus (7031).
DOI: 10.15468/nap3yu
title: EDP Foz-Tua: Large Mammals: river crossings - reference situation/early exploration phase. Compensatory Measures Monitoring Program (MC40B.1 and MC40B.2) [2017-2020]

description: The dataset contains records of large mammals (Mammalia) and other fauna (Herpetofauna, Aves) collected in the lower valley of the River Tua to assess the river crossing potential after the implementation of the Compensatory Measure MC40B.1 (implemented in in spring 2016) and MC40B.2 (implemented in winter 2017), included in the Compensatory Measures Program (PMC) of the Foz Tua Hydroelectric Dam, promoted by EDP – Energias de Portugal, S.A. Data were collected between November 2017 and December 2020 in two bridges, using visual prospection (points and/or transects), stone powder and camera trapping (2 cameras per site). Both direct (visual observation, photos) and indirect (feaces, tracks/trails) signs were used to confirm the presence of the target species/groups (the identification up to the species levels was not always possible).
DOI: 10.6084/m9.figshare.9884729
title: Metadata record for: Deciphering tea tree chloroplast and mitochondrial genomes of Camellia sinensis var. assamica

description: This dataset contains key characteristics about the data described in the Data Descriptor Deciphering tea tree chloroplast and mitochondrial genomes of Camellia sinensis var. assamica. <br>
 Contents: <br>
 
 1. human readable metadata summary table in CSV format
 
 
 2. machine readable metadata file in JSON format 
 3. machine readable metadata file in ISA-Tab format (zipped folder)<br><br>Versioning Note:A revised version was generated when the metadata format was updated from JSON to JSON-LD. This was an automatic process that changed only the format, not the contents, of the metadata.
DOI: 10.15468/qyh6hs
title: Long-term monitoring of Azorean forest spiders – Part 2

description: The data we present hereafter are part of the long-term project SLAM (Long Term Ecological Study of the Impacts of Climate Change in the natural forest of Azores). This project started in 2012, and focuses on arthropod monitoring, with the aim to understand the impact of the drivers of biodiversity erosion on Azorean native forests (Azores, Macaronesia, Portugal). In this publication, we describe the second SLAM sampling database for the arachnofauna of native forests on two islands (Pico and Terceira), collected between 2019 and 2021.
DOI: 10.6084/m9.figshare.9884729.v1
title: Metadata record for: Deciphering tea tree chloroplast and mitochondrial genomes of Camellia sinensis var. assamica

description: This dataset contains key characteristics about the data described in the Data Descriptor Deciphering tea tree chloroplast and mitochondrial genomes of Camellia sinensis var. assamica. <br>
 Contents: <br>
 
 1. human readable metadata summary table in CSV format
 
 
 2. machine readable metadata file in JSON format 
 3. machine readable metadata file in ISA-Tab format (zipped folder)<br><br>Versioning Note:A revised version was generated when the metadata format was updated from JSON to JSON-LD. This was an automatic process that changed only the format, not the contents, of the metadata.
DOI: 10.6084/m9.figshare.9884729.v2
title: Metadata record for: Deciphering tea tree chloroplast and mitochondrial genomes of Camellia sinensis var. assamica

description: This dataset contains key characteristics about the data described in the Data Descriptor Deciphering tea tree chloroplast and mitochondrial genomes of Camellia sinensis var. assamica. <br>
 Contents: <br>
 
 1. human readable metadata summary table in CSV format
 
 
 2. machine readable metadata file in JSON format 
 3. machine readable metadata file in ISA-Tab format (zipped folder)<br><br>Versioning Note:A revised version was generated when the metadata format was updated from JSON to JSON-LD. This was an automatic process that changed only the format, not the contents, of the metadata.
DOI: 10.15468/pwt2fh
title: EDP Foz-Tua: Pyrenean Desman (Galemys pyrenaicus) - Ecological Monitoring Program (2011-17)

description: The dataset contains records of Pyrenean desman (Galemys pyrenaicus, Mammalia) collected in the Rivers Tua and Douro sub-basins 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 June 2011 and May 2017 during field visits to up to 30 sampling transects in the riverbeds of the selected water lines with favorable habitats for the species. The presence of individuals was recorded by direct observation of signs (scats and/or footprints).
DOI: 10.15468/jffdwe
title: EDP Baixo-Sabor: Phytobenthos – Ecological Monitoring Program [2015-2019]

description: The dataset contains records of Phytobenthos (Diatoms) collected in the watershed of River Sabor, and included in the Ecological Monitoring Program (2015-2019) 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 2015-2019 during field visits to three sampling points located upstream the reservoir, including the intersection with river Maçãs, 7 kms upstream. The present Ecological Monitoring Program (2015-2019) aims to evaluate the impacts of the onset of exploration phase in the water quality of the river. The occurrence of the target taxa was documented through 8449 records of species presence and number of individuals (valve counts).
DOI: 10.25592/uhhfdm.9794
title: Warm Glow of Giving and Intertemporal Budget Choices (FEJAN)

description: This research project analyzes monetary intertemporal choices when trading-off individual and income that is donated. Donations have the form of warm glow of giving, while income decisions are elicited in a convex time budget constraint. Treatment conditions vary the urgency of the donation. 

This experiment ran in the experimental software "oTree"

The dataset contains the following folders:


  "Ablaufplan": The instructions for the experimenter
  "Instruktionen": The instructions that where handed out to the experiments' participants for three different treatments T1, T2 and T3
  "oTree": The oTree source code that was used for running the individual sessions.
  "Daten": The experimental data of four (4) sessions, held between February 3rd and February 12th in 2020.
  "Spende": Receipts of the donations that were made to "SCM (Christoffel Blindenmission)"
description: WISO-FL
DOI: 10.25592/uhhfdm.9793
title: Warm Glow of Giving and Intertemporal Budget Choices (FEJAN)

description: This research project analyzes monetary intertemporal choices when trading-off individual and income that is donated. Donations have the form of warm glow of giving, while income decisions are elicited in a convex time budget constraint. Treatment conditions vary the urgency of the donation. 

This experiment ran in the experimental software "oTree"

The dataset contains the following folders:


  "Ablaufplan": The instructions for the experimenter
  "Instruktionen": The instructions that where handed out to the experiments' participants for three different treatments T1, T2 and T3
  "oTree": The oTree source code that was used for running the individual sessions.
  "Daten": The experimental data of four (4) sessions, held between February 3rd and February 12th in 2020.
  "Spende": Receipts of the donations that were made to "SCM (Christoffel Blindenmission)"
description: WISO-FL
DOI: 10.15468/tcxun4
title: EDP Foz-Tua: Diurnal Butterflies (Lepidoptera) - Ecological Monitoring Program (2014-2017)

description: The dataset contains records of Butterflies (Lepidoptera) collected in the lower valley of the River Tua, and included in the Ecological Monitoring Program (2011-2017) of the Foz Tua Hydroelectric Dam, promoted by EDP – Energias de Portugal, S.A. Data were collected between July 2014 and August 2017 during field visits to 33 sampling transects with favorable habitats on the area of the lower Tua valley directly or indirectly affected by the Foz Tua dam, and in a small stream of the Douro basin. The occurrence of the target species was recorded when individuals were seen or captured in the selected transects.
DOI: 10.15468/gt8gpm
title: Cyanobacteria from freshwater lakes in the Azores Archipelago, Portugal

description: Cyanobacteria occurrence in lakes from the Azores Archipelago based on data from monitoring programs dated from 1996 to 2018.
DOI: 10.15468/zsqtsy
title: EDP Baixo Sabor: Construction and Reservoir Filling Phases - Iberian Wolf (Canis lupus) [Sign surveys] [2010-2014]

description: The dataset contains records of the Iberian Wolf (Canis lupus) collected in the lower valley of River Sabor (NE Portugal), in the scope of the long-term Ecological Monitoring Program (PME) of the Baixo Sabor Hydroelectric Dams (AHBS), promoted by EDP – Energias de Portugal, S.A. This dataset includes results of surveys made in and around the area affected by the dam, from February 2010 to September 2014. Sampling was performed in transects distributed in the area of the lower Sabor river valley (and some tributaries) and in rivers Maçãs and Angueira, from the river mouth up to 42 km upstream. The presence and identity of the target species were assessed through presence signs, mainly scats. However, since the scats attributed to the wolf were not validated with molecular tools to screen for possible confusion with those of domestic dogs, their taxonomic identification in this dataset is presented at the genus level.
DOI: 10.15468/qt6d3j
title: Bird community of the Douro Estuary Local Nature Reserve (Vila Nova de Gaia) and mouth of Granja stream (urban stream, Porto) (2016-2017)

description: This dataset includes systematic counts of aquatic birds carried out in the Douro Estuary Local Nature Reserve (RNLED, Reserva Natural Local do Estuário do Douro, Vila Nova de Gaia), a protected area in the mouth of Douro estuary, Northern Portugal, and in the mouth of the Granja stream (Porto), an urban stream that meets the Douro, in the northern side of the estuary, 2 km upstream of its mouth. Data was collected during the winter of 2016/2017 and the early part of the 2017 spring migratory season. A total of 33447 records of individual birds were obtained, encompassing 26 species and 21 genera.
DOI: 10.15468/we5w7b
title: EDP Baixo Sabor: Bat Feeding Habitats [acoustic sampling] - Ecological Monitoring (PME) and Compensatory Measures (PMC) Programs: Reservoir Filling and Operation Phase (2015-2020)

description: The dataset contains records of bats (Chiroptera) collected in potential feeding habitats along the lower valley of River Sabor, in the scope of the Ecological Monitoring (PME) and Mitigation/Compensation Measures (PMC) Programs of the Baixo Sabor Hydroelectric Dams, promoted by EDP – Energias de Portugal, S.A. Sampling was carried out between June 2015 and August 2020 in selected sampling points, in the framework of the regular monitoring of feeding habitats for Chiroptera and as part of the monitoring program of Compensatory Measures (MC5.7). The latter sampling was made in the framework of other Compensatory Measures to generally recover important habitats, that are also suitable for bat feeding. These included riparian galleries, autochthonous forests and new weirs. Overall, regular field sampling was performed at a total of 70 sampling points (impact and control sites) within a 5-km radius buffer around the limits of the area flooded by the reservoirs in the lower valley of River Sabor. The presence and identity of bat species were assessed by acoustic sampling of the echo-location calls emitted in fligth. The records include taxa identified at the species, genus, family or order level, as well as groups of species that share similar calls but cannot be identified to any taxonomic level, and that were thus assigned to acoustic “species complexes”. From a total of 527 recording sessions, 1,544 records of bats were obtained, belonging to 12 identified species and 10 “species complexes”.