cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.8208703
title: Assessment of tobacco and N. benthamiana as biofactories of irregular monoterpenes for sustainable crop protection

description: Irregular monoterpenes are important precursors of different compounds employed in pest control such as insecticides and insect sex pheromones. Metabolically engineered plants are appealing as biofactories of such compounds, but specially as potential live biodispensers of related bioactive volatiles, which could be continuously emitted to the environment from different plant tissues. Here we assess the use of cultivated tobacco and Nicotiana benthamiana as biofactories for the irregular monoterpenes chrysanthemol and lavandulol. We evaluate the impact of high levels of constitutive metabolite production on the plant physiology and biomass, and their biosynthetic dynamics for different plant tissues and developmental stages. As an example of an active pheromone compound, we super-transformed the best lavandulol-producing tobacco line with an acetyl transferase gene to obtain a tobacco lavandulyl acetate biodispenser producing up to 0.63 mg of lavandulyl acetate per plant every day. We estimate that with these volatile emission levels, between 200 and 500 plants per hectare would be sufficient to ensure a daily emission of pheromones comparable to commercial lures. This is an important step towards plant-based sustainable solutions for pest control, and it lays the ground for further developing biofactories for other irregular monoterpenoid pheromones, whose biosynthetic genes are yet unknown. The dataset includes GC-MS data (peak areas quantified for each compound with its Qi, normalized) for all the figures and supplementary figures of the associated manuscript. Peak areas are normalized with an admixture, analyzed on the same day as the samples. It also includes biomass data and measurements for the analyzed plants (plant height, leaf biomass, days to flowering time). For all datasets, statistical analysis is also included to support the conclusions showed in the graphs.
DOI: 10.5281/zenodo.8427571
title: Assessment of tobacco and N. benthamiana as biofactories of irregular monoterpenes for sustainable crop protection

description: Irregular monoterpenes are important precursors of different compounds employed in pest control such as insecticides and insect sex pheromones. Metabolically engineered plants are appealing as biofactories of such compounds, but specially as potential live biodispensers of related bioactive volatiles, which could be continuously emitted to the environment from different plant tissues. Here we assess the use of cultivated tobacco and Nicotiana benthamiana as biofactories for the irregular monoterpenes chrysanthemol and lavandulol. We evaluate the impact of high levels of constitutive metabolite production on the plant physiology and biomass, and their biosynthetic dynamics for different plant tissues and developmental stages. As an example of an active pheromone compound, we super-transformed the best lavandulol-producing tobacco line with an acetyl transferase gene to obtain a tobacco lavandulyl acetate biodispenser producing up to 0.63 mg of lavandulyl acetate per plant every day. We estimate that with these volatile emission levels, between 200 and 500 plants per hectare would be sufficient to ensure a daily emission of pheromones comparable to commercial lures. This is an important step towards plant-based sustainable solutions for pest control, and it lays the ground for further developing biofactories for other irregular monoterpenoid pheromones, whose biosynthetic genes are yet unknown. The dataset includes GC-MS data (peak areas quantified for each compound with its Qi, normalized) for all the figures and supplementary figures of the associated manuscript. Peak areas are normalized with an admixture, analyzed on the same day as the samples. It also includes biomass data and measurements for the analyzed plants (plant height, leaf biomass, days to flowering time). File S3 shows data for quantitative PCR to determine transgene copy number, and for qRT-PCR to measure transgene expression levels. For all datasets, statistical analysis is also included to support the conclusions showed in the graphs.
DOI: 10.6073/pasta/f799c3fb0e4f3058b77c92bcc8cfbc5f
title: Soil and foliar carbon and nitrogen content and stable isotope ratios from rainfall manipulation experiments at the Jornada Basin LTER, 2011-2020

description: As rainfall extremes are expected to increase in novel magnitude and frequency, especially in dryland regions, we asked how prolonged and directional shifts to water availability may affect ecosystem carbon and nitrogen dynamics. This data set includes foliar and soil carbon and nitrogen stable isotope and concentration data collected from multiple long-term rainfall manipulation experiments at the Jornada Basin LTER. Datasets also include rainfall data adjusted to rainfall manipulation intensities. Collection dates range from 5 to 14 years since the onset of experimental treatments. The primary plant species targeted for this study were the dominant grass, Bouteloua eriopoda, and the dominant shrub, Prosopis glandulosa.
DOI: 10.57841/casdc.0002750
title: 费托反应中优势钴晶面的稳定数据集
DOI: 10.6084/m9.figshare.24279538
title: behavioral and fmri data Rauh et al.

description: behavioral and fmri data reported in Rauh et al.
DOI: 10.6084/m9.figshare.24173463
title: Ivy leaf dry extract EA 575 for the treatment of acute and chronic cough in pediatric patients: review and expert survey

description: EA 575 (Prospan) is a herbal medicine containing a dried extract of ivy leaves (drug extract ratio 5–7.5:1; extraction solvent, 30% ethanol). Although widely used for the treatment of cough, there remains a lack of clarity on the effects of EA 575 in children. This study aimed to evaluate the efficacy and tolerability of EA 575 in pediatric patients with cough, <i>via</i> a literature review and expert survey. A MEDLINE/PubMed database search was performed to identify articles evaluating the efficacy and tolerability of EA 575 in pediatric patients with cough. An online survey of international pediatric cough experts was conducted to gather expert opinion regarding the use of EA 575 for pediatric cough. Ten controlled clinical trials and nine observational studies were identified. Controlled trials reported improvements in lung function and subjective cough symptoms with EA 575, while observational studies indicated overall favorable efficacy. EA 575 was generally well tolerated, with a low incidence of adverse events in children of all ages, including those aged &lt;1 year. Survey responses from ten experts aligned with findings from the reviewed studies. Most experts agreed that EA 575 may improve quality of life, and highlighted its potential benefits on sleep. EA 575 has minimal side effects in pediatric patients with cough, as demonstrated by large, real-world studies. EA 575 may provide clinical benefits in pediatric patients; however, more robust clinical trials are needed to confirm its efficacy. EA 575 (Prospan) is a medicine containing a dried extract of ivy leaves that is used to treat coughs. The aim of this review was to evaluate the available published information on the health benefits and side effects of EA 575 in children with coughs. We also conducted a survey of doctors who treat children with coughs. We found information from ten research trials that compared EA 575 with another cough medicine or a “dummy medicine”. Although these studies included only a small number of children, the results suggested that children’s breathing and cough symptoms may improve with EA 575 treatment. We also found nine studies that included children being treated in normal clinical situations and not in a research setting. Most of the children included in these studies and their doctors thought that EA 575 treatment was beneficial. A low number of side effects was reported in children of all ages, including in infants aged &lt;1 year. Survey responses from ten doctors generally agreed with the findings from the research studies. Most of the doctors thought that EA 575 may improve quality of life. Improved sleep was commonly mentioned by doctors. Overall, our findings indicate that EA 575 has minimal side effects in children; we call for more research on the benefits of EA 575 on cough symptoms in children.
DOI: 10.6084/m9.figshare.24218962
title: Bioethics of somatic gene therapy: what do we know so far?

description: To provide a systematic overview of bioethical debate on somatic gene therapy as documented in the scientific literature. We performed a systematic review of reasons, following Strech and Sofaer approach, which is a method to systematically identify and classify arguments (reasons) used in the scientific literature. We identified 217 eligible publications retrieved from PubMed, Lilacs, PhilPapers, and Google Scholar. A meta-synthesis was performed to analyze the data. We extracted 189 arguments. Arguments were grouped into 23 categories. Twelve categories were classified as research-related, including the risk/benefit ratio, priorities and limits, informed consent, review, and monitoring. Eleven were classified as society-related, including population impact, human identity, public perception, human health. Our study provides a database of existing challenges and arguments of somatic gene therapy and may serve as the basis of normative analysis. By presenting collected arguments, we contribute to the discussion about the ethics and social dimensions of somatic gene therapy.
DOI: 10.6084/m9.figshare.24218962.v1
title: Bioethics of somatic gene therapy: what do we know so far?

description: To provide a systematic overview of bioethical debate on somatic gene therapy as documented in the scientific literature. We performed a systematic review of reasons, following Strech and Sofaer approach, which is a method to systematically identify and classify arguments (reasons) used in the scientific literature. We identified 217 eligible publications retrieved from PubMed, Lilacs, PhilPapers, and Google Scholar. A meta-synthesis was performed to analyze the data. We extracted 189 arguments. Arguments were grouped into 23 categories. Twelve categories were classified as research-related, including the risk/benefit ratio, priorities and limits, informed consent, review, and monitoring. Eleven were classified as society-related, including population impact, human identity, public perception, human health. Our study provides a database of existing challenges and arguments of somatic gene therapy and may serve as the basis of normative analysis. By presenting collected arguments, we contribute to the discussion about the ethics and social dimensions of somatic gene therapy.
DOI: 10.6084/m9.figshare.21571410.v1
title: Applicability of the Mexican ovitrap system for Aedes vector surveillance in Colombia

description: Ovitraps can detect Aedes vectors at an early stage and can serve as an alarm indicator for outbreak prediction. This study aimed to summarize the available literature about the ovitrap system and to determine its feasibility, required resources and costs when installing and maintaining this vector surveillance system in the municipality of Los Patios, Colombia. A scoping review to assess the role of ovitraps as a tool for Aedes vector surveillance was conducted. The subsequent fieldwork consisted of mapping the municipality, manufacturing, and installing 40 ovitraps in 10 blocks, revising them weekly for 4 weeks by two half-time employed vector control technicians, and carrying out a cost analysis. A total of 38 studies were included in this review showing that ovitraps had a better performance than other entomological surveillance methods and a positive correlation with other entomological and disease variables. From the field results over 4 weeks, a high proportion of positive ovitraps (80%, 90%, 75%, 97.5%) and positive blocks (100%) as well as a good acceptance by house owners (76.9%), were identified. Operational indicators such as average installation time of the ovitraps (10h15 m), weekly reading and reinstallation (on average 7h27 m) and the cost of the intervention (COL$1,142,304.47/US$297) were calculated. Literature shows that ovitraps are sensitive to detect the presence of Aedes mosquitoes, providing data efficiently and timely for outbreak prediction. The field testing showed it is an affordable and feasible method in the context of a Colombian municipality and similar endemic areas.
DOI: 10.6084/m9.figshare.24173463.v1
title: Ivy leaf dry extract EA 575 for the treatment of acute and chronic cough in pediatric patients: review and expert survey

description: EA 575 (Prospan) is a herbal medicine containing a dried extract of ivy leaves (drug extract ratio 5–7.5:1; extraction solvent, 30% ethanol). Although widely used for the treatment of cough, there remains a lack of clarity on the effects of EA 575 in children. This study aimed to evaluate the efficacy and tolerability of EA 575 in pediatric patients with cough, <i>via</i> a literature review and expert survey. A MEDLINE/PubMed database search was performed to identify articles evaluating the efficacy and tolerability of EA 575 in pediatric patients with cough. An online survey of international pediatric cough experts was conducted to gather expert opinion regarding the use of EA 575 for pediatric cough. Ten controlled clinical trials and nine observational studies were identified. Controlled trials reported improvements in lung function and subjective cough symptoms with EA 575, while observational studies indicated overall favorable efficacy. EA 575 was generally well tolerated, with a low incidence of adverse events in children of all ages, including those aged &lt;1 year. Survey responses from ten experts aligned with findings from the reviewed studies. Most experts agreed that EA 575 may improve quality of life, and highlighted its potential benefits on sleep. EA 575 has minimal side effects in pediatric patients with cough, as demonstrated by large, real-world studies. EA 575 may provide clinical benefits in pediatric patients; however, more robust clinical trials are needed to confirm its efficacy. EA 575 (Prospan) is a medicine containing a dried extract of ivy leaves that is used to treat coughs. The aim of this review was to evaluate the available published information on the health benefits and side effects of EA 575 in children with coughs. We also conducted a survey of doctors who treat children with coughs. We found information from ten research trials that compared EA 575 with another cough medicine or a “dummy medicine”. Although these studies included only a small number of children, the results suggested that children’s breathing and cough symptoms may improve with EA 575 treatment. We also found nine studies that included children being treated in normal clinical situations and not in a research setting. Most of the children included in these studies and their doctors thought that EA 575 treatment was beneficial. A low number of side effects was reported in children of all ages, including in infants aged &lt;1 year. Survey responses from ten doctors generally agreed with the findings from the research studies. Most of the doctors thought that EA 575 may improve quality of life. Improved sleep was commonly mentioned by doctors. Overall, our findings indicate that EA 575 has minimal side effects in children; we call for more research on the benefits of EA 575 on cough symptoms in children.
DOI: 10.6084/m9.figshare.21571410
title: Applicability of the Mexican ovitrap system for Aedes vector surveillance in Colombia

description: Ovitraps can detect Aedes vectors at an early stage and can serve as an alarm indicator for outbreak prediction. This study aimed to summarize the available literature about the ovitrap system and to determine its feasibility, required resources and costs when installing and maintaining this vector surveillance system in the municipality of Los Patios, Colombia. A scoping review to assess the role of ovitraps as a tool for Aedes vector surveillance was conducted. The subsequent fieldwork consisted of mapping the municipality, manufacturing, and installing 40 ovitraps in 10 blocks, revising them weekly for 4 weeks by two half-time employed vector control technicians, and carrying out a cost analysis. A total of 38 studies were included in this review showing that ovitraps had a better performance than other entomological surveillance methods and a positive correlation with other entomological and disease variables. From the field results over 4 weeks, a high proportion of positive ovitraps (80%, 90%, 75%, 97.5%) and positive blocks (100%) as well as a good acceptance by house owners (76.9%), were identified. Operational indicators such as average installation time of the ovitraps (10h15 m), weekly reading and reinstallation (on average 7h27 m) and the cost of the intervention (COL$1,142,304.47/US$297) were calculated. Literature shows that ovitraps are sensitive to detect the presence of Aedes mosquitoes, providing data efficiently and timely for outbreak prediction. The field testing showed it is an affordable and feasible method in the context of a Colombian municipality and similar endemic areas.
DOI: 10.5281/zenodo.8339809
title: FAIR assessment practices: Experiences from KonsortSWD and BERD@NFDI [Dataset 2 KonsortSWD]

description: The dataset refers to the poster, which presents FAIR assessment experiences in the context of the two NFDI consortia KonsortSWD and BERD@NFDI, employing the established Research Data Alliance's FAIR Data Maturity Model (RDA-FDMM) and the F-UJI Tool, an automated solution. RDA-FDMM, a manual technique, is more comprehensive, while the automated F-UJI tool effectively detects areas of improvement in metadata presentation that automated means can address. Our experiences highlight the need to examine both machine-readable as well as non-machine-readable elements and acknowledge automated tools' limitations, while valuing their insights. As the research ecosystem advances, metadata representation should be made increasingly machine-readable. We recommend a "FAIR by design" approach from the beginning to ensure alignment with FAIR principles in project outcomes. Continuous assessments during a project’s lifetime promote ongoing research data infrastructure improvements within the NFDI consortia context, contributing to NFDI infrastructure innovation and optimization.
description: KonsortSWD is funded by the German Research Foundation (DFG) within the framework of the NFDI – project number: 442494171.
DOI: 10.5281/zenodo.8339808
title: FAIR assessment practices: Experiences from KonsortSWD and BERD@NFDI [Dataset 2 KonsortSWD]

description: The dataset refers to the poster, which presents FAIR assessment experiences in the context of the two NFDI consortia KonsortSWD and BERD@NFDI, employing the established Research Data Alliance's FAIR Data Maturity Model (RDA-FDMM) and the F-UJI Tool, an automated solution. RDA-FDMM, a manual technique, is more comprehensive, while the automated F-UJI tool effectively detects areas of improvement in metadata presentation that automated means can address. Our experiences highlight the need to examine both machine-readable as well as non-machine-readable elements and acknowledge automated tools' limitations, while valuing their insights. As the research ecosystem advances, metadata representation should be made increasingly machine-readable. We recommend a "FAIR by design" approach from the beginning to ensure alignment with FAIR principles in project outcomes. Continuous assessments during a project’s lifetime promote ongoing research data infrastructure improvements within the NFDI consortia context, contributing to NFDI infrastructure innovation and optimization.
description: KonsortSWD is funded by the German Research Foundation (DFG) within the framework of the NFDI – project number: 442494171.
DOI: 10.5281/zenodo.8427765
title: Data for Technical note: Darkroom lighting for luminescence dating laboratory

description: An optimal lighting setting for the darkroom laboratory is fundamental for the accuracy of luminescence dating results. Here, we present the lighting setting implemented in the new Luminescence Dating Research Laboratory at Stony Brook University, USA. In this study, we performed spectral measurements on different light sources and filters. Then, we measured the optically stimulated luminescence (OSL) signal of quartz and the infrared stimulated luminescence (IRSL) at 50 °C (IR50) as well as post-IR IRSL at 290 °C (pIRIR290) signal of potassium (K)-rich feldspar samples exposed to various light sources and durations. Our ambient lighting is provided by ceiling fixtures, each equipped with a single orange light-emitted diode (LED). In addition, our task-oriented lighting, mounted below each wall-mounted cabinet and inside the fume hoods, is equipped with a dimmable orange LED stripline. The ambient lighting, delivering 0.4 lux at the sample position, induced a loss of less than 5 % (on average) in the quartz OSL dose after 24 h of exposure, and up to 5 % (on average) in the IR50 dose for the K-rich feldspar samples, with no measurable effect on their pIRIR290 dose. The fume hood lighting, delivering 1.1 lux at the sample position, induced a dose loss of less than 5 % in quartz OSL and K-rich feldspar IR50 doses after 24 h of exposure, with no measurable effect on their pIRIR290 dose. As light exposure during sample preparation is usually less than 24 h, we conclude that our lighting setting is suitable for luminescence dating darkrooms, it is simple, inexpensive to build, and durable.
description: This dataset contains the spectral measurements performed using a Qmini Wide VIS (AFBR-S20M2WV) spectrometer with an optic fiber P400-1-UV-VIS400. Suggested software for analysis: Excel
DOI: 10.5281/zenodo.8427764
title: Data for Technical note: Darkroom lighting for luminescence dating laboratory

description: An optimal lighting setting for the darkroom laboratory is fundamental for the accuracy of luminescence dating results. Here, we present the lighting setting implemented in the new Luminescence Dating Research Laboratory at Stony Brook University, USA. In this study, we performed spectral measurements on different light sources and filters. Then, we measured the optically stimulated luminescence (OSL) signal of quartz and the infrared stimulated luminescence (IRSL) at 50 °C (IR50) as well as post-IR IRSL at 290 °C (pIRIR290) signal of potassium (K)-rich feldspar samples exposed to various light sources and durations. Our ambient lighting is provided by ceiling fixtures, each equipped with a single orange light-emitted diode (LED). In addition, our task-oriented lighting, mounted below each wall-mounted cabinet and inside the fume hoods, is equipped with a dimmable orange LED stripline. The ambient lighting, delivering 0.4 lux at the sample position, induced a loss of less than 5 % (on average) in the quartz OSL dose after 24 h of exposure, and up to 5 % (on average) in the IR50 dose for the K-rich feldspar samples, with no measurable effect on their pIRIR290 dose. The fume hood lighting, delivering 1.1 lux at the sample position, induced a dose loss of less than 5 % in quartz OSL and K-rich feldspar IR50 doses after 24 h of exposure, with no measurable effect on their pIRIR290 dose. As light exposure during sample preparation is usually less than 24 h, we conclude that our lighting setting is suitable for luminescence dating darkrooms, it is simple, inexpensive to build, and durable.
description: This dataset contains the spectral measurements performed using a Qmini Wide VIS (AFBR-S20M2WV) spectrometer with an optic fiber P400-1-UV-VIS400. Suggested software for analysis: Excel