cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.t4b8gtj6r
title: Diet and the evolution of ADH7 across seven orders of mammals

description: Dietary variation within and across species drives the eco-evolutionary
 responsiveness of genes necessary to metabolize nutrients and other
 components. Recent evidence from humans and other mammals suggests that
 sugar-rich diets of floral nectar and ripe fruit have favored mutations
 in, and functional preservation of, the ADH7 gene, which encodes the ADH
 class 4 enzyme responsible for metabolizing ethanol. Here we interrogate a
 large, comparative dataset of ADH7 gene sequence variation, including the
 amino acid residue located at key site 294 that regulates the affinity of
 ADH7 for ethanol. Our analyses span 171 mammal species, including 59 newly
 sequenced. We report extensive variation, especially among frugivorous and
 nectarivorous bats, with potential for functional impact, and widespread
 variation in the retention and probable pseudogenization of ADH7. However,
 we find little statistical evidence of a broad impact of diet on putative
 ADH7 function or tuning at site 294 across mammals, suggesting that the
 evolution of ADH7 is shaped by complex factors. Our study reports
 extensive new diversity in a gene of longstanding ecological interest,
 offers new sources of variation to be explored in functional assays in
 future studies, and advances our understanding of the processes of
 molecular evolution.
description: We used two complementary approaches to examine ADH7 sequence
 variation: 1) a targeted-capture massively-parallel sequencing approach,
 and 2) amplification of exon 7 followed by a Sanger sequencing approach.
 Sanger sequencing was completed on an Applied Biosystems 3730xl (96
 capillary) Genetic Analyzer using BigDye Terminator chemistry. For the
 target capture approach, we used a custom set of ​​biotinylated RNA probes
 (myBaits®, Arbor Biosciences, Ann Arbor, MI) to capture the ADH7 coding
 region, followed by sequencing on an Illumina NextSeq 500 using a 2x150
 paired end NextSeq 500/550 mid-output v2.5 (300 Cycles) kit.<strong>
 </strong>We removed adapters and trimmed Illumina short-reads using
 BBDuk from the BBTools suite (Bushnell
 2018). We removed bases lower than q=10 from the left and right
 ends of reads and only retained reads that were at least 25 bases long
 after trimming. We used the pipeline HybPiper
 (https://github.com/mossmatters/HybPiper/wiki) to map, extract, and
 assemble gene sequences from the targeted enrichment sequencing
 reads.
DOI: 10.5061/dryad.k6djh9wc5
title: Dataset for: How eDNA data filtration, sequence coverage, and primer selection influence assessment of fish communities in northern temperate lakes

description: For nearly 15 years now, environmental DNA has demonstrated its
 effectiveness in monitoring biodiversity. Methodological and technical
 improvements have significantly enhanced the field. However, the effect of
 factors such as sequence coverage, bioinformatic filtration and primer
 choice have been less explored or need to be optimized according to
 specific survey objectives and study site characteristics. We evaluated
 these factors to help optimize monitoring fish biodiversity in North
 American temperate lakes. We sampled water for fish community eDNA
 analysis in 12 lakes from southwestern Québec, Canada. The lakes were
 selected to encompass a wide range of surface areas and species richness.
 We sampled water from a total of 520 sites (25 to 50 per lake) and
 analyzed three mitochondrial DNA regions (12S rRNA; 16S rRNA; and cytb)
 using NovaSeq sequencing. Our results, based on rarefied count matrices
 (from a sequencing depth of 100,000 to a minimum depth of 1,000 reads per
 sample), showed that keeping only species in each sample if they
 represented at least one thousandth (species minimum read proportion
 threshold = 0.001) of the sample's reads was adequate to remove false
 positives and had a limited negative impact on true positives with low
 read counts. The sequencing depth was found to have a negligible impact on
 the accuracy of fish community assessment in a given lake. With the same
 sequencing depth and a complete local reference database for each primer
 set, a single primer set produced similar species richness medians than
 the combination of two or three primer sets. Overall, 12S and 16S detected
 more species and provided more consistent community profiles than cytb.
 Based on our observations, we suggest using the 12S MiFish-U primer set
 and applying a minimum proportion of 0.001 reads per species and site to
 monitor north-temperate lentic freshwater fish communities.
DOI: 10.14749/31170373
title: South African Informal Sector Innovation Survey (IIS) 2017-18: Sweetwaters baseline - Aggregated

description: &lt;p&gt; This aggregated data set contains the responses of South African small and informal business enterprises on their innovation activities carried out between 2017 and 2018. It is distinct from grassroots innovation, defined as &ldquo;a diverse set of activities in which networks of neighbours, community groups and activists work with people to generate bottom-up solutions for sustainable development&rdquo; (DST, 2018), as well as social innovation.&lt;/p&gt;&lt;p&gt; Response rate = 100 x [Responses/(Responses + Non-responses - Out-of-scopes)]&lt;/p&gt;&lt;p&gt; In total, 1,289 businesses were approached, of which 996 completed the survey. The survey achieved an overall response rate of 77.3%.&lt;/p&gt;
DOI: 10.5061/dryad.2547d7wwv
title: Genetic and behavioral factors affecting interpopulation color pattern variation in two congeneric chameleon species

description: We conducted a study on interpopulation variation of color patterns in two
 congeneric chameleon species, which have an analogous life history. Both
 species are able to rapidly change color pattern, and context-dependent
 color patterns often vary across a wide geographic range. Specifically, we
 tested four hypotheses that can explain the observed interpopulation
 variation of color patterns by a series of behavioral field trials where
 the color patterns of individuals were recorded and later analyzed by a
 deep neural network algorithm. We used redundancy analysis (dbRDA) to
 relate genetic, spectral, and behavioral predictors to interpopulation
 color pattern distance. Our results showed that both isolation by distance
 and alternative mating tactics were significant predictors for
 interpopulation color pattern variation in Chamaeleo chamaeleon males. In
 contrast, in C. dilepis, the interpopulation color pattern variation was
 largely explained by isolation by distance, and the evidence for
 alternative mating tactics was absent. In both chameleon species, the
 environmental colors showed no evidence of influencing chameleon
 interpopulation color pattern variation, regardless of sex or behavioral
 context. This contrasting finding suggests that interpopulation
 context-dependent color pattern variations in each species are maintained
 under a different set of selective pressures or circumstances.
description: Image library of the color
 patterns on the lateral side of <em>Chamaeleo</em>
 <em>chamaeleon</em> and
 <em>Chamaeleo</em>
 <em>dilepis</em>. The white balance of all images was standardized
 prior to the analysis using the spectral reflectance of the color board
 (GretagMacBeth ColorChecker chart) and the Photoshop software. Location,
 sex, body weight and snout-vent length are provided for each specimen in
 Excel tables. The images are sorted by species, location, and social
 context (female-female (FF), female-male (MF), and male-male (MM) matches,
 and single individual on a pole). 
description: Any software that can handle raster images.
description: Genetic and behavioral factors affecting interpopulation color pattern
 variation in two congeneric chameleon species Tammy Keren-Rotem, Devon C.
 Main, Adi Barocas, David Donaire-Barroso, Michal Haddas-Sasson, Carles
 Vila, Tal Shaharabany, Lior Wolf, Krystal A. Tolley, and Eli Geffen Image
 library of the color patterns on the lateral side of Chamaeleo chamaeleon
 and Chamaeleo dilepis. The white balance of all images was standardized
 prior the analysis using the spectral reflectance of the color board
 (GretagMacBeth ColorChecker chart) and the Photoshop software. Location,
 sex, body weight and snout-vent length are provided for each specimen in
 Excel tables. The images are sorted by species, location, and social
 context (female-female (FF), female-male (MF), and male-male (MM) matches,
 sand ingle individual on a pole). In the Excel data files, NA = data is
 not available
DOI: 10.5061/dryad.stqjq2c7x
title: Data from: Identification of anti-fungal bioactive terpenoids from the bioenergy crop switchgrass (Panicum virgatum)

description: Plant derived bioactive small molecules have attracted attention of
 scientists across fundamental and applied scientific disciplines. We seek
 to understand the influence of these phytochemicals on functional
 phytobiomes. Increased knowledge of specialized metabolite bioactivities
 could inform strategies for sustainable crop production. We hypothesized
 that – consistent with accumulating evidence that switchgrass genotype
 impacts microbiome assembly – differential terpenoid accumulation
 contributes to switchgrass ecotype-specific microbiome composition. An
 initial in vitro plate-based disc diffusion screen of 18 switchgrass root
 derived fungal isolates revealed differential responses to upland- and
 lowland-isolated metabolites. To identify specific fungal
 growth-modulating metabolites, we tested fractions from root extracts on
 three ecologically important fungal isolates – Linnemania elongata,
 Trichoderma sp. and Fusarium sp. Saponins and diterpenoids were identified
 as the most prominent antifungal metabolites. Finally, analysis of liquid
 chromatography-purified terpenoids revealed fungal inhibition structure –
 activity relationships (SAR). Saponin antifungal activity was primarily
 determined by the number of sugar moieties – saponins glycosylated at a
 single core position were inhibitory whereas saponins glycosylated at two
 core positions were inactive. Saponin core hydroxylation and acetylation
 were also associated with reduced activity. Diterpenoid activity required
 the presence of an intact furan ring for strong fungal growth inhibition.
DOI: 10.5061/dryad.hqbzkh1n4
title: Data from: Optimisation design and analysis of mobile pump truck frame using response surface methodology

description: In order to realize the lightweight design of mobile pump truck, this
 paper takes the frame of a certain type of mobile pump truck as the
 research object. The response surface method is used to carry out
 lightweight design of the longitudinal beam structure of the frame, and
 the finite element method is used to establish the finite element model to
 analyze and compare the frame before and after optimization.The results
 show that the height, width and thickness of the optimized longitudinal
 beam section are reduced by 10 mm, 11 mm, and 0.8 mm respectively, and the
 weight of the whole frame is reduced by 35.8 kg. Before and after
 optimization, the displacement and stress changes of the frame are small
 in four motion situations, which meet the lightweight requirements of
 optimization design.
description: # Data from: Optimisation design and analysis of mobile pump truck frame
 using response surface methodology All data used in this manuscript could
 be found in the submitted “data” file. Fig. 1 and Fig. 2 in section 2 have
 been created into separate subfolders in the data file. Fig. 1 shows the
 3D solid model of vehicle body and Fig. 2 shows the Meshing of vehicle
 body. The “Fig. 3 Optimization of the design process” folder contains the
 data related to Fig. 3, including Fig. 3 and the raw data. The “Fig. 4
 Shape of longitudinal beam section” folder contains the schematic diagram
 of longitudinal beam section and the original CAD data file. Where **h**
 is the height of the longitudinal beam section, **b** is the width of the
 longitudinal beam section, and **t** is the thickness of the longitudinal
 beam section. There are nine separate raw data files in the “Fig. 5
 Response surface graph of lightweight model” folder. These data files use
 the drawing software Origin to generate the response surface graph of the
 lightweight model in this paper. The three variables included in the data
 file are height **h**, width **b** and thickness **t** respectively, **ω**
 represents the maximum displacement of the moving pump truck frame, **σ**
 represents the maximum stress of the moving pump truck frame, and **m**
 represents the weight of the moving pump truck frame. The “Fig. 6
 Schematic diagram of the monitoring path” folder contains the schematic
 diagram of the monitoring path. In the related folders shown in Figure
 7-14, each folder contains three separate raw data files, all of which can
 be used to generate a corresponding line graph using the drawing software
 Origin. In the relevant data file of Figure 7-14, **l** represents the
 length, **ω** represents the maximum displacement of the moving pump truck
 frame, **σ** represents the maximum stress of the moving pump truck frame.
DOI: 10.5061/dryad.3j9kd51q6
title: Data from: Washington, Oregon, and California eelgrass restoration database

description: Seagrass habitats, which provide essential ecosystem functions such as
 water quality improvement, biodiversity support, ocean acidification
 amelioration, and sediment carbon storage, are declining worldwide.
 Eelgrass (Zostera marina) habitats along the contiguous U.S. west coast
 are threatened by conflicting human uses and global change, resulting in
 significant protections and efforts to restore areas where habitat is
 extant or degraded. Despite a history of eelgrass restoration in this
 region spanning nearly 60 years, very little work has been published on
 the subject. Here, we conduct a review of all available literature on
 eelgrass restoration projects conducted in California, Oregon, and
 Washington. Of the 82 restoration projects included in this analysis,
 which occurred from 1989 to 2020, only 6 were published in peer-reviewed
 journals. Thus, despite the precedent for conducting restoration, a lack
 of data availability makes assessing regional success, drivers of failure,
 and best practices extremely difficult. From this synthesis, we find that
 the majority of restoration projects (73%) have occurred for mitigation
 (compliance) purposes, contributing to the lack of peer-reviewed
 literature on the subject. We find that while eelgrass mitigation policies
 serve to maintain eelgrass structure and regional acreages, they do not
 facilitate assessments of habitat function or incentivize advancements in
 regional best practices. We also find that when we could evaluate project
 outcomes, 32.3 to 59.6% of restoration plots were unsuccessful by the end
 of the project, but this percentage is highly dependent on how success is
 defined. According to restoration practitioners, failure was likely to
 result from environmental factors such as light, nutrients, or macroalgal
 blooms, but was occasionally due to logistical factors such as restoration
 method or approach. From this work, we recommend a standardized,
 evidence-based approach to restoration, improved data sharing practices,
 and careful consideration of existing eelgrass mitigation practices. As
 marine habitat restoration enters a new global stage, backed by public and
 private investment, burgeoning carbon markets, and global biodiversity
 initiatives, it is essential to learn from past work to understand and
 improve seagrass conservation and restoration success.
description: Collected via meta-analysis approach - primary and grey
 literature search.
description: Missing data code for the file
 database_master_DRYADPUBLISHEDVERSION is NA.
DOI: 10.25345/c5j960p95
title: MassIVE MSV000100619 - BitterSweetDB: MS/MS database of phytochemical diversity across tissues and ontogeny in S. dulcamara
title: BitterSweet DB contains MS/MS spectra generated from extracts orginating from aqueous methanolic extracts of different organs across ontogeny in three different genetic backgrounds segregating for steroidal glycoside profiles.
DOI: 10.5061/dryad.z08kprrjg
title: Conversational skills 6m infants

description: We conducted an experiment to test the influence of sociodemographic
 factors on the reaction to turn-taking violation in 6 months old infants.
description: Looking time has been coded from video using Noldus The Observer
 software. Data were extracted to be processed in excel
DOI: 10.5281/zenodo.18385830
title: Indoor Environmental Quality Measurements of University Lecture Halls

description: This repository contains time series indoor environmental data for a full academic year in three university lecture halls (i.e., A, B, and C) located in Limassol, Cyprus. Airthings Space Pro sensors were deployed in each room to monitor and record various IEQ parameters, as listed below.

The three separate datasets, one for each room, cover the period from 01/09/23 to 31/08/24. Measurements are available every 5 or 2 minutes. In addition, the detailed characteristics of the monitored spaces including room dimensions and ventilation type are provided in a separate file.

The available parameters are:



recorded: Sensor timestamp

PM2_5(μg/m3): Particulate matter with a diameter of less than 2.5 micrometers

CO2 (ppm): Carbon dioxide

HUMIDITY (%): Relative humidity

TEMP (°C): Temperature

VOC (ppb): Volatile Organic Compounds

PRESSURE (hPa): Air pressure

PM1(μg/m3): Particulate matter with a diameter of less than 1 micrometer

SOUND_LEVEL (dBA SPL): Sound Level

LIGHT (%): Relative Light Intensity


This repository contains the following:



Lecture Hall A_raw data.csv

Lecture Hall B_raw data.csv

Lecture Hall C_raw data.csv

Lecture Halls Characteristics.csv
DOI: 10.5281/zenodo.18385829
title: Indoor Environmental Quality Measurements of University Lecture Halls

description: This repository contains time series indoor environmental data for a full academic year in three university lecture halls (i.e., A, B, and C) located in Limassol, Cyprus. Airthings Space Pro sensors were deployed in each room to monitor and record various IEQ parameters, as listed below.

The three separate datasets, one for each room, cover the period from 01/09/23 to 31/08/24. Measurements are available every 5 or 2 minutes. In addition, the detailed characteristics of the monitored spaces including room dimensions and ventilation type are provided in a separate file.

The available parameters are:



recorded: Sensor timestamp

PM2_5(μg/m3): Particulate matter with a diameter of less than 2.5 micrometers

CO2 (ppm): Carbon dioxide

HUMIDITY (%): Relative humidity

TEMP (°C): Temperature

VOC (ppb): Volatile Organic Compounds

PRESSURE (hPa): Air pressure

PM1(μg/m3): Particulate matter with a diameter of less than 1 micrometer

SOUND_LEVEL (dBA SPL): Sound Level

LIGHT (%): Relative Light Intensity


This repository contains the following:



Lecture Hall A_raw data.csv

Lecture Hall B_raw data.csv

Lecture Hall C_raw data.csv

Lecture Halls Characteristics.csv
DOI: 10.5061/dryad.1jwstqk0w
title: Data from: Rye planting date impacts biomass production more than seeding rate and nitrogen fertilizer

description: This zipped folder contains the code and datasets used for an experiment
 conducted over six years (2015–2020) at the Wiregrass Research and
 Extension Center in Headland, AL to examine rye biomass production.
 Treatments included four planting dates (late October, early November,
 late November, and early December), two seeding rates ( 67 and 101 kg
 ha-1), and four nitrogen rates (0, 34, 67, and 101 kg ha-1) replicated
 four times for a total of 128 observations each year. Measured and/or
 calculated variables from the data set included biomass, total C and N
 concentrations for the plant material, C:N ratio, N uptake values, as well
 as cost info for the biomass. In addition, there are three years of peanut
 yield data (2015, 2017, 2019) and only two years of cotton yield data
 (2016, 2020).  No cotton data was collected for 2018 due to
 hurricane damage.  Initial and final soil total C values were
 also measured across the 0 and 101 kg N ha-1 rates for the 67 kg ha-1
 seeding rate.  
description: All data is contained in a non-proprietary CSV format or R
 scripts.
DOI: 10.15468/dl.sp7uz8
title: Occurrence Download

description: A dataset containing 552 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is one of (China, Macao, Chinese Taipei, Hong Kong)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Artemisia desertorum"
 ]
}

 The dataset includes 552 records from 17 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003552-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.sxksn037x
title: Bacterial mediated green synthesis of silver nanoparticles and their antibacterial and antifungal activities against drug-resistant pathogens

description: In the healthcare sector, the production of bioactive silver nanoparticles
 (AgNPs) with antimicrobial properties is of great importance. In this
 study, a novel bacterial strain, Paenibacillus sp. MAHUQ-63, was
 identified as a potential candidate for facile and rapid biosynthesis of
 AgNPs. The synthesized AgNPs were used to control the growth of human
 pathogens, Salmonella Enteritidis and Candida albicans. The bacterial
 culture supernatant was utilized to synthesize the nanoparticles. FE-TEM
 examination showed spherical-shaped nanoparticles with 15 to 55 nm in
 size. FTIR analysis identified various functional groups. The synthesized
 AgNPs demonstrated remarkable activity against S. Enteritidis and C.
 albicans. The zone of inhibition (ZOI) for 100 µL (0.5 mg/mL) of AgNPs
 against S. Enteritidis and Candida albicans were 18.0 ± 1.0 and 19.5 ± 1.3
 mm, respectively. The minimum inhibitory concentrations (MICs) were 25.0
 and 12.5 μg/mL against S. Enteritidis and Candida albicans, respectively.
 Additionally, the minimum bactericidal concentrations (MBC) were 25.0
 μg/mL against both pathogenic microbes. The FE-SEM analysis showed that
 the treatment of AgNPs caused morphological and structural damage to both
 S. Enteritidis and Candida albicans. Therefore, these AgNPs can be used as
 a new and effective antimicrobial agent.
description: This README file was generated by Md. Amdadul Huq. GENERAL INFORMATION
 Title of Dataset: Bacterial mediated green synthesis of silver
 nanoparticles and their antibacterial and antifungal activities against
 drug resistant pathogens Author Information Principal Investigator Contact
 Information: Name: Md. Amdadul Huq Institution: ChungAng University
 Address: Anseong, Gyeonggido, 17546, Republic of Korea Email:
 amdadbge@gmail.com DATA and FILE OVERVIEW File list: Figure 3 C: UV vis
 characterization: UV vis absorption peak data of Paenibacillus sp MAHUQ 63
 mediated synthesized AgNPs SHARING/ACCESS INFORMATION
 Licenses/restrictions placed on the data: CC0 1 Universal Public Domain.
 Links to publications that cite or use the data: Huq, M. A., Khan, A. A.,
 Alshehri, J. M., Rahman, M. S., Balusamy, S. R., & Akter, S. 2023.
 Bacterial mediated green synthesis of silver nanoparticles and their
 antibacterial and antifungal activities against drug resistant pathogens.
 Recommended citation for this dataset: Huq, Md. Amdadul et al. Forthcoming
 2023. Bacterial mediated green synthesis of silver nanoparticles and their
 antibacterial and antifungal activities against drug resistant pathogens
 [Dataset]. Dryad. https://doi.org/10.5061/dryad.sxksn037x