cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.n2z34tmzf
title: Environmental DNA provides quantitative estimates of Pacific hake abundance and distribution in the open ocean.

description: All species inevitably leave genetic traces in their environments, and the
 resulting environmental DNA (eDNA) reflects the species present in a given
 habitat. It remains unclear whether eDNA signals can provide quantitative
 metrics of abundance on which human livelihoods or conservation successes
 depend. Here, we report the results of a large eDNA ocean survey (spanning
 86,000 km2 to depths of 500m) to understand the abundance and distribution
 of Pacific hake Merluccius productus, the target of the largest finfish
 fishery along the west coast of the United States. We sampled eDNA in
 parallel with a traditional acoustic-trawl survey to assess the value of
 eDNA surveys at a scale relevant to fisheries management. Despite local
 differences, the two methods yield comparable information about the
 broad-scale spatial distribution and abundance. Furthermore, we find depth
 and spatial patterns of eDNA closely correspond to acoustic-trawl
 estimates for hake. We demonstrate the power and efficacy of eDNA sampling
 for estimating abundance and distribution and move the analysis eDNA data
 beyond sample-to-sample comparisons to management relevant scales. We
 posit that eDNA methods are capable of providing general quantitative
 applications that will prove especially valuable in data- or
 resource-limited contexts.
description: There are two main datasets for this paper. Both were collected
 during the 2019 U.S.-Canada Integrated Ecosystem & Acoustic-Trawl
 Survey for Pacific hake aboard the NOAA Ship Bell M. Shimada from July 2
 to August 19. The first is data associated hake DNA concentrations as
 identified in water samples collected and analyzed using qPCR analysis.
 The second dataset is estimates of hake biomass derived from analysis of
 the acoustic-trawl information. Refer to the primary manuscript for
 detailed information on data collection and processing
 protocols.
description: We provide scripts for reading in and manipulating data as well
 as estimating statistical models and visualizing result from the raw data.
 Please refer to scripts in the repository for mainpulations of the raw
 data.
DOI: 10.5061/dryad.00000005d
title: The evolution of morphological development is congruent with the species phylogeny in the genus Streptomyces

description: As the canonical model organism to dissect bacterial morphological
 development, Streptomyces species had attracted much
 attention from the microbiological society. However, the evolution of
 development-related genes in Streptomyces remains
 elusive. Here, we evaluate the distribution of development-related genes,
 thus indicating the majority of these genes were ubiquitous
 in Streptomyces genomes. Furthermore, we compare the
 phylogenetic topologies of related strict orthologous genes to the species
 tree of Streptomyces, from both concatenation and single-gene
 tree analyses. Meanwhile, the reconciled gene tree and normalization based
 on the number of parsimony-informative sites were also
 employed to reduce the impact of phylogenetic conflicts, which was induced
 by uncertainty in single-gene tree inference based merely on the
 sequence and the bias in the amount of phylogenetic information caused by
 variable numbers of parsimony-informative sites. We found
 that the development-related genes had higher congruence
 to the species tree than other strict orthologous genes. Considering the
 development-related genes could also be tracked back to the common
 ancestor of Streptomyces, these results suggest
 that morphological development follows the same pattern
 as species divergence.
DOI: 10.5061/dryad.1c59zw3x1
title: Fatty acid composition and content of seston, zooplankton, benthic invertebrates and fish in Lake Pyhäjärvi and Lake Köyliönjärvi

description: We evaluated how cyanobacteria bloom, driven by agricultural
 eutrophication (defined as an increase in nutrients) or global warming,
 influence fatty acid profiles of phytoplankton, zooplankton (Daphnia +
 Bosmina), and fish (roach and perch) in eutrophic Lake Köyliöjärvi
 and mesotrophic Lake Pyhäjärvi. Regarding the nutritional value
 of food web components, we evaluated changes in the ω-3 and ω-6
 polyunsaturated fatty acids (PUFA) of phytoplankton and consumers at
 different trophic levels. We report the fatty acid results as percentages
 (%) and content (µg FA mg-1 C-1).
description: Lipids were extracted from the
 freeze-dried seston, herbivorous zooplankton (<em>Daphnia</em>
 + <em>Bosmina</em>), benthic invertebrates, and fish samples
 in Kimax borosilicate tubes with chloroform-methanol (2:1) mixture. Fatty
 acids were methylated using mild sulfuric acid. Methyl esterified samples
 were analyzed on a Shimadzu GC-MS-QP2010 Ultra (Nishinokyo-Kuwabara-Cho,
 Kioto, Japan) with helium as carrier gas. Column was Zebron ZB-FAME (35 m
 x 0.25 mm x 0.20 µm). The temperature of the injector was 270 °C and we
 used a splitless injection mode (for one min). Temperatures of the
 interface and ion source were 250 °C and 220 °C, respectively. Phenomenex®
 (Torrance, California, U.S.A.) ZB-FAME column (30 m × 0.25 mm × 0.20 µm)
 with 5 m Guardian was used with the following temperature program: 50 °C
 was maintained for one min, then the temperature was increased at 10 °C
 min<sup>-1</sup> to 130 °C, followed by 7 °C
 min<sup>-1</sup> to 180 °C, and 2 °C
 min<sup>-1</sup> to 200 °C. This temperature was held for
 three minutes, and finally, the temperature increased 10 °C
 min<sup>-1</sup> to 260 °C. The total program time was 35.14
 minutes and the solvent cut time was nine minutes. Fatty acids were
 identified by the retention times (RT) and using specific
 ions which were also used
 for quantification (Taipale, Hiltunen, et al. 2016). Fatty acid
 concentrations were calculated using calibration curves based on known
 standard solutions (15 ng, 50 ng, 100 ng, and 250 ng) of a FAME standard
 mixture (GLC standard mixture 566c, Nu-Chek Prep, Elysian, MI, USA) and
 using recovery percentage of internal standards. The Pearson correlation
 coefficient was &gt;0.99 for each individual fatty acid calibration
 curve.
description: Diatom 16 PUFA includes 16:2ω7, 16:2ω4, 16:3ω4.
 Green algae 16 PUFA includes 16:2ω6, 16:3ω3 and 16:4ω3.
 Branched fatty acids (BrFA)
 includes FA of i14:0, i15:0, a15:0, i17:0 and
 a17:0.
DOI: 10.5281/zenodo.18212870
title: Dataset for a Scoping Review on AI-Supported Feedback in Higher Education (2010–2025)

description: This dataset supports a scoping review investigating the use of artificial intelligence (AI) to support feedback processes in higher education.

It includes bibliographic metadata, methodological characteristics, and analytical coding for 63 empirical studies published between 2010 and 2025. The dataset was developed following a systematic screening process based on the PRISMA framework and analysed using a structured codebook.

Variables cover study design, educational context, AI typologies and functions, characteristics of AI-generated feedback, pedagogical integration, human-in-the-loop configurations, reported impacts, ethical issues, limitations, and future research directions.

The dataset is intended to support transparency, replicability, and secondary analyses in research on AI-supported assessment and feedback practices in higher education.
DOI: 10.5281/zenodo.18212871
title: Dataset for a Scoping Review on AI-Supported Feedback in Higher Education (2010–2025)

description: This dataset supports a scoping review investigating the use of artificial intelligence (AI) to support feedback processes in higher education.

It includes bibliographic metadata, methodological characteristics, and analytical coding for 63 empirical studies published between 2010 and 2025. The dataset was developed following a systematic screening process based on the PRISMA framework and analysed using a structured codebook.

Variables cover study design, educational context, AI typologies and functions, characteristics of AI-generated feedback, pedagogical integration, human-in-the-loop configurations, reported impacts, ethical issues, limitations, and future research directions.

The dataset is intended to support transparency, replicability, and secondary analyses in research on AI-supported assessment and feedback practices in higher education.
DOI: 10.5061/dryad.866t1g1sc
title: Regional and local environment drive biogeographic patterns in intertidal microorganisms

description: Aim: Understanding large-scale spatial distribution patterns is not only a
 central goal of ecology but is also essential for conservation planning.
 Nevertheless, the biogeographical patterns of diversity and composition
 remain unclear for microorganisms and the role of various factors in
 structuring their assemblages is still poorly known. Here, we tested
 whether the diversity and community structure of ciliates are driven by
 both local environmental and regional dispersal-related processes.
 Location: Coasts of China. Taxon: Benthic ciliates. Results: We found that
 local environmental factors including BI, salinity and MPS were more
 important in shaping ciliate alpha diversity than latitude. However, the
 Shannon alpha diversity index decreased with latitude, perhaps due to
 anthropogenic disturbances. DistLM analysis emphasized regional processes
 in shaping community structure. Both NMDS and PERMANOVA supported a clear
 separation among the three clusters matching with the ecoregional
 delineations suggested for macroorganisms. We also note that community
 trait composition was partially explained by a local factor, i.e. the
 maximum spring tide range of beaches. Main conclusions: Ciliate
 communities were driven by both local environmental and regional factors.
 We suggest that these biogeographic patterns may have stemmed from
 large-scale environmental filtering related to the outflow of Yangtze
 River, rather than from dispersal limitation or historical events. The
 current study provides a new understanding of the biogeographic patterns
 and underlying mechanisms of marine microorganisms, thus helping improve
 their management and conservation in the face of future global change.
description: We sampled ciliates at 30 sandy beaches covering a latitudinal
 range of over 2500 km from October to November 2020. We first used
 generalized linear models to examine the most important predictors of
 ciliate alpha diversity. Then, distance-based linear models (DistLM) were
 used to identify the relative importance of local and regional variables
 in explaining community structure variability. We further used nonmetric
 multidimensional scaling (NMDS) and permutational multivariate analysis of
 variance (PERMANOVA) to reveal patterns in community structure.
DOI: 10.5061/dryad.6wwpzgn1j
title: Quantifying heritability and estimating evolutionary potential in the wild when individuals that share genes also share environments

description: Accurate heritability estimates for fitness-related traits are required to
 predict an organism’s ability to respond to global change. Heritability
 estimates are theoretically expected to be inflated if, due to limited
 dispersal, individuals that share genes are also likely to share similar
 environments. However, if relatives occupy similar environments due, at
 least partly, to genetic variation for habitat selection, then accounting
 for environmental similarity in quantitative genetic models may result in
 diminished heritability estimates in wild populations. This potential
 issue has been pointed out in the literature, but has not been evaluated
 by empirical studies.Here, we investigate whether environmental similarity
 among individuals can be partly explained by genetic variation for habitat
 selection, and how this link potentially blurs estimates for heritability
 in fitness-related traits.Using intensive GPS-monitoring, we quantified
 home-range habitat composition for 293 roe deer inhabiting a heterogeneous
 landscape to assess environmental similarity. To investigate if
 environmental similarity might harbour genetic variation, we combined
 genome-wide data in a quantitative genetic framework to evaluate genetic
 variation for home-range habitat composition, which is partly the result
 of habitat selection at settlement. Finally, we explored how environmental
 similarity affects heritability estimates for behaviours related to the
 risk avoidance-resource acquisition trade-off (i.e. being in open habitat,
 distance to roads) and proxies of individual performance (i.e. body mass,
 hind foot length). We found substantial heritability for home-range
 habitat composition, with estimates ranging from 0.40 (proportion of
 meadows) to 0.85 (proportion of refuge habitat). Accounting for similarity
 in habitat composition between relatives decreased the heritability
 estimates for both behavioural and morphological traits (reduction ranging
 from 55% to 100% and from 22% to 41%, respectively). As a consequence,
 only half of these heritability estimates remained significantly different
 from zero.Our results show that similar genotypes occupy similar
 environments, which could lead to heritable variation being incorrectly
 attributed to environmental effects. To accurately distinguish the sources
 of phenotypic variation and predict the ability of organisms to respond to
 global change, it is necessary to develop quantitative genetic studies
 investigating the mechanisms underpinning environmental similarity among
 relatives.
DOI: 10.5061/dryad.4qrfj6qc5
title: Using seabird and whale distribution models to estimate spatial consumption of krill to inform fishery management

description: Ecosystem dynamics at the north-west Antarctic Peninsula are driven by
 interactions between physical and biological processes. For example,
 baleen whale populations are recovering from commercial harvesting against
 the backdrop of rapid climate change, including reduced sea-ice extent and
 changing ecosystem composition. Concurrently, the commercial harvesting of
 Antarctic krill is increasing, with the potential to increase the
 likelihood for competition with and between krill predators and the
 fishery. However, understanding the ecology, abundance, and spatial
 distribution of krill predators is often limited, outdated, or at spatial
 scales that do not match those desired for effective fisheries management.
 We update current knowledge of predator dependence on krill by integrating
 telemetry-based data, at-sea observational surveys, estimates of predator
 abundance, and physiological data to estimate the spatial distribution of
 krill consumption during the austral summer by three species of Pygoscelis
 penguin, 11 species of flying seabirds, one species of pinniped and two
 species of baleen whale. Our models show that the majority of important
 areas for krill-predator foraging are close to penguin breeding colonies
 in nearshore areas where humpback whales also regularly feed, and along
 the shelf-break, though we caution that not all known krill predators are
 included in these analyses. We show that krill consumption is highly
 variable across the region, and often concentrated at fine spatial scales,
 emphasising the need for management of the local krill fishery at relevant
 temporal and spatial scales. We also note that krill consumption by
 recovering populations of krill predators provides further evidence in
 support of the krill surplus hypothesis, and highlight that despite less
 than comprehensive data, cetaceans are likely to consume a significant
 proportion of the krill consumed by natural predators but are not
 currently considered directly in the management of the krill fishery. If
 management of the krill fishery is to be precautionary and operate in a
 way that minimises the risks to krill predator populations, it will be
 necessary in future analyses, to include up-to-date and precise abundance
 and consumption estimates for pack-ice seals, finfish, squid, and other
 baleen whale species not currently considered.
description: Please see:
 README_furseal_seabirdsightings,
 README_whaletracking README_species
 distribution rasters
DOI: 10.5061/dryad.jdfn2z3cq
title: The genetic and social contributions to sex differences in lifespan in Drosophila serrata

description: Sex differences in lifespan remain an intriguing puzzle in evolutionary
 biology. While explanations range from sex differences in selection to sex
 differences in the expression of recessive lifespan-altering mutations
 (via X-linkage), little consensus has been reached. One unresolved issue
 is the extent to which genetic influences on lifespan dimorphism are
 modulated by the environment. For example, studies have shown that
 sex-differences in lifespan can either increase or decrease depending upon
 the social environment. Here we took an experimental approach,
 manipulating multiple axes of social environment across inbred long- and
 short-lived genotypes and their reciprocal F1s in the fly Drosophila
 serrata. Our results reveal strong genetic effects and subtle yet
 significant genotype-by-environment interactions for male and female
 lifespan, specifically due to both population density and mating
 status.  Further, our data do not support the idea that
 unconditional expression of deleterious X-linked recessive alleles in
 heterogametic males accounts for lower male lifespan.
DOI: 10.5061/dryad.cnp5hqc69
title: Reevaluating trophic discrimination factors (Δδ13C and Δδ15N) for diet reconstruction

description: Stable isotope analysis is increasingly used to assess diet and trophic
 positions of animals. Such assessments require estimates of trophic
 discrimination factors (TDF — offset between the isotopic composition of
 diet and animal tissues), with imprecise applications of TDFs leading to
 biased conclusions in resource use. Because TDFs are unavailable for most
 species, ecologists often apply values from taxonomically similar species
 or use trophic step increases of about 1‰ for carbon (TDF-δ13C) and 3‰ for
 nitrogen (TDF-δ15N). Such practices may be inaccurate since TDFs vary
 greatly, even within a species. To better understand the factors that
 influence TDFs, we conducted a meta-analysis of TDF-δ13C and TDF-δ15N for
 mammals and quantified variation in relation to consumer
 type (herbivore, omnivore, carnivore) and diet
 source (C3-based, C4-based, marine-based, mixture). Additionally,
 to guide TDF choice, we used an isotopic dataset of small mammal tissues
 and diet items to assess how predicted dietary contributions vary with
 TDFs estimated using (1) taxonomic relatedness, (2) consumer type and diet
 source, or (3) values derived from wild animals eating natural diets. Our
 meta-analysis revealed that metabolic routing and interactions between
 consumer class, dietary source, and the protein versus energy content of
 diets best explained variation in TDF-δ13C values (-1.5 to 7.3‰), whereas
 consumer class best explained variation in TDF-δ15N values (-0.5 to 7.1‰).
 Our test of methods to estimate TDFs indicated that ecologists should
 avoid relying on taxonomic relatedness when selecting TDF-δ13C, as
 mixed-diet lab studies may cause misleading results for herbivores and
 omnivores. Additionally, field-derived estimates could help fill TDF gaps
 where diets within a consumer class are absent. Overall, we suggest that
 using standard TDF trophic step values should be abandoned, as feeding
 studies are often poor proxies for natural diets, particularly for
 herbivores and omnivores. Instead, we provide recommendations on how to
 select TDFs, along with a range of TDF-δ13C and TDF-δ15N values depending
 on diet source, consumer class, and tissue type. Use of these more refined
 recommendations and TDF values in isotopic assessments will improve
 estimates of diets and trophic interactions in natural systems, leading to
 a better understanding of ecological interactions and communities.
description: See manuscript for details on data collection.
DOI: 10.5061/dryad.cjsxksn79
title: Algal growth, bumblebee colony and individual development, bee behavior and yield of oilseed rape under a trophic cascade and extreme weather

description: Trophic cascades in the aquatic environment constitute important
 mechanisms for improving water quality. However, how
 the presence or non-presence of these
 trophic cascades may affect interactions across the aquatic-terrestrial
 interface remains poorly investigated. Pollinators such as bees may be
 especially vulnerable to changes in water resource quality induced by
 trophic cascades. Understanding how aquatic trophic cascades affect bees
 and pollination becomes even more pressing under ongoing climate change
 due to increased physiological demands for water under extreme weather
 events.In a novel field experiment combining terrestrial and aquatic
 mesocosms, we aimed to test how changes in water quality induced by an
 aquatic trophic cascade affected foraging and growth of bumblebee
 colonies as well as foraging of solitary bees. While we expected fish
 predation to reduce top-down control of zooplankton on phytoplankton and
 thereby, indirectly, induce increased growth of toxic cyanobacteria, we
 instead found the trophic cascade to induce the formation of algal surface
 mats that bumblebees used to access water under a severe heat wave and
 drought. This access to water was associated with higher bumblebee colony
 reproductive success, growth and weight compared to control colonies with
 no trophic cascade induced (and hence no algal surface mats). We also
 found marginal but non-significant effects on
 oilseed rape yield, but surprisingly with higher yields in the control
 treatment where bumblebees could not access water.Our results provide new
 insights on how aquatic trophic cascades can lead to unpredicted
 ecological interactions across the aquatic-terrestrial interface
 facilitated by climate change. Our study highlights the importance of
 water for the fitness of terrestrial ecosystem service providers under
 altered environmental conditions.
DOI: 10.5061/dryad.0gb5mkm33
title: Application of an improved calibration flight scheme in aeromagnetic interference compensation

description: In aeromagnetic measurement, accurate compensation for the interference
 magnetic field generated by the aircraft platform due to the aircraft
 maneuvering in the Earth’s magnetic field is an important prerequisite for
 the accurate indentification of the magnetic anomaly signal of the
 detection target. The flaws of the traditional calibration flight scheme
 in aeromagnetic interference compensation are firstly analyzed, and then
 an improved scheme is proposed, featuring smaller calibration flight
 areas, more simplified maneuvers, shorter flight route and less influence
 from the magnetometer’s direction. The improved scheme can enhance the
 robustness of the aeromagnetic interference compensation matrix, and
 improve the compensation efficiency, and thus both the solved magnetic
 compensation coefficients and compensation effects are significantly
 improved. The experimental results of aeromagnetic interference
 compensation in an area of Inner Mongolia of China show that the average
 accuracy of the repeated survey lines, which are compensated by the
 improved scheme, can be increased by 5 nT and 3 nT, respectively, compared
 with the uncompensated results and the results compensated by the
 traditional scheme. Therefore, the effectiveness and superiority of the
 improved calibration flight scheme is fully proved.