cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.zpc866tbj
title: Clines on the seashore: The genomic architecture underlying rapid divergence in the face of gene flow

description: Adaptive divergence and speciation may happen despite opposition by gene
 flow. Identifying the genomic basis underlying divergence with gene flow
 is a major task in evolutionary genomics. Most approaches (e.g., outlier
 scans) focus on genomic regions of high differentiation. However, not all
 genomic architectures potentially underlying divergence are expected to
 show extreme differentiation. Here, we develop an approach that combines
 hybrid zone analysis (i.e., focuses on spatial patterns of allele
 frequency change) with system-specific simulations to identify loci
 inconsistent with neutral evolution. We apply this to a genome-wide SNP
 set from an ideally suited study organism, the intertidal snail Littorina
 saxatilis, which shows primary divergence between ecotypes associated with
 different shore habitats. We detect many SNPs with clinal patterns, most
 of which are consistent with neutrality. Among non-neutral SNPs, most are
 located within three large putative inversions differentiating ecotypes.
 Many non-neutral SNPs show relatively low levels of differentiation. We
 discuss potential reasons for this pattern, including loose linkage to
 selected variants, polygenic adaptation and a component of balancing
 selection within populations (which may be expected for inversions). Our
 work is in line with theory predicting a role for inversions in
 divergence, and emphasizes that genomic regions contributing to divergence
 may not always be accessible with methods purely based on allele frequency
 differences. These conclusions call for approaches that take spatial
 patterns of allele frequency change into account in other systems.
DOI: 10.5061/dryad.v9s4mw6zt
title: Locations of GPS-collared moose and geographic correlates, as well as for random points within study area

description: Moose are among the many species that are vulnerable to both direcdt and
 indirect effects of climate change. Habitat selection is one framework to
 assist investigators in disentangling the various factors (including
 weather) that ultimately dictate how animals respond to their environment.
 We investigated patterns of winter habitat selecdtion by adult female
 moose in southerwestern MOntana, USA, during 2007-2010, and how that
 selection was affected by snow (quantified by snow water equivalent) and
 winter temperatures. We used data from GPS colalrs and a suite of
 environmental covariates to quantify winter habitat selection at both
 study area (2nd order) and home range (3rd order) spatial scales using
 resource selection functions. Moose strongly select for the willow (Salix
 spp.) cover type, and against grassland cover. Moose use of conifer cover
 at the home range scale increased when either amount of snow or ambient
 temperature was higher, altough the latter only during periods of the day
 when conifer pathces were likely to have been cooler than cover types
 lacking a canopy. Wildlife conservatoin and management naturally focuses
 on preferred habitats, particularly those that fulfill essentially all
 forgaing requirements. However, habitats used preferentially under
 stresful weather conditions, even if used rarely overall, can also form a
 critical part of a species' overall needs.,
description: Adult female moose were captured from a helicopter using
 immobilizing drugs, and fitted with GPS collars. Locations for moose were
 downloaded, and compared with habitat characteristics available from
 remote sensing sources, as well as with estimates of daily temperature and
 snow conditions from a nearby weather station.
DOI: 10.5281/zenodo.18393674
title: Modulating conscious perception through pre and post auditory cues
DOI: 10.5281/zenodo.18393675
title: Modulating conscious perception through pre and post auditory cues
DOI: 10.5061/dryad.tht76hf25
title: Data: Slaughter parameters in pigs of Irish origin (100-120 kg)

description: The objective of the experiment was to determine the effect of
 pre-slaughter weight growth from 100 to 120 kg on the change of slaughter
 indicators in Landrace pigs of Irish origin. Two groups with equal numbers
 of gilts and barrows were fattened in identical piggeries. Two groups with
 equal numbers of gilts and barrows were fattened in identical piggeries
 and then they were divided into two groups by weighing. First group
 included 30 pigs weighing 100 kg, second group included 30 pigs weighing
 120 kg. Pigs were slaughtered, their carcasses were deboned and carcass
 parameters were measured. A significant correlation was found between
 pre-slaughter weight and weight of chilled carcass r = 0.95, carcass
 length r = 0.76, bacon half length r = 0.74, fat thickness over 6-7
 thoracic vertebrae r = 0.49, fat thickness in the withers r = 0.49, area
 of the longest back muscle r = 0.47, carcass weight loss after cooling r =
 0.37, fat thickness in the buttocks r = 0.23, slaughter yield r = -0.16
 and meat content in the carcass r = -0.08. The increase in pre-slaughter
 weight by 1 kg after reaching 100 kg, led to an increase in slaughter
 weight by 0.73 kg of chilled carcass weight by 0.70, fat thickness over
 6-7 thoracic vertebrae by 0.25 mm, fat thickness at withers by 0, 28 mm,
 carcass length by 0.27 cm, bacon half length by 0.24 cm and longest back
 muscle area 0.22 cm2.
description: The pigs were transported to the slaughterhouse of Globinsky Meat Factory LLC, Poltava region, Ukraine under the same conditions of transportation. Upon arrival, the pigs were left without food for 24 hours with access to water. At the end of the fasting period, experimental pigs were slaughtered due to stunning in the gas chamber Schaller Butina DK 4300 (Butina ApS, Denmark). The slaughter was performed in accordance with (ISO 23781: 2021). Before cooling in carcasses with the help of a ruler were measured: the fat thickness in the withers, the fat thickness over 6-7 thoracic vertebrae, the fat thickness in the buttocks, the carcass length, the bacon halves length. Slaughter weight of carcasses before cooling was measured using torsion scales mounted on a suspended conveyor. Cooling of the carcass after slaughter was conducted in two periods. The first period of cooling the carcass was to a temperature of 14 <sup>o</sup>C for 105 min, the second period was to a temperature of 4 <sup>o</sup>C for 24 hours. After 24 hours cooling, the carcasses were rolled in accordance with (ISO 3100-1) in a slaughterhouse and measured by ultrasonic Fat-o-Meat’er II (Frontmatec, Denmark) to determine the area of the longest back muscle. Indicators were also determined: weight of chilled carcass, losses after cooling 24 h, slaughter yield, meat content.
DOI: 10.15468/dl.dymrv4
title: Occurrence Download

description: A dataset containing 162566 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Plutella xylostella"
 ]
}

 The dataset includes 162566 records from 468 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003150-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.pg4f4qrsm
title: Prey naiveté alters the balance of consumptive and non-consumptive predator effects and shapes trophic cascades in freshwater plankton

description: Predators drive trophic cascades by reducing prey biomass and altering
 prey traits, selecting for prey that exhibit constitutive and induced
 anti-predator defenses that decrease susceptibility to consumption. These
 defense traits are often costly, generating a tradeoff between consumptive
 (CEs) and non-consumptive predator effects (NCEs). The ecological and
 evolutionary experience that prey share with a given predator may
 determine their position along this tradeoff curve, affecting the nature
 and strength of top-down control of ecosystems. Conceptual models predict
 that predator-experienced prey suffer greater NCEs than predator-naive
 prey, which suffer stronger CEs and total predator effects (CEs + NCEs),
 but this has not been tested in diverse prey communities. We tested these
 predictions by comparing the effects of predation (CEs + NCEs) and
 predation risk (NCEs only) of planktivorous fish on food web structure in
 pond mesocosms with diverse natural communities of either predator-naive
 or predator-experienced zooplankton. Contrary to expectations, top-down
 control of zooplankton and phytoplankton biomass was strengthened by prey
 community experience: in systems with experienced relative to naive
 zooplankton communities both predation risk (NCEs only) and predation (CEs
 + NCEs) had stronger effects on zooplankton prey biomass and trophic
 cascades were twice as strong. These results show that the ecological and
 evolutionary experience of diverse prey communities alters the balance of
 consumptive and non-consumptive predator effects and influences trophic
 cascade strength.
description: See Baker et al. (2022) Oikos. DOI: 10.1111/oik.09173
DOI: 10.5061/dryad.5x69p8d62
title: Data for the manuscript: Demographic basis of spatially structured fluctuations in a threespine stickleback metapopulation

description: Uncovering the demographic basis of population fluctuations is a central
 goal of population biology. This is particularly challenging for spatially
 structured populations, which require disentangling synchrony in
 demographic rates from coupling via immigration. In this study, we fit a
 stage-structured metapopulation model to a 29-year times series of
 threespine stickleback abundance in the heterogeneous and productive Lake
 Myvatn, Iceland. The lake comprises two basins (North and South) connected
 by a channel through which the stickleback disperse. The model includes
 time-varying demographic rates, allowing us to assess the potential
 contributions of recruitment and survival, spatial coupling via
 immigration, and demographic transience to the population’s large
 fluctuations in abundance. Our analyses indicate that recruitment was only
 modestly synchronized between the two basins, whereas survival
 probabilities of adults were more strongly synchronized, contributing to
 cyclic fluctuations in the lake-wide population size with a period of
 approximately six years. The analyses further show that the two basins are
 coupled through immigration, with the North Basin subsidizing the South
 Basin and playing a dominant role in driving the lake-wide dynamics. Our
 results show that cyclic fluctuations of a metapopulation can be explained
 in terms of the combined effects of synchronized demographic rates and
 spatial coupling.
description:  The raw data are catch per unit effort (CPUE) of threespine
 stickleback from surveys conducted from 1991-2020 in Lake Myvatn, Iceland.
 Stickleback were sampled in June and August of every year at 8 locations
 within the lake by setting 5 minnow traps for two 12h sessions. The data
 are expressed as total number of fish captured, effort as number of traps
 set across both 12h sessions (usually 10), and CPUE calculated by dividing
 the total number of fish captured by the effort. We have also included a
 separate file with GPS coordinates for the sampling locations. Note that
 in 2016 only the CPUE data are available due to incompleteness in the raw
 data records. These data were used to fit and analyze a demographic model.
 The corresponding scripts are being uploaded separately to
 Zenodo.
DOI: 10.5061/dryad.mw6m90603
title: Characteristics of the urban sewer system and rat presence in Seattle

description: Rats are abundant and ubiquitous in urban environments. There has been
 increasing attention to the need for evidence-based, integrated rat
 management and surveillance approaches because rats can compromise public
 health and impose economic costs. Yet there are few studies that
 characterize rat distributions in sewers and there are no studies that
 incorporate the complexity of sewer networks that encompass multiple sewer
 lines, all comprised of their own unique characteristics. To address this
 knowledge gap, this study identifies sewer characteristics that are
 associated with rat presence in the city of Seattle’s urban sewer system.
 We obtained sewer baiting data from 1752 geotagged manholes to monitor rat
 presence and constructed generalized additive models to account for
 spatial autocorrelation. Sewer rats were unevenly distributed across
 sampled manholes with clusters of higher rat presence at upper elevations,
 within sanitary pipes, narrower pipes, pipes at a shallower depth, and
 older pipes. These findings are important because identifying features of
 urban sewers that promote rat presence may allow municipalities to target
 areas for rat control activities and sewer maintenance. These findings
 suggest the need to evaluate additional characteristics of the surface
 environment and identify the factors driving rat movement within sewers,
 across the surface, and between the surface and the sewers. 
description: Data was collected in the port city of Seattle, Washington USA
 (47.6°N, 122.3°W) between February 2016 and September 2019 as a part of
 Seattle’s ongoing rat sewer baiting program. In the baiting program,
 manholes across the city were geotagged in map grids, where all grids in
 one zone were baited before moving to the next zone. The method for
 monitoring a manhole includes an initial assessment with four non-toxic
 Talon Weather BlocTM bait blocks. Blocks were suspended from the manhole
 so that they hung just above the sewer surface. Bait consumption was
 measured 10 days after the initial visit to monitor rat presence. Rats
 were considered present in manholes if some bait was consumed and/or signs
 of rodents (e.g., rodent gnaw marks, rat droppings) were
 observed. Data regarding the consumption of non-toxic
 bait (rats were considered either present or absent in each manhole) were
 joined with three publicly accessible municipal datasets. These datasets
 included 10 manhole characteristics (point features), 21 sewer
 line characteristics (line features), and 2 surface characteristics. Two
 weather characteristics, temperature (average monthly temperature) and
 precipitation (cumulative monthly precipitation), were obtained from the
 Western Regional Climate Center and Seattle Weather Blog.
description: We used RSudio (version 1.3) for statistical analyses and ArcGIS
 Pro (version 2.6.0) for spatial analyses.
DOI: 10.5517/ccdc.csd.cc2k00sd
title: CCDC 2353513: Experimental Crystal Structure Determination

description: Related Article: Sergey P. Kutumov, Dmitry N. Kholodkov, Irina K. Goncharova, Anna V. Vologzhanina, Alexander D. Volodin, Alexander A. Korlyukov, Pavel V. Dorovatovskii, Alexey S. Kashin, Roman A. Novikov, Valery G. Vlasenko, Ilia A. Pankin, Alexander A. Guda, Ashot V. Arzumanyan|2025|Inorg.Chem.Front.|||doi:10.1039/d5qi02173a
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2k00tf
title: CCDC 2353514: Experimental Crystal Structure Determination

description: Related Article: Sergey P. Kutumov, Dmitry N. Kholodkov, Irina K. Goncharova, Anna V. Vologzhanina, Alexander D. Volodin, Alexander A. Korlyukov, Pavel V. Dorovatovskii, Alexey S. Kashin, Roman A. Novikov, Valery G. Vlasenko, Ilia A. Pankin, Alexander A. Guda, Ashot V. Arzumanyan|2025|Inorg.Chem.Front.|||doi:10.1039/d5qi02173a
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2k00vg
title: CCDC 2353515: Experimental Crystal Structure Determination

description: Related Article: Sergey P. Kutumov, Dmitry N. Kholodkov, Irina K. Goncharova, Anna V. Vologzhanina, Alexander D. Volodin, Alexander A. Korlyukov, Pavel V. Dorovatovskii, Alexey S. Kashin, Roman A. Novikov, Valery G. Vlasenko, Ilia A. Pankin, Alexander A. Guda, Ashot V. Arzumanyan|2025|Inorg.Chem.Front.|||doi:10.1039/d5qi02173a
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5061/dryad.rr4xgxdbp
title: Resolving higher-level phylogenetic networks with repeated hybridization in a complex of polytypic salamanders (Plethodontidae: Desmognathus)

description: Repeated hybridization between incipient lineages is a common feature of
 ecological speciation and ecomorphological diversification. However,
 computational constraints currently limit our ability to reconstruct
 network radiations from gene-tree data. Available methods are limited to
 level-1 networks wherein reticulations do not share edges, and
 higher-level networks may be non-identifiable in many cases. We present a
 heuristic method to recover information from higher-level networks across
 a range of potentially identifiable empirical scenarios, supported by a
 theorem and success in simulated data. When extrinsic information
 indicating the location and direction of recent or ancestral hybridization
 events is available, our method can yield successful estimates of
 non-level-1 networks, or at least a reduced possible set thereof. We apply
 this technique to the Pisgah clade of Desmognathus salamanders, which
 contains four to seven species exhibiting two discrete phenotypes, aquatic
 “shovel-nosed” and semi-aquatic “black-bellied” forms in the southern
 Appalachian Mountains of the eastern United States. Phylogenomic data
 strongly support a single backbone topology with up to five overlapping
 hybrid edges. These results suggest an unusual mechanism of
 ecomorphological hybrid speciation, wherein a binary threshold trait
 causes hybrids to shift between two microhabitat niches, promoting
 ecological divergence between sympatric hybrids and parentals. This
 contrasts with other well-known systems in which hybrids exhibit
 intermediate, novel, or transgressive phenotypes. Geographically proximate
 populations of both phenotypes exhibit admixture, and at least two
 black-bellied lineages have been produced via reticulations between
 shovel-nosed parentals, suggesting complex transmission dynamics. The
 genetic basis of these phenotypes is unclear and further data are needed
 to clarify the nature of selection and speciation in the group.
description: Morphological measurements from specimens, data for specimens
 collected in the wild, AHE data (NEWICK-format trees) from Pyron et al.
 (2022; Ecol. & Evol.), and GBS data assembled using ipyrad (Eaton
 & Overcast 2020).
description: Zip files; csv spreadsheets
DOI: 10.5517/ccdc.csd.cc2k00xj
title: CCDC 2353517: Experimental Crystal Structure Determination

description: Related Article: Sergey P. Kutumov, Dmitry N. Kholodkov, Irina K. Goncharova, Anna V. Vologzhanina, Alexander D. Volodin, Alexander A. Korlyukov, Pavel V. Dorovatovskii, Alexey S. Kashin, Roman A. Novikov, Valery G. Vlasenko, Ilia A. Pankin, Alexander A. Guda, Ashot V. Arzumanyan|2025|Inorg.Chem.Front.|||doi:10.1039/d5qi02173a
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2k00yk
title: CCDC 2353518: Experimental Crystal Structure Determination

description: Related Article: Sergey P. Kutumov, Dmitry N. Kholodkov, Irina K. Goncharova, Anna V. Vologzhanina, Alexander D. Volodin, Alexander A. Korlyukov, Pavel V. Dorovatovskii, Alexey S. Kashin, Roman A. Novikov, Valery G. Vlasenko, Ilia A. Pankin, Alexander A. Guda, Ashot V. Arzumanyan|2025|Inorg.Chem.Front.|||doi:10.1039/d5qi02173a
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2k00zl
title: CCDC 2353519: Experimental Crystal Structure Determination

description: Related Article: Sergey P. Kutumov, Dmitry N. Kholodkov, Irina K. Goncharova, Anna V. Vologzhanina, Alexander D. Volodin, Alexander A. Korlyukov, Pavel V. Dorovatovskii, Alexey S. Kashin, Roman A. Novikov, Valery G. Vlasenko, Ilia A. Pankin, Alexander A. Guda, Ashot V. Arzumanyan|2025|Inorg.Chem.Front.|||doi:10.1039/d5qi02173a
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2k80sn
title: CCDC 2361201: Experimental Crystal Structure Determination

description: Related Article: Shriya Saha, Ibtesham Tarannum, Raúl Rojas-Luna, Jhuma Sannigrahi, Saurabh Kumar Singh, Souvik Roy, Raja Mitra|2026|Inorg.Chem.|||doi:10.1021/acs.inorgchem.5c04586
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.