cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.1cf5d
title: Data from: Comparative multi-locus phylogeography confirms multiple vicariance events in co-distributed rainforest frogs

description: Though Pleistocene refugia are frequently cited as drivers of species
 diversification, comparisons of molecular divergence among sister species
 typically indicate a continuum of divergence times from the late Miocene,
 rather than a clear pulse of speciation events at the Last Glacial Maximum
 (LGM). Community-scale inference methods that explicitly test for multiple
 vicariance events, and account for differences in ancestral effective
 population size and gene flow, are well suited for detecting heterogeneity
 of species’ responses to past climate fluctuations. We apply this approach
 to multi-locus sequence data from five co-distributed frog species endemic
 to the Wet Tropics rainforests of Northeast Australia. Our results
 demonstrate at least two episodes of vicariance due to climate-driven
 forest contractions: one in the early Pleistocene and the other
 considerably older. Understanding how repeated cycles of rainforest
 contraction and expansion differentially affected lineage divergence among
 co-distributed species provides a framework for identifying evolutionary
 processes that underlie population divergence and speciation.
description: Ldayi_39-40Alignment for Litoria dayi sequences less than 200 base pairs long at locus MVZ 39/40 X. laevis MGC82783 protein (Intron2).Ldayi_CRYBAAlignment for Litoria dayi sequences less than 200 base pairs long at locus Cryb1LS/Cryb2LS Beta-crystallin.Ljungguy_19-20Alignment of Litoria jungguy sequences less than 200 base pairs long at locus MVZ19/MVZ20 Myosin Light Chain (Intron 6).Ljungguy_39-40Alignment of Litoria jungguy sequences less than 200 base pairs long at locus MVZ39/MVZ40 X. laevis MGC82783 protein (Intron2).Lnannotis_19-20Alignment of Litoria nannotis sequences less than 200 base pairs long at locus MVZ19/MVZ20 Myosin Light Chain (Intron 6).Lnannotis_29Alignment of Litoria nannotis sequences less than 200 base pairs long at locus MVZ29/MVZ30 Y Box Binding (Intron 1).Lnannotis_39-40Alignment of Litoria nannotis sequences less than 200 base pairs long at locus MVZ39/MVZ40 X. laevis MGC82783 protein (Intron2).Lrheocola_39-40Alignment of Litoria rheocola sequences less than 200 base pairs long at locus MVZ39/MVZ40 X. laevis MGC82783 protein (Intron2).Lserrata_19-20Alignment of Litoria serrata sequences less than 200 base pairs long at locus MVZ19/MVZ20 Myosin Light Chain (Intron 6).Lserrata_29-30Alignment of Litoria serrata sequences less than 200 base pairs long at locus MVZ29/MVZ30 Y Box Binding (Intron 1).Lserrata_39-40Alignment of Litoria serrata sequences less than 200 base pairs long at locus MVZ39/MVZ40 X. laevis MGC82783 protein (Intron2).Lserrata_CRYBAAlignment of Litoria serrata sequences less than 200 base pairs long at locus Cryb1LS/Cryb2LS beta-crystallin.
DOI: 10.5061/dryad.s79j7
title: Data from: Hydrodynamic regime determines the feeding success of larval fish through the modulation of strike kinematics

description: Larval fishes experience extreme mortality rates, with 99% of a cohort
 perishing within days after starting to actively feed. While recent
 evidence suggests that hydrodynamic factors contribute to constraining
 larval feeding during early ontogeny, feeding is a complex process that
 involves numerous interacting behavioural and biomechanical components.
 How these components change throughout ontogeny and how they contribute to
 feeding remain unclear. Using 339 observations of larval feeding attempts,
 we quantified the effects of morphological and behavioural traits on
 feeding success of Sparus aurata larvae during early ontogeny. Feeding
 success was determined using high-speed videography, under both natural
 and increased water viscosity treatments. Successful strikes were
 characterized by Reynolds numbers that were an order of magnitude higher
 than those of failed strikes. The pattern of increasing strike success
 with increasing age was driven by the ontogeny of traits that facilitate
 the transition to higher Reynolds numbers. Hence, the physical growth of a
 larva plays an important role in its transition to a hydrodynamic regime
 of higher Reynolds numbers, in which suction feeding is more effective.
description: Feeding kinematics of S.
 aurata obtained with the 3D systemFeeding kinematics of 93
 feeding attempts of S. aurata on rotifers, obtained with the 3D system.
 larval age is in Days Post Hatching (DPH). time to minimal prey distance
 (MPD) is in units of TTPG cycles.3dsystem.csvFeeding kinematics of S. aurata, obtained with the continuous high speed systemFeeding kinematics in 246 feeding attempts of S. aurata on rotifers, obtained with the continuous high speed system. larval age is in Days Post Hatching (DPH). viscosity is relative to that of of unmanipulated sea water (at 19 deg C). time to minimal prey distance (MPD) is in units of TTPG cycles.2dsystem.csv
DOI: 10.15468/dl.skbnx5
title: Occurrence Download

description: A dataset containing 1894 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Cyrilla racemiflora",
 "HasCoordinate is true",
 "BasisOfRecord is one of (Specimen)"
 ]
}

 The dataset includes 1894 records from 126 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001118-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.9b458
title: Data from: Do rats learn conditional independence?

description: If acquired associations are to accurately represent real relevance
 relations, there is motivation for the hypothesis that learning will, in
 some circumstances, be more appropriately modelled, not as direct
 dependence, but as conditional independence. In a serial compound
 conditioning experiment, two groups of rats were presented with a
 conditioned stimulus (CS1) that imperfectly (50%) predicted food, and was
 itself imperfectly predicted by a CS2. Groups differed in the proportion
 of CS2 presentations that were ultimately followed by food (25% versus
 75%). Thus, the information presented regarding the relevance of CS2 to
 food was ambiguous between direct dependence and conditional independence
 (given CS1). If rats learnt that food was conditionally independent of
 CS2, given CS1, subjects of both groups should thereafter respond
 similarly to CS2 alone. Contrary to the conditionality hypothesis,
 subjects attended to the direct food predictability of CS2, suggesting
 that rats treat even distal stimuli in a CS sequence as immediately
 relevant to food, not conditional on an intermediate stimulus. These
 results urge caution in representing indirect associations as conditional
 associations, accentuate the theoretical weight of the Markov condition in
 graphical models, and challenge theories to articulate the conditions
 under which animals are expected to learn conditional associations, if
 ever.
description: Data from: Bowers &
 Timberlake-Do rats learn conditional independence?BowersTimberlake-Conditionality-data.xlsx
DOI: 10.5061/dryad.33th5
title: Data from: Fungal community reveals less dispersal limitation and potentially more connected network than that of bacteria in bamboo forest soils

description: A central aim of current microbial ecology research is to investigate the
 mechanisms shaping the assembly of soil microbial communities. Despite the
 importance of bacterial and fungal mediation of carbon cycling in forest
 ecosystems, knowledge concerning their distribution patterns and
 underlying mechanisms remains insufficient. Here, soils were sampled from
 six bamboo forests across the main planting area of Moso bamboo in
 southern China. The bacterial and fungal diversities were assessed by
 sequencing 16S rRNA and ITS gene amplicons, respectively, with an Illumina
 MiSeq. Based on structural equation modeling, dispersal limitation had
 strongest impact on bacterial beta diversity, while the mean annual
 precipitation had a smaller impact by directly or indirectly mediating the
 soil organic carbon density. However, only the mean annual temperature and
 precipitation played direct roles in fungal beta diversity. Moreover, the
 co-occurrence network analyses revealed a possibly much higher network
 connectivity in the fungal network than in the bacteria. With less
 dispersal limitation, stronger environmental selection, and a potentially
 more connected network, the fungal community had more important roles in
 the soil carbon metabolisms in bamboo forests. Fungal beta diversity and
 the clustering coefficient explained approximately 14.4% and 6.1% of the
 variation in the carbon metabolic profiles among sites, respectively, but
 that of bacteria only explained approximately 1.7% and 1.8%, respectively.
 This study explored soil microbial spatial patterns along with the
 underlying mechanisms of dispersal limitation, selection, and connectivity
 of ecological networks, thus providing novel insights into the study of
 the distinct functional traits of different microbial taxa.
description: environmental data and
 location informationClimatic and edaphic
 descriptors of individual samplesenvironmental
 data.xlsxmapping file associated
 with the sequences
DOI: 10.5061/dryad.6g6r6
title: Data from: New insights on postglacial colonisation in Western Europe: the phylogeography of the Leisler's bat (Nyctalus leisleri)

description: Despite recent advances in the understanding of the interplay between a
 dynamic physical environment and phylogeography in Europe, the origins of
 contemporary Irish biota remain uncertain. Current thinking is that
 Ireland was colonized post-glacially from southern European refugia,
 following the end of the last glacial maximum (LGM), some 20 000 years BP.
 The Leisler's bat (Nyctalus leisleri), one of the few native Irish
 mammal species, is widely distributed throughout Europe but, with the
 exception of Ireland, is generally rare and considered vulnerable. We
 investigate the origins and phylogeographic relationships of Irish
 populations in relation to those across Europe, including the closely
 related species N. azoreum. We use a combination of approaches, including
 mitochondrial and nuclear DNA markers, in addition to approximate Bayesian
 computation and palaeo-climatic species distribution modelling. Molecular
 analyses revealed two distinct and diverse European mitochondrial DNA
 lineages, which probably diverged in separate glacial refugia. A western
 lineage, restricted to Ireland, Britain and the Azores, comprises Irish
 and British N. leisleri and N. azoreum specimens; an eastern lineage is
 distributed throughout mainland Europe. Palaeo-climatic projections
 indicate suitable habitats during the LGM, including known glacial
 refugia, in addition to potential novel cryptic refugia along the western
 fringe of Europe. These results may be applicable to populations of many
 species.
description: Boston et al -
 Leisler's bat (Nyctalus leisleri) - microsatellite
 dataMicrosatellite data
 (genepop format) used in the MS entitled "New insights on postglacial
 colonisation in Western Europe: the phylogeography of the Leisler's
 bat (Nyctalus leisleri)"Boston et al 2015 Leisler
 microsatellite.txt
DOI: 10.5061/dryad.3b3h8
title: Data from: A redescription of the leggiest animal, the millipede Illacme plenipes, with notes on its natural history and biogeography (Diplopoda, Siphonophorida, Siphonorhinidae)

description: With up to 750 legs, the millipede Illacme plenipes Cook and Loomis, 1928
 is the leggiest animal known on Earth. It is endemic to the northwestern
 foothills of the Gabilan Range in San Benito County, California, where it
 is the only known species of the family Siphonorhinidae in the Western
 Hemisphere. Illacme plenipes is only known from 3 localities in a 4.5 km2
 area; the 1926 holotype locality is uncertain. Individuals of the species
 are strictly associated with large arkose sandstone boulders, and are
 extremely rare, with only 18 specimens known to exist in natural history
 collections. In contrast with its small size and unassuming outward
 appearance, the microanatomy of the species is strikingly complex. Here we
 provide a detailed redescription of the species, natural history notes,
 DNA barcodes for I. plenipes and similar-looking species, and a predictive
 occurrence map of the species inferred using niche based distribution
 modeling. Based on functional morphology of related species, the extreme
 number of legs is hypothesized to be associated with a life spent
 burrowing deep underground, and clinging to the surface of sandstone
 boulders.
description: Measurements_2012_paper_summary
DOI: 10.5061/dryad.sc1dr77
title: Data from: Flying between raindrops: strong seasonal turnover of several Lepidoptera groups in lowland rainforests of Mount Cameroon

description: 1. Although seasonality in the tropics is often less pronounced than in
 temperate areas, tropical ecosystems show seasonal dynamics as well.
 Nevertheless, individual tropical insects’ phenological patterns are still
 poorly understood, especially in the Afrotropics. To fill this gap, we
 investigated biodiversity patterns of Lepidoptera communities at three
 rainforest localities in the foothills of Mount Cameroon, West Africa, one
 of the wettest places in the world. 2. Our multi-taxa approach covered six
 lepidopteran groups (fruit-feeding butterflies and moths, the families
 Sphingidae, Saturniidae, and Eupterotidae, and the subfamily Arctiinae of
 Erebidae) with diverse life strategies. We sampled adults of the focal
 groups in three distinct seasons. Our sampling included standardised
 bait-trapping (80 traps exposed for ten days per locality and season) and
 attraction by light (six full nights per locality and season). 3.
 Altogether, our dataset comprised 20,576 specimens belonging to 559
 (morpho)species of the focal groups. The biodiversity of Lepidoptera
 generally increased in the high-dry season, and either increased
 (fruit-feeding moths, Arctiinae, Saturniidae) or decreased (butterflies,
 Sphingidae) in the transition to the wet season in particular groups.
 Simultaneously, we revealed a strong species turnover of fruit-feeding
 Lepidoptera and Arctiinae among the seasons, indicating relatively high
 specialisation of these communities for particular seasons. 4. Such
 temporal specialisation can make the local communities of butterflies and
 moths especially sensitive to the expected seasonal perturbations caused
 by the global change. Because of the key role of Lepidoptera across
 trophic levels, such changes in their communities could strengthen this
 impact on entire tropical ecosystems.
description: Seasonal species
 richness and abundance in Mount Cameroon lowland
 rainforestThe data table
 corresponds to the number of Lepidoptera specimen of each species
 collected per sampled season.Data_EcoEvo_Maicher_et_al_season.xlsx
DOI: 10.5061/dryad.v17q6
title: Data from: Parallel speciation or long-distance dispersal? Lessons from seaweeds (Fucus) in the Baltic Sea

description: Parallel evolution has been invoked as a forceful mechanism of ecotype and
 species formation in many animal taxa. However, parallelism may be
 difficult to separate from recently monophyletically diverged species that
 are likely to show complex genetic relationships as a result of
 considerable shared ancestral variation and secondary hybridization in
 local areas. Thus, species’ degrees of reproductive isolation, barriers to
 dispersal and in particular, limited capacities for long-distance
 dispersal, will affect demographic structures underlying mechanisms of
 divergent evolution. Here, we used nine microsatellite DNA markers to
 study intra- and interspecific genetic diversity of two recently diverged
 species of brown macroalgae, Fucus radicans (L. Bergström & L.
 Kautsky) and F. vesiculosus (Linnaeus), in the Baltic Sea. We further
 performed biophysical modelling to identify likely connectivity patterns
 influencing the species’ genetic structures. For each species we found
 intraspecific contrasting patterns of clonality incidence and population
 structure. In addition, strong genetic differentiation between the two
 species within each locality supported the existence of two distinct
 evolutionary lineages (FST =0.15-0.41). However, overall genetic
 clustering analyses across both species’ populations revealed that all
 populations from one region (Estonia) were more genetically similar to
 each other than to their own taxon from the other two regions (Sweden and
 Finland). Our data supports a hypothesis of parallel speciation.
 Alternatively, Estonia may be the ancestral source of both species, but is
 presently isolated by oceanographic barriers to dispersal. Thus, a limited
 gene flow in combination with genetic drift could have shaped the
 seemingly parallel structure.
description: Microsatellite genotype
 data Fradicans and Fvesiculosus
DOI: 10.5281/zenodo.18383986
title: Research data of manuscript "Oxygen isotope exchange unravels million-year long hydrogeochemical evolution of a deep sedimentary aquifer"

description: Data shown in Figures and tables of manuscript, as well as input files of reactive transport modelling code Toughreact. The latter were used to simulate the exchange of 18O betwenn an aqueous solutions and calcite. The corresponding results are shown in Figure 6.
DOI: 10.5281/zenodo.18383987
title: Research data of manuscript "Oxygen isotope exchange unravels million-year long hydrogeochemical evolution of a deep sedimentary aquifer"

description: Data shown in Figures and tables of manuscript, as well as input files of reactive transport modelling code Toughreact. The latter were used to simulate the exchange of 18O betwenn an aqueous solutions and calcite. The corresponding results are shown in Figure 6.
DOI: 10.5061/dryad.sv069
title: Data from: Differential dispersal costs and sex-biased dispersal distance in a cooperatively breeding bird

description: In most bird species, dispersal distance from the natal territory to a
 breeding territory is greater for females than for males. Two main
 hypotheses have been proposed to explain sex-biased dispersal: 1) it
 serves as an inbreeding-avoidance mechanism or 2) it is linked to a sex
 difference in resource-holding potential and territory establishment.
 Additionally, in species where individuals delay dispersal and become
 subordinates in a natal territory, differences in benefits of philopatry
 (e.g. territory inheritance, own reproduction) may also affect sex-biased
 dispersal. We show that in the group-living Seychelles warbler,
 Acrocephalus sechellensis, females disperse further to obtain a breeding
 position than males do. However, we found no evidence that female-biased
 dispersal distance can be explained by the above-mentioned hypotheses:
 further dispersal does not lead to less-related partners, both sexes
 defend and can inherit a territory, and subordinate females are more
 likely to obtain some reproduction than subordinate males. Instead, we
 provide evidence for a little-explored hypothesis based on sex differences
 in dispersal costs: namely that extra-territorial forays, pursued to
 search for limited vacancies, are more costly for males in terms of
 increased mortality, although the exact mechanism for this is unclear. In
 line with differential dispersal costs, males foray less far than females
 and often wait for local dispersal opportunities, ultimately resulting in
 a shorter average dispersal distance. Our results may help future studies
 in explaining sex-biased dispersal in social and perhaps also non-social
 species, and we suggest some mechanisms that may explain why sex-biased
 dispersal differs between species.
description: DataFiles
 KingmaetalAll data used for
 Behavioral Ecology publication in a ZIP document. Please access the readme
 file for details.DataFiles_Kingma_et_al.zip
DOI: 10.5061/dryad.g7j3k
title: Data from: Devario in Bangladesh: species diversity, sibling species, and introgression within danionin cyprinids (Teleostei: Cyprinidae: Danioninae)

description: Four species of Devario are recorded from Bangladesh: D. aequipinnatus, D.
 anomalus, D. coxi, new species, and D. devario. Devario aequipinnatus has
 a wide distribution in northern India and Bangladesh. Devario coxi, from
 southeastern Bangladesh near Cox's Bazar, differs from D.
 aequipinnatus in mtDNA (COI, p-distance 1.8%), colouration, proportional
 measurements, and meristics. The minor morphological differences and low
 frequency of overlapping meristics suggest relatively recent separation of
 D. coxi from other D. aequipinnatus. Devario anomalus occurs only in
 southeastern Bangladesh and is here reported from localities in addition
 to the type locality. It differs from the similar D. xyrops in adjacent
 Myanmar by slender body shape and by 2.3% p-distance in the COI gene.
 Specimens of D. anomalus from the Sangu River were found to have the
 mitochondrial genome of D. aequipinnatus from Bangladesh, but agree with
 other D. anomalus in the nuclear RAG1 gene. Devario devario has a wide
 distribution on the Indian Peninsula and border regions; in Bangladesh it
 is restricted in distribution to the Ganga, Brahmaputra, and Meghna
 drainages. Reports of D. assamensis and D. malabaricus from Bangladesh are
 misidentifications. Perilampus ostreographus M'Clelland, 1839, is
 tentatively synonymized with D. aequipinnatus. Phylogenetic analysis of 14
 species of striped devarios based on the COI gene results in a polytomy
 with four unresolved clades. Devario deruptotalea from the Chindwin basin
 is the sister group of D. aequipinnatus+D. coxi. Devario devario is the
 sistergroup of D. xyrops+D. anomalus.
description: Devario measurement
 dataMeasurement data in xlx
 file format for specimens of Devario from Bangladesh and comparative
 material from India and Myanmar. Each specimen is identified by collection
 Code and Catalog Number. Blank cells signify absent data. Figures are
 tenths of mm (multiply with 10 for conversion to mm)Bangladeshi Devario measurement
 data.xlsx
DOI: 10.5061/dryad.jh21r
title: Data from: Range-wide population genetics and variation in morph ratio in style-dimorphic Narcissus papyraceus (Amaryllidaceae)

description: Premise of the study: Theoretical models state that natural selection and
 mating patterns account for floral morph ratio in style- polymorphic
 plants. However, the demographic history of populations can also influence
 variation in morph ratios. If so, we hypothesize an association between
 the morph ratios and the genetic structure across populations. Methods: We
 used nuclear microsatellites to assess genetic variation and structure in
 populations of Narcissus papyraceus, a style-dimorphic plant whose floral
 morph ratios (L-morph to S-morph) gradually vary throughout its
 distribution range in the southwestern SW Mediterranean Basin. We
 implemented analyses to relate the genetic features of populations with
 their morph ratios. Key results: We found greater frequencies of the
 S-morph in central populations and declining frequencies toward the
 periphery. This geographic pattern was not associated with the genetic
 structure of populations. Instead, we found two distinct genetic groups,
 mainly separated by the Strait of Gibraltar, with a mixture of morph
 ratios within each one. Overall, there was a weak genetic structure.
 Genetic diversity was greater in central and southern dimorphic
 populations than in northern L-monomorphic populations. Conclusions:
 Altogether, our results do not support the hypothesis that the demographic
 history of populations can account for the observed geographical pattern
 of morph ratios in N. papyraceus. We suggest that adaptive processes shown
 in previous studies in the species are the main determinant of the
 existing variation in the morph composition of populations.
description: Simón-Porcar_etal_2015_AJBGenetic database of 31 populations of Narcissus papyraceus in the western Mediterranean, genotyped with 8 microsatellite markers. Genotyped individuals are either long-styled (L) or short-styled (S).