cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.pb187f9
title: Data from: The Magellanic Province and its fish fauna (South America): several provinces or one?

description: Aim: We assessed the validity of the division of the Magellanic Province
 into the four provinces as proposed by Briggs and Bowen (2012): Southern
 Chile, Tierra del Fuego, Southern Argentina and Falkland (Malvinas)
 Islands. We aimed to 1) present an up to date list of the fishes from the
 region known as “Magellanic Province”, 2) analyze the specific richness of
 fishes in the Atlantic and Pacific sectors and their degree of endemism,
 3) evaluate statistically the validity of the three Provinces proposed for
 the Atlantic sector Location: Southern tip of the American continent at
 latitudes higher than 40ºS in the Atlantic as well as in the Pacific
 Oceans. Methods: The list of fishes was prepared by consulting more than
 140 sources, many related to observations resulting from research cruises,
 although two ichthyological collections and two ichthyological websites
 were also used. The South American species with distributions extending
 outside of the area corresponding to the Magellanic Province, and all
 cosmopolitan species, were excluded of endemism analyses. For analyzing
 fish distributions in the Atlantic sector, the data employed are from
 eight research cruises carried out from 1978 to 2006 from 37º to 59º
 South. A total of 523 fishing trawls have been analyzed, grouped into cell
 of 1º x 1º cells. The species composition of each cell was evaluated by
 multivariate analysis (nonmetric multidimensional scaling, cluster, and
 similarity analyses). Results: The percentage of endemism in each sector
 (Atlantic 2.87% and Pacific 2.87%) is smaller than the endemism common to
 both sectors (9.2%). The total of endemic species in the Province is
 14.94%, which is bigger than the 10% indicated as the lower limit for
 defining a biogeographic province suggested by Briggs (1974). In addition,
 multivariate analyses does not show differences in the species
 composition, neither between Falkland (Malvinas) Islands and “Southern
 Argentina” nor between the latter and Tierra del Fuego. Main conclusions:
 The ichthyological data indicate only one biogeographic province in the
 region not four as previously posited.
description: Cousseau et al_Species
 Data from research cruisesThe file contains
 presence/ausence data of fish species from 8 research cruises carried out
 from 1978 to 2006 in the southernmost tip of the South-west Atlantic
 Ocean. (37° to 55°S)..
DOI: 10.5061/dryad.s5d698d
title: Data from: Genome-wide sequence-based genotyping supports a nonhybrid origin of Castanea alabamensis

description: The genus Castanea in North America contains multiple tree and shrub taxa
 of conservation concern. The two species within the group, American
 chestnut (Castanea dentata) and chinquapin (C. pumila sensu lato), display
 remarkable morphological diversity across their distributions in the
 eastern United States and southern Ontario. Previous investigators have
 hypothesized that hybridization between C. dentata and C. pumila has
 played an important role in generating morphological variation in wild
 populations. A putative hybrid taxon, Castanea alabamensis, was identified
 in northern Alabama in the early 20th century; however, the question of
 its hybridity has been unresolved. We tested the hypothesized hybrid
 origin of C. alabamensis using genome-wide sequence-based genotyping of C.
 alabamensis, all currently recognized North American Castanea taxa, and
 two Asian Castanea species at &gt;100,000 single-nucleotide
 polymorphism (SNP) loci. With these data, we generated a high-resolution
 phylogeny, tested for admixture among taxa, and analyzed population
 genetic structure of the study taxa. Bayesian clustering and principal
 components analysis provided no evidence of admixture between C. dentata
 and C. pumila in C. alabamensis genomes. Phylogenetic analysis of
 genome-wide SNP data indicated that C. alabamensis forms a distinct group
 within C. pumila sensu lato. Our results are consistent with the model of
 a nonhybrid origin for C. alabamensis. Our finding of C. alabamensis as a
 genetically and morphologically distinct group within the North American
 chinquapin complex provides further impetus for the study and conservation
 of the North American Castanea species.
description: out98copy.vcf file containing single SNP genotypes for the North American chestnut and chinquapin taxa Castanea dentata, Castanea pumila var. pumila, Castanea pumila var. ozarkensis, and Castanea alabamensis. The file contains information for a total of 190,656 SNPs from 96 individuals.allsamples_wpopcodes.txt file containing SNP genotypes formatted for STRUCTURE analysis. File contains information for 583 SNP loci in 103 individuals representing North American Castanea taxa (C. dentata, C. pumila var. pumila, C. pumila var. ozarkensis, C. alabamensis), Chinese chestnut (C. mollissima), and Japanese chestnut (C. crenata).batch_1.vcf file containing SNP genotypes for North American Castanea taxa (C. dentata, C. pumila var. pumila, C. pumila var. ozarkensis, C. alabamensis), Chinese chestnut (C. mollissima), Japanese chestnut (C. crenata). File contains information for 103,616 SNPs in 103 individuals.
DOI: 10.5061/dryad.j46d514
title: Data from: The importance of functional responses among competing predators for avian nesting success

description: 1. The relationship between the rate of predation and prey abundance is an
 important component of predator-prey dynamics. However, functional
 responses are less straightforward when multiple predators compete for
 shared prey. Interactions among competing predators can reduce or enhance
 effects of predation on prey populations. Because many avian populations
 experience high rates of nest predation, understanding the role of
 specific predators on nest mortality will lead to more informed
 conservation and management strategies which attempt to increase
 productivity by removing certain predators or managing habitat to limit
 their impact. 2. Our goal was to evaluate effects of specific predators
 and the influence of nest abundance on nest mortality. 3. We monitored
 snowy plover Charadrius nivosus nests across 7 years at two study areas in
 Utah, USA with remote cameras. We modeled predator-specific hazard rates
 for nest mortality in a Bayesian framework to assess relationships between
 competing predators and the role of nest abundance on predator-specific
 hazard rates. 4. We found that hazard rates for nest mortality by gulls
 Larus spp. decreased with increasing nest abundance, whereas nest
 mortality by foxes Vulpes spp. and ravens Corvus corax initially
 increased, indicating that dietary switching may occur when nests become
 more abundant. Nest mortalities of specific predators were often not
 independent and ranged between compensatory (e.g., mammalian
 mesopredators), and superadditive (e.g., avian predators) across the
 breeding season. 5. The non-independence between nest mortalities suggests
 that reductions in some predators may not translate to additive increases
 in overall nest success. Analyses of cause-specific mortality are rarely
 applied to avian nests, but examination of interacting impacts among
 competing predators on nest survival may provide insight into specific
 drivers of avian population dynamics.
description: Fates of snowy plover
 nestsFates of snowy plover
 nests monitored at Great Salt Lake, Utah and western Utah between 2011 and
 2017. Dates correspond with day of breeding season where day 1 = 21
 April.SNPL_Nest_Fates_for_archiving.csv
DOI: 10.5061/dryad.c031nv7
title: Causal links between parietal alpha activity and spatial auditory attention

description: Both visual and auditory spatial selective attention result in lateralized
 alpha (8-14 Hz) oscillatory power in parietal cortex: alpha increases in
 the hemisphere ipsilateral to attentional focus. Brain stimulation studies
 suggest a causal relationship between parietal alpha and suppression of
 the representation of contralateral visual space. However, there is no
 evidence that parietal alpha controls auditory spatial attention. Here, we
 performed high definition transcranial alternating current stimulation
 (HD-tACS) on human subjects performing an auditory task in which they
 directed attention based on either spatial or nonspatial features. Alpha
 (10 Hz) but not theta (6 Hz) HD-tACS of right parietal cortex interfered
 with attending left but not right auditory space. Parietal stimulation had
 no effect for nonspatial auditory attention. Moreover, performance in
 post-stimulation trials returned rapidly to baseline. These results
 demonstrate a causal, frequency-, hemispheric-, and task-specific effect
 of parietal alpha brain stimulation on top-down control of auditory
 spatial attention.
description: Processing script for
 Exp1 Exp1_processing.m   Processing script for Exp2 Exp2_processing.m
DOI: 10.5061/dryad.11n8t6n
title: Data from: A novel case of autogamy and cleistogamy in Dendrobium wangliangii: a rare orchid distributed in the dry-hot valley

description: Dendrobium wangliangii is an epiphytic orchid distributed in the
 Jinshajiang dry-hot valley in Luquan County, Yunnan Province, China. Most
 Dendrobium spp. typically have a low fruit set, but this orchid shows a
 higher fruit set under natural conditions despite the lack of effective
 pollinators. The pollination biology of the critically endangered D.
 wangliangii was investigated in this study. A fruit set rate of
 33.33±4.71% was observed after bagging treatment in 2017 and a high fruit
 set rate (65.72±4.44% in 2011; 50.79±5.44% in 2017) was observed under
 natural conditions, indicating that D. wangliangii is characterized by
 spontaneous self-pollination. The anther cap prevented the growing
 pollinium, thus the pollinium slid down and reached the stigmatic cavity,
 leading to autogamous self-pollination. Specifically, 51.50% of 162
 unopened flowers (total 257 flowers) of this Dendrobium species under
 extreme water-deficit conditions developed into fruits, suggesting the
 presence of cleistogamy in D. wangliangii. Here, cleistogamy may represent
 the primary mode of pollination for this orchid. Spontaneous
 self-pollination and specific cleistogamous autogamy could represent major
 adaptions to the drought and pollinator-scarce habitat in the Jinshajiang
 dry-hot valley.
description: Table S1: Morphological characteristics of Dendrobium
 wangliangii The dataset in Table S1 has been collected
 by measuring with vernier calipers (0.01mm). The dateset has been
 processed via one-way ANOVA and LSD with SPSS (ver. 19.0).
DOI: 10.5061/dryad.c8c79h7
title: Data from: Chloroplast population genetics reveals low levels of genetic variation and conformation to the central–marginal hypothesis in Taxus wallichiana var. mairei, an endangered conifer endemic to China

description: The central–marginal hypothesis predicts that geographically peripheral
 populations should exhibit reduced genetic diversity and increased genetic
 differentiation than central populations due to smaller effective
 population size and stronger geographical isolation. We evaluated these
 predictions in the endangered conifer Taxus wallichiana var. mairei. Eight
 plastid simple sequence repeats (cpSSRs) were used to investigate plastid
 genetic variation in 22 populations of Taxus wallichiana var. mairei,
 encompassing nearly its entire distribution range. Low levels of plastid
 genetic variation and differentiation were detected in the populations,
 and the findings were attributed to low mutation rates, small population
 sizes, habitat fragmentation and isolation, and effective pollen or seed
 dispersal. Hunan and Hubei were identified as major refugia based on the
 number of private haplotypes and species distribution modeling. Trends in
 plastid genetic diversity and genetic differentiation from central to
 peripheral populations supported the predictions of the central–marginal
 hypothesis. In scenarios wherein the future climate becomes warmer, we
 predict that some peripheral populations will disappear and southern and
 southeastern regions will become significantly less habitable. Factors
 that include the levels of precipitation during the driest month, annual
 precipitation level, and annual temperature range will be decisive in
 shaping the future distribution of these populations. This study provides
 a theoretical basis for the conservation of T. wallichiana var. mairei.
description: Plastid ssrs
 screenedPlastid SSR primer pairs
 that are screenedPlastid
 ssrs.docx
DOI: 10.5061/dryad.9kg283c
title: Data from: Historical human activities reshape evolutionary trajectories across both native and introduced ranges

description: The same vectors that introduce species to new ranges could move them
 among native populations, but how human‐mediated dispersal impacts native
 ranges has been difficult to address because human‐mediated dispersal and
 natural dispersal can simultaneously shape patterns of gene flow. Here, we
 disentangle human‐mediated dispersal from natural dispersal by exploiting
 a system where the primary vector was once extensive but has since ceased.
 From 10th to 19th Centuries, ships in the North Atlantic exchanged
 sediments dredged from the intertidal for ballast, which ended when
 seawater ballast tanks were adopted. We investigate genetic patterns from
 RADseq‐derived SNPs in the amphipod Corophium
 volutator (n = 121; 4,870 SNPs) and the
 annelid Hediste diversicolor (n = 78;
 3,820 SNPs), which were introduced from Europe to North America, have
 limited natural dispersal capabilities, are abundant in intertidal
 sediments, but not commonly found in modern water ballast tanks. We detect
 similar levels of genetic subdivision among introduced North American
 populations and among native European populations. Phylogenetic networks
 and clustering analyses reveal population structure between sites, a high
 degree of phylogenetic reticulation within ranges, and phylogenetic splits
 between European and North American populations. These patterns are
 inconsistent with phylogeographic structure expected to arise from natural
 dispersal alone, suggesting human activity eroded ancestral
 phylogeographic structure between native populations, but was insufficient
 to overcome divergent processes between naturalized populations and their
 sources. Our results suggest human activity may alter species'
 evolutionary trajectories on a broad geographic scale via regional
 homogenization and global diversification, in some cases precluding
 historical inference from genetic data.
description: Corophium_batch_1filtered Genetic data for Corophium volutator generated from ddRADseq Hediste_batch_1filtered Genetic data for Hediste diversicolor generated from ddRADseq
description: Genetic data from samples of Corophium volutator and Hediste
 diversicolor sequenced using the ddRADseq reduced representation
 approach.
DOI: 10.5061/dryad.r44t5dk
title: Data from: Integrating population genetics to define conservation units from the core to the edge of Rhinolophus ferrumequinum western range

description: The greater horseshoe bat (Rhinolophus ferrumequinum) is among the most
 widespread bat species in Europe but it has experienced severe declines,
 especially in Northern Europe. This species is listed Near Threatened in
 the European IUCN Red List of Threatened Animals and it is considered to
 be highly sensitive to human activities and particularly to habitat
 fragmentation. Therefore, understanding the population boundaries and
 demographic history of populations of this species is of primary
 importance to assess relevant conservation strategies. In this study, we
 used 17 microsatellite markers to assess the genetic diversity, the
 genetic structure and the demographic history of R. ferrumequinum colonies
 in the western part of its distribution. We identified one large
 population showing high levels of genetic diversity and large population
 size. Lower estimates were found in England and northern France. Analyses
 of clustering and isolation by distance suggested that the Channel and the
 Mediterranean seas could impede R. ferrumequinum gene flow. These results
 provide important information to improve the delineation of R.
 ferrumequinum management units. We suggest that a large management unit
 corresponding to the population ranging from Spanish Basque country to
 northern France must be considered. Particular attention should be given
 to mating territories as they seem to play a key role in maintaining the
 high levels of genetic mixing between colonies. Smaller management units
 corresponding to English and northern France colonies must also be
 implemented. These insular or peripheral colonies could be at higher risk
 of extinction in a near future.
description: Microsatellites
 data Microsatellites data in
 Genepop software (Rousset 2008) format. data-microsatellites-GENEPOPformat.txt
DOI: 10.5061/dryad.nc57k7g
title: Data from: Soil microbial biomass increases along elevational gradients in the tropics and sub-tropics but not elsewhere

description: Abstract Aim: Our aim is to use elevational gradients to quantify the
 relationship between temperature and ecosystem functioning. Ecosystem
 functions such as decomposition, nutrient cycling and carbon storage are
 linked with the amount of microbial biomass in the soil. Previous studies
 have shown variable relationships between elevation and soil microbial
 biomass (SMB). Understanding the biological mechanisms linking SMB with
 elevational gradients will shed light on the environmental impacts of
 global warming. Location: Global. Time period: 2002-2018. Major taxa
 studied: Soil microbes. Method: We performed a global meta-analysis of the
 relationships between SMB and elevation. Data were collected from 59
 studies of 73 elevational transects from around the world. Results: We
 found no consistent global relationship between SMB and elevation. SMB
 increased significantly with elevation in the tropics and sub-tropics, but
 not in other climate zones. However, we found consistent positive
 relationships between SMB, soil organic carbon and total nitrogen
 concentrations. Main conclusions: Our results suggest that global warming
 will impact tropical and sub-tropical ecosystems more severely than colder
 regions. Tropical ecosystems, already at risk from species extinctions,
 will likely experience declines in SMB as the climate warms, resulting in
 losses of fundamental ecosystem functions such as nutrient cycling and
 carbon storage.
description: Appendix
 S1
DOI: 10.5061/dryad.4dc007q
title: Data from: Complete loss of the MHC II pathway in an anglerfish, Lophius piscatorius

description: Genome studies in fish provide evidence for the adaptability of the
 vertebrate immune system, revealing alternative immune strategies. The
 reported absence of the major compatibility complex (MHC) class II pathway
 components in certain species of pipefish (genus Syngnathus) and cod-like
 fishes (order Gadiformes) is of particular interest. The MHC II pathway is
 responsible for immunization and defence against extracellular threats
 through the presentation of exogenous peptides to T helper cells. Here we
 demonstrate the absence of all genes encoding MHC II components (CD4, CD74
 A/B, and both classical and non-classical MHC II α/β) in the genome of an
 anglerfish, Lophius piscatorius, indicating loss of the MHC II pathway. In
 contrast, it has previously been reported that another anglerfish,
 Antennarius striatus, retains all MHC II genes, placing the loss of MHC II
 in the Lophius clade to their most recent common ancestor. In the three
 taxa where MHC II loss has occurred, the gene loss has been restricted to
 four or five core MHC II components, suggesting that, in teleosts, only
 these genes have functions that are restricted to the MHC II pathway.
description: Lophius piscatorius
 (BF1) contigs bf1_contigs.fasta
 
 Lophius
 piscatorius (BF2) contigs bf2_contigs.fasta
DOI: 10.5061/dryad.np574cj
title: Data from: High-density genetic map construction and QTL mapping of leaf and needling traits in Ziziphus jujuba Mill.

description: The Chinese jujube (Ziziphus jujuba Mill., 2n = 2 x = 24), one of the most
 popular fruit trees in Asia, is widely cultivated and utilized in China,
 where it is traditionally consumed as both a fresh and dried food
 resource. A high-density genetic map can provide the necessary framework
 for quantitative trait loci (QTL) analyses and map-based gene cloning and
 molecular breeding. In this study, we constructed a new high-density
 genetic linkage map via a genotyping-by-sequencing (GBS) approach. For the
 consensus linkage map, a total of 3,792 markers spanning 2,167.5 cM were
 mapped onto 12 linkage groups, with an average marker interval distance of
 0.358 cM. The genetic map anchored 301 Mb (85.7 %) of scaffolds from the
 sequenced Z. jujuba ‘Junzao’ genome. Based on this genetic map, 30
 potential QTLs were detected, including 27 QTLs for leaf traits and 3 QTLs
 for needling length. This high-density genetic map and the identified QTLs
 for relevant agronomic traits lay the groundwork for functional genetic
 mapping, map-based cloning, and marker-assisted selection in jujube.
description: SNP dataset for jujube
 linkage map constrcutionHere we upload the SNP
 dataset for jujube linkage map constrcution. A number of 103 F1 progenies
 and the parents 'Dongzao' and 'Jinsi4' were sequenced
 by Illumina platform using GBS strategy.All_SNP.vcf.gz
DOI: 10.5061/dryad.f9r12h3
title: Data from: The effects of climate warming on the migratory status of early summer populations of Mythimna separata(Walker) moths: a case-study of enhanced corn damage in central-northern China, 1980 - 2016

description: Mythimna separata (Walker) moths captured in light-traps were monitored in
 Luohe, central-northern China, from 1980 to 2016. Annual average
 temperature recorded an increase of 0.298 oC/10 years in this region in
 the period. Our results indicate that a rising Apr and May avarage
 temprature and earlier occurrences of days recording the highest day
 temperature (30℃) caused an advanced peak and increasing proportion of
 high ovarian development levels of first generation females in earlier
 summers. Results using Johnson’s formulation of ‘oogenesis-flight
 syndrome’ indicate that increasing sexual maturity proportion has resulted
 in more emigrant individuals in the local first generaton moth becoming
 residents, and then increased individuls repidly in the local second
 generation moth since 2006. Consequences of this action have a boom in
 corn damage since 2007 in this region. Advanced peak dates of the first
 and second generation moth revealed the same response to increasing
 average monthly temperatures in the monitoring period. Increasing
 temperatures, the avarage May temperature exceeds or equal to 22℃, during
 the early 2000's may represent a physiological threshold for M.
 separata development. Our results suggest that climate warming may impact
 M. separata migratory status and cause a problem of crop production in
 this region.
description: Armywormmoth_monotoring_1980-2016_LH_CN Moths were collected between April 1stand Oct 31st, 1980 to 2016 (the 2004 record is missing), using light-traps which was located in the agriculltural field of our institute’s farm(33º36’N，113º59’E). The black light wave length used for collection was 365nm with a power of 20 watts. Male and female individuals that were captured were counted every night.   Month_average_temperature_1980-2016_LH_CN The data included the month average temperature in 1980-2016, Luohe, Henan, CN