cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.kr6c9
title: Data from: Shared genes but not shared genetic variation: legume colonization by two belowground symbionts

description: Mutualisms between hosts and multiple symbionts can generate diffuse
 coevolution if genetic covariance exists between host traits governing
 multiple interactions. Rhizobia and arbuscular mycorrhizal fungi (AMF)
 both interact with legume hosts, providing complementary nutrients
 (nitrogen and phosphorous). Molecular approaches have revealed extensive
 pleiotropy in the plant genetic pathways required for colonization of both
 symbionts; however, a quantitative genetic approach is required to
 understand whether this pleiotropy shapes evolution in natural
 populations. In a greenhouse experiment with 75 families of Chamaecrista
 fasciculata grown in two phosphorous environments (fertilized and
 unfertilized), positive covariance between nodule number and plant
 aboveground biomass within and across environments indicates selection for
 increased allocation to rhizobia. Genetic variation for host restriction
 of AMF colonization in response to P suggests that this aspect of
 context-dependency can evolve in host populations, and that selection in
 this mutualism varies with P. Despite the existence of gene-level
 pleiotropy during rhizobium and AMF infection, we find no evidence for
 genetic covariance in symbiont colonization or its response to phosphorous
 - suggesting that genetic variation at other, non-pleiotropic loci govern
 variation in colonization and thus that these traits likely evolve
 independently in plant populations.
description: Genetic
 CorrelationsGenetic correlation
 dataGcorr
 Data.xlsx
DOI: 10.5061/dryad.7b2d9
title: Data from: Transgressive physiological and transcriptomic responses to light stress in allopolyploid Glycine dolichocarpa (Leguminosae)

description: Allopolyploidy is often associated with increased photosynthetic capacity
 as well as enhanced stress tolerance. Excess light is a ubiquitous plant
 stress associated with photosynthetic light harvesting. We show that under
 chronic excess light, the capacity for non-photochemical quenching
 (NPQmax), a photoprotective mechanism, was higher in a recently formed
 natural allotetraploid (Glycine dolichocarpa, designated ‘T2’) than in its
 diploid progenitors (G. tomentella, ‘D3’; and G. syndetika, ‘D4’). This
 enhancement in NPQmax was due to an increase in energy-dependent quenching
 (qE) relative to D3, combined with an increase in zeaxanthin-dependent
 quenching (qZ) relative to D4. To explore the genetic basis for this
 phenotype, we profiled D3, D4 and T2 leaf transcriptomes and found that T2
 overexpressed genes of the water–water cycle relative to both diploid
 progenitors, as well as genes involved in cyclic electron flow around
 photosystem I (CEF-PSI) and the xanthophyll cycle, relative to D4.
 Xanthophyll pigments have critical roles in NPQ, and the water–water cycle
 and CEF-PSI are non-photosynthetic electron transport pathways believed to
 facilitate NPQ formation. In the absence of CO2, T2 also exhibited greater
 quantum yield of photosystem II than either diploid, indicating a greater
 capacity for non-photosynthetic electron transport. We postulate that,
 relative to its diploid progenitors, T2 is able to achieve higher NPQmax
 due to an increase in xanthophyll pigments coupled with enhanced electron
 flow through the water–water cycle and CEF-PSI.
description: NPQ_data_DryadNonphotochemical quenching, measured using a Hansatech chlorophyll fluorometer, SigmaPlot parameter estimates for fitted data, and estimates of maximum NPQ (NPQmax) by accession and species. "E" = excess light; "L" = limiting light.qEqZqI_data_DryadRaw chlorophyll fluorescence values (Fm, Fm'1, Fm'2), and values calculated for individual nonphotochemical quenching (NPQ) components (qE, qZ, qI). Data derived from the same tissues as used in NPQmax_data_Dryad.xlsx.PhiPSII_data_DryadQuantum yield of photosystem II (PhiPSII) measured with a chlorophyll fluorometer using on the same tissue and under the same conditions used to measure NPQmax, qE, qI, and qZ.
DOI: 10.5061/dryad.885hk
title: Data from: Age specific survival rates of Steller sea lions at rookeries with divergent population trends in the Russian Far East

description: After a dramatic population decline, Steller sea lions have begun to
 recover throughout most of their range. However, Steller sea lions in the
 Western Aleutians and Commander Islands are continuing to decline.
 Comparing survival rates between regions with different population trends
 may provide insights into the factors driving the dynamics, but published
 data on vital rates have been extremely scarce, especially in regions
 where the populations are still declining. Fortunately, an unprecedented
 dataset of marked Steller sea lions at rookeries in the Russian Far East
 is available, allowing us to determine age and sex specific survival in
 sea lions up to 22 years old. We focused on survival rates in three areas
 in the Russian range with differing population trends: the Commander
 Islands (Medny Island rookery), Eastern Kamchatka (Kozlov Cape rookery)
 and the Kuril Islands (four rookeries). Survival rates differed between
 these three regions, though not necessarily as predicted by population
 trends. Pup survival was higher where the populations were declining
 (Medny Island) or not recovering (Kozlov Cape) than in all Kuril Island
 rookeries. The lowest adult (&gt; 3 years old) female survival was
 found on Medny Island and this may be responsible for the continued
 population decline there. However, the highest adult survival was found at
 Kozlov Cape, not in the Kuril Islands where the population is increasing,
 so we suggest that differences in birth rates might be an important driver
 of these divergent population trends. High pup survival on the Commander
 Islands and Kamchatka Coast may be a consequence of less frequent (e.g.
 biennial) reproduction there, which may permit females that skip birth
 years to invest more in their offspring, leading to higher pup survival,
 but this hypothesis awaits measurement of birth rates in these areas.
description: Resight history of
 Steller sea lions in the Russian Far EastData file contains
 annual resight history of Steller sea lions branded as pups between 1989
 and 2008 and resighted between 1996 and 2011 at 6 major rookeries in the
 Russian Far East. Detailed information on data structure provided in read
 me file.data.csv
DOI: 10.5061/dryad.6968k
title: Data from: Decreased small mammal and on-host tick abundance in association with invasive red imported fire ants (Solenopsis invicta)

description: Invasive species may impact pathogen transmission by altering the
 distributions and interactions among native vertebrate reservoir hosts and
 arthropod vectors. Here, we examined the direct and indirect effects of
 the red imported fire ant (Solenopsis invicta) on the native tick, small
 mammal and pathogen community in southeast Texas. Using a replicated
 large-scale field manipulation study, we show that small mammals were more
 abundant on treatment plots where S. invicta populations were
 experimentally reduced. Our analysis of ticks on small mammal hosts
 demonstrated a threefold increase in the ticks caught per unit effort on
 treatment relative to control plots, and elevated tick loads (a 27-fold
 increase) on one common rodent species. We detected only one known human
 pathogen (Rickettsia parkeri), present in 1.4% of larvae and 6.7% of nymph
 on-host Amblyomma maculatum samples but with no significant difference
 between treatment and control plots. Given that host and vector population
 dynamics are key drivers of pathogen transmission, the reduced small
 mammal and tick abundance associated with S. invicta may alter pathogen
 transmission dynamics over broader spatial scales.
description: AntTickR5On-host tick dataFireAntMammR2FixedSmall Mammal dataTickDragOff-host tick data
DOI: 10.5061/dryad.f1468
title: Data from: Testing a developmental model in the fossil record: molar proportions in South American ungulates

description: A developmental model, based upon murine rodents, has been proposed by
 Kavanagh et al. (2007) to explain lower molar proportions in mammals. We
 produce a clade-wide macroevolutionary test of the model using the dental
 evolutionary trends in a unique radiation of extinct mammals endemic to
 South America (“Meridiungulata”) that comprise a diverse array of molar
 morphologies. All of the South American ungulate groups examined follow
 the inhibitory cascade model with the exception of two groups:
 Interatheriidae (Notoungulata) and Astrapotheria. For most taxa studied,
 ratios between lower molar areas are greater than 1.0 indicating a weak
 inhibition by m1 on the subsequent molars in the tooth row, and a trend to
 greater absolute size of the posterior molars. Comparisons of mean ratios
 between clades indicate a significant phylogenetic signal can be detected,
 particularly between the two groups within Notoungulata: Typotheria and
 Toxodontia. Body mass estimates were found to be significantly correlated
 with both m3/m1 and m2/m1 ratios, suggesting that the larger body size
 achieved the weaker inhibition between the lower molars. Molar ratio
 patterns are examined and discussed in relation to the independent and
 numerous acquisitions of hyspodonty that are characteristic of dental
 evolution in ‘Meridiungulata’.
description: 11001 Supplementary
 Table 1Table of measurements
 for lower molars (m1 - m3) for all taxa examined in this study. Data
 compiled from museum collection specimens (abbreviations detailed), from
 literature sources (detailed) and from specimens collected by the authors
 (Honda Group in the middle Magdalena Valley, Colombia).
DOI: 10.5061/dryad.32765
title: Data from: Location of triple-negative breast cancers: comparison with estrogen receptor-positive breast cancers on MR imaging

description: There has been a major need to better understand the biological
 characteristics of triple-negative breast cancers. Compared with estrogen
 receptor (ER)-positive cancers, several magnetic resonance (MR) imaging
 findings have been reported as characteristic findings. However,
 information regarding their location has not been described. Our study was
 to compare the location of triple-negative breast cancers with that of
 ER-positive breast cancers using magnetic resonance (MR) imaging. The
 locations of 1102 primary breast cancers (256 triple-negative and 846
 ER-positive) in 1090 women (mean, 52.1 years) were reviewed using
 three-dimensional (3D) coordinates. The x-axis measurement was recorded as
 the transverse distance from the posterior nipple line; y-axis measurement
 as the anteroposterior distance from the chest wall; z-axis measurement as
 the superoinferior distance from the posterior nipple line. The
 association between breast cancer subtype and tumor location was evaluated
 using multiple linear regression analysis. Triple-negative breast cancers
 were significantly closer to the chest wall than ER-positive breast
 cancers in absolute (1.8 cm vs. 2.3 cm, P &lt; .0001) and normalized
 (0.21 vs. 0.25, P &lt; .0001) y-axis distances. The x- and z-axes
 distances were not significantly different between triple-negative and
 ER-positive breast cancers. Multiple linear regression analysis revealed
 that age, mammographic density, axillary nodal status, and triple-negative
 subtype were significantly associated with absolute and normalized
 distances from the chest wall (all P &lt; .05). Our results show that
 triple-negative breast cancers have a tendency toward a posterior or
 prepectoral location compared with ER-positive breast cancers.
description: Location of
 Triple-Negative Breast Cancers: Comparison with Estrogen Receptor-Positive
 Breast Cancers on MR ImagingRaw data for the
 manuscript of "Location of Triple-Negative Breast Cancers: Comparison
 with Estrogen Receptor- Positive Breast Cancers on MR
 Imaging"tumor location raw
 data_final.xls
DOI: 10.5061/dryad.6mp5q
title: Data from: The influence of dispersal on the realized trajectory of a pond metacommunity

description: Dispersal rates play a critical role in metacommunity dynamics, yet few
 studies have attempted to characterize dispersal rates for the majority of
 species in any natural community. Here we evaluate the relationship
 between the abundances of 179 plankton taxa in a pond metacommunity and
 their dispersal rates. We find the expected positive relationship between
 the regional abundances of phytoplankton, protozoa and metazoan
 zooplankton, which is suggestive of dispersal being a density-independent
 per capita rate for these groups. When we tested to see if the rates of
 dispersing taxa predicted changes in community composition, we found that
 dispersers had no measurable impact on the short-term trajectory of local
 pond communities or mesocosm communities established experimentally
 (assembled communities), but became increasingly represented in the
 overall pond metacommunity during the course of the full growing season.
 In comparison, the composition of experimental mesocosms that lacked any
 initial zooplankton community (unassembled communities) were found to be
 driven by dispersal measured at the local pond community but not by
 dispersal observed across the overall metacommunity. These results suggest
 that the role of dispersal may shift from a contributor to local,
 ecological dynamics to that of metacommunity-wide, colonization–extinction
 dynamics as communities assemble.
description: Pond Metacommunity
 Plankton Dispersal DataThese data describe the
 plankton metacommunity in ponds at Lux Arbor Reserve (Barry County,
 Michigan, USA) from May-September 2011 and associated dispersal and
 experimental mesocosm data. Data are separated into phytoplankton/protozoa
 and metazoan zooplankton. Five types of plankton sample data are included:
 (P) local pond surveys, (A) dispersal trap abundances, (B) unassembled
 mesocosms with filtered water from the adjacent focal pond, (C) assembled
 mesocosms with unfiltered water from the adjacent focal pond, and (D)
 unassembled mesocosms with well water. Data for B, C, and D are only
 available for metazoan zooplankton.Oikos 03864
 Data.xlsx
DOI: 10.15468/dl.g95xv3
title: Occurrence Download

description: A dataset listing the 87 species recorded in GBIF matching the query:
{
 "and" : [
 "Country is Brazil",
 "TaxonKey is Fissurellidae"
 ]
}

 The dataset's 87 records were derived from 50 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000723-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.p3f13
title: Data from: Mating system contributes only slightly to female maintenance in gynodioecious Geranium maculatum (Geraniaceae)

description: Gynodioecy, the co-occurrence of female and hermaphroditic individuals
 within a population, is an important intermediate in the evolution of
 separate sexes. The first step, female maintenance, requires females to
 have higher seed fitness compared with hermaphrodites. A common mechanism
 thought to increase relative female fitness is inbreeding depression
 avoidance, the magnitude of which depends on hermaphroditic selfing rates
 and the strength of inbreeding depression. Less well studied is the effect
 of biparental inbreeding on female fitness. Biparental inbreeding can
 affect relative female fitness only if its consequence or frequency
 differs between sexes, which could occur if sex structure and genetic
 structure both occur within populations. To determine whether inbreeding
 avoidance and/or biparental inbreeding can account for female persistence
 in Geranium maculatum, we measured selfing and biparental inbreeding rates
 in four populations and the spatial genetic structure in six populations.
 Selfing rates of hermaphrodites were low and did not differ significantly
 from zero in any population, leading to females gaining at most a 1–14%
 increase in seed fitness from inbreeding avoidance. Additionally, although
 significant spatial genetic structure was found in all populations,
 biparental inbreeding rates were low and only differed between sexes in
 one population, thereby having little influence on female fitness. A
 review of the literature revealed few sexual differences in biparental
 inbreeding among other gynodioecious species. Our results show that mating
 system differences may not fully account for female maintenance in this
 species, suggesting other mechanisms may be involved.
description: Mating_SystemOffspring genotypes for 4 populations.SGS_dryadGenotypes and locations of adults in 6 populations.
DOI: 10.5061/dryad.57nr2
title: Data from: Taking a trip to the shelf: behavioural decisions are mediated by the proximity to foraging habitats in the black-legged kittiwake

description: 1. For marine top predators like seabirds, the oceans represent a
 multitude of habitats regarding oceanographic conditions and food
 availability. Worldwide, these habitats are undergoing alterations due to
 changes in climate and increased anthropogenic impact. This is causing a
 growing concern on how seabird populations might adapt to these changes.
 2. Understanding how seabird populations respond to fluctuating
 environmental conditions and to what extent behavioural flexibility can
 buffer variations in food availability, can help predict how seabirds may
 cope with changes in the marine environment. Such knowledge is important
 to implement proper long-term conservation measures intended to protect
 marine predators. 3. We explored behavioural flexibility in choice of
 foraging habitat of chick-rearing black-legged kittiwakes Rissa tridactyla
 during multiple years. By comparing foraging behaviour of individuals from
 two colonies with large differences in oceanographic conditions and
 distances to predictable feeding areas at the Norwegian shelf break, we
 investigated how foraging decisions are related to intrinsic and extrinsic
 factors. 4. We found that proximity to the shelf break determined which
 factors drove the decision to forage there. At the colony near the shelf
 break, time of departure from the colony and wind speed were most
 important in driving the choice of habitat. At the colony farther from the
 shelf break, the decision to forage there was driven by adult body
 condition. Birds furthermore adjusted foraging behaviour metrics according
 to time of the day, tide, weather conditions, body condition as well as
 the age of the chicks. 5. The study shows that kittiwakes have high degree
 of flexibility in their behavioural response to a variable marine
 environment, which might help them buffer changes in prey distribution
 around the colonies. The flexibility was, however, dependent on the
 availability of foraging habitats near the colony.
description: Dataset for calculation
 of habitat used and behaviour of foraging black-legged
 kittiwakesThis data set contains a
 copy of the main data file exactly as used for this paper. The data was
 used to analyse habitat selection and behaviour in the foraging habitat by
 chick-rearing black-legged kittiwakes. This data file was made in txt,
 with semicolon used as separator. Please feel free to contact me if you
 have suggestions, find errors, inconsistencies, or any other bug in the
 file. As well, please let me know about your uses of this
 data.dataset_foraging_behaviour.txt
DOI: 10.5061/dryad.n4s1r
title: Data from: Reproductive success of captively bred and naturally spawned Chinook salmon colonizing newly accessible habitat

description: Captively reared animals can provide an immediate demographic boost in
 reintroduction programs but may also reduce the fitness of colonizing
 populations. Construction of a fish passage facility at Landsburg
 Diversion Dam on the Cedar River, WA, USA, provided a unique opportunity
 to explore this trade-off. We thoroughly sampled adult Chinook salmon
 (Oncorhynchus tshawytscha) at the onset of colonization (2003 – 2009),
 constructed a pedigree from genotypes at 10 microsatellite loci, and
 calculated reproductive success (RS) as the total number of returning
 adult offspring. Hatchery males were consistently but not significantly
 less productive than naturally spawned males (range in relative RS: 0.70 –
 0.90), but the pattern for females varied between years. The sex ratio was
 heavily biased towards males, so inclusion of the hatchery males increased
 the risk of a genetic fitness cost with little demographic benefit.
 Measurements of natural selection indicated that larger salmon had higher
 RS than smaller fish. Fish that arrived early to the spawning grounds
 tended to be more productive than later fish, although in some years, RS
 was maximized at intermediate dates. Our results underscore the importance
 of natural and sexual selection in promoting adaptation during
 reintroductions.
description: GenotypesThis file contains genotypes at 10 microsatellite loci for Chinook salmon collected in the fish passage facility at Landsburg Diversion Dam, Cedar River, WA, USA. Values of "0" indicated no observation at the given locus for that individual.PhenotypesThis file contains the non-genetic data on each individual in the study. "Adipose" refers to the presence or absence of the adipose fin; salmon hatcheries in this region generally remove this fin prior to release. Thus "Absent" indicates hatchery origin.
DOI: 10.5061/dryad.8364h
title: Data from: Creating new evolutionary pathways through bio-invasion: the population genetics of brushtail possums in New Zealand

description: Rapid increases in global trade and human movement have created novel
 mixtures of organisms bringing with them the potential to rapidly
 accelerate the evolution of new forms. The common brushtail possum
 (Trichosurus vulpecula), introduced into New Zealand from Australia in the
 19th Century, is one such species having been sourced from multiple
 populations in its native range. Here, we combine microsatellite DNA and
 GIS-based spatial data to show that T.vulpecula originating from at least
 two different Australian locations exhibit a population structure that is
 commensurate with their introduction history and which cannot be explained
 by landscape features alone. Most importantly, we identify a hybrid zone
 between the two subspecies which appears to function as a barrier to
 dispersal. When combined with previous genetic, morphological and captive
 studies, our data suggest that assortative mating between the two
 subspecies may operate at a behavioural or species recognition level
 rather than through fertilization, genetic incompatibility, or
 developmental inhibition. Nevertheless, hybridization between the two
 subspecies of possum clearly occurs, creating the opportunity for novel
 genetic combinations that would not occur in their natural ranges and
 which is especially likely given that multiple contact zones occur in New
 Zealand. This discovery has implications for wildlife management in New
 Zealand because multiple contact zones are likely to influence the
 dispersal patterns of possums and because differential susceptibility to
 baiting with sodium fluoroacetate between possums of different origins,
 may promote novel genetic forms.
description: possum_genotypes