cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.dfn2z34x7
title: Benefits of cooperation in captive Damaraland mole rats

description: Although the social mole rats are commonly classified as eusocial breeders
 on the grounds that groups include a single breeding female (the ‘queen’)
 and a number of non-breeding individuals (‘helpers’) of both sexes,
 alloparental care is not highly developed in these species and there is no
 direct evidence that the presence or number of non-breeders is associated
 with reductions in the workload of the ‘queen’. An alternative
 interpretation of mole rat groups is that the social mole rats are
 cooperative foragers rather than cooperative or eusocial breeders. Here,
 in captive colonies of Damaraland mole rats (Fukomys damarensis), we
 provide the first evidence that increases in the number of nonbreeding
 subordinates in mole rat groups are associated with reductions in the
 workload of ‘queens’ and with increases in their fecundity.
description: Behavioural data was collected using instantaneous scan sampling
 over 12h observation sessions. Full information is
 provided in the methods of the published paper. Data
 files include: BehEco_GroupSize_analysis.R  ---  R
 script for reproducing analyses. cumulative_work.csv 
 ---  total work done by helpers in scan sessions
 gest_weights.csv  ---  weight gain over gestation by breeding
 females ind_behav.csv  ---  individual-level behaviour
 within scan sessions litter_details.csv  ---  details
 on each litter mv_behav.csv  ---  data for multivariate
 model (breeding female behaviour, cumulative helper behaviour, gestational
 weight gain)
description: R script for reproducing analyses within the paper is
 provided. Note that to protect data collected as part
 of a long-term study, we have anonymised identifiers within each CSV file
 (so these will not match across data sets). However, the models should
 produce the same output as that shown in our results.
DOI: 10.5061/dryad.vq83bk3pm
title: Data from: Global warming will affect the maximum potential abundance of boreal plant species

description: Forecasting the impact of future global warming on biodiversity requires
 understanding how temperature limits the distribution of species. Here we
 rely on Liebig’s Law of Minimum to estimate the effect of temperature on
 the maximum potential abundance that a species can attain at a certain
 location. We develop 95%-quantile regressions to model the influence of
 effective temperature sum on the maximum potential abundance of 25 common
 understory plant species of Finland, along 868 nationwide plots sampled in
 1985. Fifteen of these species showed a significant response to
 temperature sum that was consistent in temperature-only models and in
 all-predictors models, which also included cumulative precipitation, soil
 texture, soil fertility, tree species and stand maturity as predictors.
 For species with significant and consistent responses to temperature, we
 forecasted potential shifts in abundance for the period 2041–2070 under
 the IPCC A1B emission scenario using temperature-only models. We predict
 major potential changes in abundance and average northward distribution
 shifts of 6–8 km yr−1. Our results emphasize inter-specific differences in
 the impact of global warming on the understory layer of boreal forests.
 Species in all functional groups from dwarf shrubs, herbs and grasses to
 bryophytes and lichens showed significant responses to temperature, while
 temperature did not limit the abundance of 10 species. We discuss the
 interest of modelling the ‘maximum potential abundance’ to deal with the
 uncertainty in the predictions of realized abundances associated to the
 effect of environmental factors not accounted for and to dispersal
 limitations of species, among others. We believe this concept has a
 promising and unexplored potential to forecast the impact of specific
 drivers of global change under future scenarios.
description: See methods section in Villén-Peréz, S., Heikkinen, J., Salemaa,
 M. and Mäkipää, R. 2020. Global warming will affect the maximum potential
 abundance of boreal plant species. – Ecography doi:
 10.1111/ecog.04720.
description: This database is a subset of the database used in the study
 (Villén-Peréz, S., Heikkinen, J., Salemaa, M. and Mäkipää, R. 2020. Global
 warming will affect the maximum potential abundance of boreal plant
 species. – Ecography doi: 10.1111/ecog.04720), including all environmental
 variables and abundance data of two species for all 869 plots.
DOI: 10.5061/dryad.cvdncjt15
title: Genomics confirms surprising ecological divergence and isolation in an endangered butterfly

description: Phylogeographic patterns in phytophagous organisms are often
 contextualized in light of geographic isolation and ecological (host,
 habitat) specialization. However, assessing the relative impact of these
 phenomena is not straightforward, even in areas where phylogeography is
 well-studied, such as the California Floristic Province. Here, we use
 genome-wide markers to elucidate population genomic and phylgeographic
 patterns for a group of monophytophagous butterflies in southern
 California. This group is of high conservation interest because it
 includes the El Segundo blue, Euphilotes battoides allyni, one of the
 first insects listed under the U.S. Endangered Species Act, and a newly
 discovered population putatively assigned to E. b. allyni. Despite using
 the same unique host and coastal habitat, our results indicate that the
 newly discovered populations are not E. b. allyni and are more closely
 related to geographically proximate populations of the E. battoides group
 using a different habitat host. Aside from E. b. allyni and the newly
 discovered populations, the rest of the group shows only fine-scale
 structure and apparently maintains genetic connectivity throughout
 southern California, across a vast range of habitats and climates, and on
 multiple hosts. Thus, habitat and host specialization did not elicit
 genetic isolation in neighboring populations suggesting that: 1) other
 phenomena are needed to explain the remarkable and idiosyncratic
 divergence of these highly restricted, proximate, taxa, and 2) fine-scale
 genomic markers suggest broader implications for understanding the
 mechanisms of speciation and reinvestigation of phylogeographic patterns
 in regions like the California Floristic Province.
DOI: 10.5061/dryad.42r9h
title: Communities that thrive in extreme conditions captured from a freshwater lake

description: Organisms that can grow in extreme conditions would be expected to be
 confined to extreme environments. However, we were able to capture highly
 productive communities of algae and bacteria capable of growing in acidic
 (pH 2), basic (pH 12) and saline (40 ppt) conditions from an ordinary
 freshwater lake. Microbial communities may thus include taxa that are
 highly productive in conditions that are far outside the range of
 conditions experienced in their host ecosystem. The organisms we captured
 were not obligate extremophiles, but were capable of growing in both
 extreme and benign conditions. The ability to grow in extreme conditions
 may thus be a common functional attribute in microbial communities.
description: Data and scripts for
 Communities that thrive in extreme conditions captured from a freshwater
 lakeRaw sequence data has
 been deposited in the ENA (http://www.ebi.ac.uk/ena/data/view/PRJEB10729).
 This file contains all of the R scripts and data used for statistical
 analysis and presentation in figures.Data and scripts Communities
 that thrive in extreme conditions captured from a freshwater
 lake.zip
DOI: 10.5061/dryad.7sqv9s4pr
title: Allocating resources for land protection using continuous optimization: an application to US biodiversity conservation

description: Spatial optimization approaches that were originally developed to help
 conservation organizations determine protection decisions over small
 spatial scales are now used to inform global or continental scale priority
 setting. However, the different decision contexts involved in large-scale
 resource allocation need to be considered. We present a continuous
 optimization approach in which a decision-maker allocates funding to
 regional offices. Local decision-makers then use these funds to implement
 habitat protection efforts with varying effectiveness when evaluated in
 terms of the funder's goals. We illustrate this continuous
 formulation by examining the relative priority that should be given to
 different counties in the coterminous United States (US) when acquiring
 land to establish new protected areas. If weighting all species equally,
 counties in the southwest US, where large areas can be bought cheaply, are
 priorities for protection. If focusing only on species of conservation
 concern, priorities shift to locations rich in such species, particularly
 near expanding exurban areas facing high rates of future habitat
 conversion (e.g., south-central Texas). Priorities for protection are
 sensitive to what is assumed about local ecological and decision-making
 processes. For example, decision-makers who doubt the efficacy of local
 land protection efforts should focus on a few key areas, while optimistic
 decision-makers should disperse funding more widely. Efforts to inform
 large-scale conservation priorities should reflect better the types of
 choice that decision-makers actually face when working over these scales.
 They also need to report the sensitivity of recommended priorities to what
 are often unstated assumptions about local processes affecting
 conservation outcomes.
DOI: 10.5066/p1r6wf8p
title: Mauna Kea Palila Egg Harvest 1996

description: This data release includes data and metadata documenting the removal of eggs from wild palila (Loxioides bailleui) nests to stimulate wild renesting while hatching the harvested eggs and rearing the chicks in captivity for later release to the wild. Some eggs were not harvested and were monitored in the wild for hatching and resulting progeny. The data provides details related to the harvest of the eggs (nest identification, location, date of harvest), the response of females to egg harvesting (date and location of renesting, and number and fertility of eggs laid in harvested nests, renests, and captivity), and chick survival in wild renests and in captivity. Not all eggs were collected for captive rearing but egg fate (fertility, dates, chicks, fledglings, etc.) were monitored in the wild.
DOI: 10.5061/dryad.7d7wm37rn
title: Neural ensemble reactivation in REM and SWS coordinate with muscle activity to promote rapid motor skill learning

description: Neural activity patterns of recent experiences are reactivated during
 sleep in structures critical for memory storage, including hippocampus and
 neocortex. This reactivation process is thought to aid memory
 consolidation. Although synaptic rearrangement dynamics following learning
 involve an interplay between slow-wave sleep (SWS) and rapid eye movement
 sleep (REM), most physiological evidence implicates SWS directly following
 experience as a preferred window for reactivation. Here we show that
 reactivation occurs in both REM and SWS, and that coordination of REM and
 SWS activation on the same day is associated with rapid learning of a
 motor skill. We performed 6-hour recordings from cells in rats’ motor
 cortex as they were trained daily on a skilled reaching task. In addition
 to SWS following training, reactivation occurred in REM, primarily during
 the pre-task rest period, and REM and SWS reactivation occurred on the
 same day in rats that acquired the skill rapidly. Both pre-task REM and
 posttask SWS activation were coordinated with muscle activity during
 sleep, suggesting a functional role for reactivation in skill learning.
 Our results provide the first demonstration that reactivation in REM sleep
 occurs during motor skill learning, and that coordinated reactivation in
 both sleep states on the same day, although at different times, is
 beneficial for skill learning.
description: Tetrode recordings from rat primary motor cortex during learning
 of skilled reaching task.  Recordings include sleep before and after daily
 training sessions.  The main analysis done was PCA reactivation based on
 Peyrache et al. 2009.
DOI: 10.5061/dryad.zkh18936s
title: Data from: The origin of the legumes is a complex paleopolyploid phylogenomic tangle closely associated with the Cretaceous-Paleogene (K-Pg) mass extinction event

description: The consequences of the Cretaceous-Paleogene (K-Pg) boundary (KPB) mass
 extinction for the evolution of plant diversity remain poorly understood,
 even though evolutionary turnover of plant lineages at the KPB is central
 to understanding assembly of the Cenozoic biota. The apparent
 concentration of whole genome duplication (WGD) events around the KPB may
 have played a role in survival and subsequent diversification of plant
 lineages. To gain new insights into the origins of Cenozoic biodiversity,
 we examine the origin and early evolution of the globally diverse legume
 family (Leguminosae or Fabaceae). Legumes are ecologically (co-)dominant
 across many vegetation types, and the fossil record suggests that they
 rose to such prominence after the KPB in parallel with several
 well-studied animal clades including Placentalia and Neoaves. Furthermore,
 multiple WGD events are hypothesized to have occurred early in legume
 evolution. Using a recently inferred phylogenomic framework, we
 investigate the placement of WGDs during early legume evolution using gene
 tree reconciliation methods, gene count data and phylogenetic supernetwork
 reconstruction. Using 20 fossil calibrations we estimate a revised
 timeline of legume evolution based on 36 nuclear genes selected as
 informative and evolving in an approximately clock-like fashion. To
 establish the timing of WGDs we also date duplication nodes in gene trees.
 Results suggest either a pan-legume WGD event on the stem lineage of the
 family, or an allopolyploid event involving (some of) the earliest
 lineages within the crown group, with additional nested WGDs subtending
 subfamilies Papilionoideae and Detarioideae. Gene tree reconciliation
 methods that do not account for allopolyploidy may be misleading in
 inferring an earlier WGD event at the time of divergence of the two
 parental lineages of the polyploid, suggesting that the allopolyploid
 scenario is more likely. We show that the crown age of the legumes dates
 to the Maastrichtian or early Paleocene and that, apart from the
 Detarioideae WGD, paleopolyploidy occurred close to the KPB. We conclude
 that the early evolution of the legumes followed a complex history, in
 which multiple auto- and/or allopolyploidy events coincided with rapid
 diversification and in association with the mass extinction event at the
 KPB, ultimately underpinning the evolutionary success of the Leguminosae
 in the Cenozoic.
DOI: 10.5061/dryad.bcc2fqz8c
title: Data for: Maternal glucocorticoid levels during incubation predict breeding success, but not reproductive investment, in a free-ranging bird

description: The hormone corticosterone (CORT) has been hypothesized to be
 linked with fitness, but the directionality of the relationship is
 unclear. The “CORT-fitness hypothesis” proposes that high levels of CORT
 arise from challenging environmental conditions, resulting in lower
 reproductive success (a negative relationship). In contrast, the
 “CORT-adaptation hypothesis” suggests that, during energetically demanding
 periods, CORT will mediate physiological or behavioural changes that
 result in increased reproductive investment and success (a positive
 relationship). During two breeding seasons, we experimentally manipulated
 circulating CORT levels in female tree swallows (Tachycineta bicolor)
 prior to egg laying, and measured subsequent reproductive effort, breeding
 success, and maternal survival. When females were recaptured during egg
 incubation and again during the nestling stage, the CORT levels were
 similar among individuals in each treatment group, and maternal treatment
 had no effect on indices of fitness. By considering variation among
 females, we found support for the “CORT-adaptation hypothesis”; there was
 a significant positive relationship between CORT levels during incubation
 and hatching and fledging success. During the nestling stage CORT levels
 were unrelated to any measure of investment or success. Within the
 environmental context of our study, relationships between maternal
 glucocorticoid levels and indices fitness vary across reproductive stages.
DOI: 10.5061/dryad.9p8cz8wcg
title: Data from: The importance of biotic filtering on boreal conifer recruitment at alpine treeline

description: Treeline, the ecotone where forest transitions to alpine or tundra
 ecosystems, is considered the thermal limit to tree growth and survival.
 Despite temperature increases across mountainous areas and high latitudes
 globally, there has been no ubiquitous change in treeline position. The
 process of range expansion must initially depend on increased recruitment
 at, or beyond current range limits and recruitment limitations have been
 hypothesized as a mechanism for the variable response of treeline position
 to climate warming. We conducted a unique series of observational and
 experimental studies to quantify early-life stage constraints, from seed
 production to seedling establishment, on black spruce (Picea mariana) and
 tamarack (Larix laricina) recruitment at a model alpine treeline in
 Newfoundland, Canada. We found recruitment at treeline to be
 simultaneously seed and establishment limited. The treeline population
 produced fewer seeds than the forest population and black spruce seeds
 produced at treeline were less viable. Tamarack was more seed limited than
 black spruce where seed viability was low regardless of altitudinal
 position. Post-dispersal seed predation greatly constrained recruitment
 across the altitudinal gradient; however, black spruce seeds experienced
 the lowest levels of invertebrate seed predation on the lichen mat at
 treeline. If seeds were not consumed, individuals at treeline were
 establishment limited where germination and seedling establishment was
 both less abundant and delayed on lichen substrate. Our study highlights
 the need for multiple factors to align temporally for significant
 recruitment at treeline to occur.
description: Please refer to the Methods section of the associated
 paper. 
description: Data from Crofts & Brown
 (2020), <em>Ecography</em>: doi:10.1111/ecog.04899. All
 variables are described in the "Metadata" sheet of the excel
 file (Crofts&Brown_Ecography_Data.xlsx).
DOI: 10.5061/dryad.q2bvq83fz
title: Sexual signal loss, pleiotropy, and maintenance of a male reproductive polymorphism in crickets

description: Pleiotropy between male signals and female preferences can facilitate
 evolution of sexual communication by maintaining coordination between the
 sexes. Alternatively, it can favor variation in the mating system, such as
 a reproductive polymorphism. It is unknown how common either of these
 scenarios are in nature. In Pacific field crickets (Teleogryllus
 oceanicus) on Kauai, Hawaii, a mutation (flatwing) that segregates as a
 single locus is responsible for the rapid loss of song production in
 males. We used outbred cricket colonies fixed for male wing morph to
 investigate whether homozygous flatwing and normal-wing (wild-type)
 females differ in responsiveness to male calling song and propensity to
 mate when paired with either a flatwing or normal-wing male in the
 presence or absence of courtship song. Flatwing females were less likely
 to mount a male than normal-wing females. Females of both genotypes showed
 a preference for normal-wing males and were more likely to mate in the
 presence of courtship song; normal-wing females were particularly likely
 to mate with song. Our results show that negative pleiotropy between
 obligate male silence and female mating behavior can constrain the
 evolution of sexual signal loss and contribute to the maintenance of a
 male reproductive polymorphism in the wild. 
description: These data were collected using behavioral phonotaxis and
 no-choice mating trials with <em>Teleogryllus
 oceanicus </em>crickets in the laboratory.
DOI: 10.5061/dryad.jdfn2z37p
title: Latent atrophy factors related to phenotypical variants of posterior cortical atrophy

description: Objective: To determine whether atrophy relates to phenotypical variants
 of posterior cortical atrophy (PCA) recently proposed in clinical
 criteria; dorsal, ventral, dominant-parietal and caudal, we assessed
 associations between latent atrophy factors and cognition. Methods: We
 employed a data-driven Bayesian modelling framework based on latent
 Dirichlet allocation to identify latent atrophy factors in a multi-center
 cohort of 119 individuals with PCA (age:64±7, 38% male, MMSE:21±5, 71%
 amyloid-β-positive, 29% amyloid-β status unknown). The model uses
 standardized gray matter density images as input (adjusted for age, sex,
 intracranial volume, field-strength and whole-brain gray matter volume)
 and provides voxelwise probabilistic maps for a predetermined number of
 atrophy factors, allowing every individual to express each factor to a
 degree without a-priori classification. Individual factor expressions were
 correlated to four PCA-specific cognitive domains (object-perception,
 space-perception, non-visual/parietal functions and primary visual
 processing) using general linear models. Results: The model revealed four
 distinct yet partially overlapping atrophy factors; right-dorsal,
 right-ventral, left-ventral, and limbic. We found that object-perception
 and primary visual processing were associated with atrophy that
 predominantly reflects the right-ventral factor. Furthermore,
 space-perception was associated with atrophy that predominantly represents
 the right-dorsal and right-ventral factors. However, individual
 participant profiles revealed that the vast majority expressed multiple
 atrophy factors and had mixed clinical profiles with impairments across
 multiple domains, rather than displaying a discrete clinical-radiological
 phenotype. Conclusion: Our results indicate that particular brain-behavior
 networks are vulnerable in PCA, but most individuals display a
 constellation of affected brain-regions and symptoms, indicating that
 classification into four mutually exclusive variants is unlikely to be
 clinically useful.
DOI: 10.5061/dryad.v6wwpzgrx
title: Lower soil carbon stocks in exotic vs. native grasslands are driven by carbonate losses

description: Global change includes invasion by exotic (non-native) plant species and
 altered precipitation patterns, and these factors may affect terrestrial
 carbon (C) storage. We measured soil C changes in experimental mixtures of
 all exotic or all native grassland plant species under two levels of
 summer drought stress (0 and +128 mm). After eight years, soils were
 sampled in 10 cm increments to 100 cm depth to determine if soil C
 differed among treatments in deeper soils. Total soil C (organic +
 inorganic) content was significantly higher under native than exotic
 plantings, and differences increased with depth. Surprisingly, differences
 after eight years in C were due to carbonate and not organic C fractions,
 where carbonate was ~ 250 g C m-2 lower to 1 m soil depth under exotic
 than native plantings. Our results indicate that soil carbonate is an
 active pool and can respond to differences in plant species traits over
 timescales of years. Significant losses of inorganic C might be avoided by
 conserving native grasslands in sub-humid ecosystems.