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Data from: Local environment and coral composition affect recovery and determine long-term coral responses to recurrent mass mortalities in the Lakshadweep Archipelago
<p>A quarter century after the first global coral bleaching event in 1998, reports differ on the relative importance of anthropogenic influences, local environment and bleaching recurrence in determining the resilience of coral reefs. While life history traits largely determine how corals respond to temperature anomalies, it is unclear if these traits also determine how corals fare over time. From 1998 to 2022, we tracked compositional changes in reefs across the Lakshadweep Archipelago to explore how global El Niño events, and local environment (wave climate and depth) influenced coral responses to repeated mass bleaching. From the 1998 to the 2016 bleaching event, the magnitude of coral mortality reduced overall, particularly at deeper reefs (shallow: -38% to -3%; deep: -18% to -0.45%). Post-bleaching recovery correlated positively with higher wave exposure, linked to the creation of stable structures for coral settlement and survival. Across bleaching phases, recovery was initially slow (6-7 years post-mortality), but, given time, showed a much steeper increase, led by space-occupying genera like <em>Acropora</em>. However, recurring mass bleaching maintained coral cover low (~15% across all sites). These broad trends mask dynamic compositional patterns. Genera such as <em>Porites</em>, <em>Pocillopora</em>, and <em>Favia</em> declined less through time compared to <em>Acanthastrea</em>, <em>Turbinaria</em>, <em>Psammocora</em> and <em>Plesiastrea </em>among others. We identified six community clusters that describe contrasting long-term responses to local and global factors, mediated by depth and wave exposure. Interestingly, genera with different functional traits cluster together indicating that bleaching susceptibility interacts with depth and exposure, creating a spatial mosaic of coral assemblages. These clusters serve as a predictive, site-specific framework to understand the dynamically shifting but declining assemblage of Lakshadweep reefs. While local management could help maintain this changing composition, urgent global action is needed to secure the long-term ecological integrity of tropical reefs.</p>
Рис. 1. ЧешуекрыΛые, обнаруженные в Амурской обΛасти: внешний виΑ гусеницы посΛеΑнего возраста (A) и имаго (B–O): A — Sphecodina caudata; B — Mirina christophi, самец; C — Paracolax fentoni, самка; D — Pangrapta costaemacula, самка; E — P. suaveola, самец; F — Araeopteron amoena, самец; G — Sinocharis korbae, самец; H — Nacna malachitis, самец; I — Sarbanissa venusta, самец; J — Plusilla rosalia, самец; K — Xylopolia bellula, самец; L — Xestia efflorescens, самец; M — Orthosia satoi, самец; N, O — O. ariuna (N — самец, O — самка). Места сбора: A, F, H, J, N, O — окрестности БΛаговещенска; B, G, L — Архаринский район, окрестности станции Тарманчукан; C, M — окрестности станции Рачи; D, E, I – окрестности с. Грибовка; K — БΛаговещенский район, окрестности с. Новопетровка. Масштабная Λинейка 5 мм Fig. 1. Lepidoptera species from Amur Oblast: habitus of last instar larva (A) and adult (B–O): A — Sphecodina caudata; B — Mirina christophi, male; C — Paracolax fentoni, female; D — Pangrapta costaemacula, female; E — P. suaveola, male; F — Araeopteron amoena, male; G — Sinocharis korbae, male; H — Nacna malachitis, male; I — Sarbanissa venusta, male; J — Plusilla rosalia, male; K — Xylopolia bellula, male; L — Xestia efflorescens, male; M —Orthosia satoi, male; N, O — O. ariuna (N — male, O — female). Localities: A, F, H, J, N, O — environs of Blagoveshchensk; B, G, L — Arkhara District, vicinity of Tarmanchukan; C, M — vicinity of Rachi; D, E, I — vicinity of Gribovka; K — Blagoveshchensk District, vicinity of Novopetrovka. Scale bar 5 mm in New species of moths (Lepidoptera, Macroheterocera) in the fauna of Amur Oblast, Russian Far East
Рис. 1. ЧешуекрыΛые, обнаруженные в Амурской обΛасти: внешний виΑ гусеницы посΛеΑнего возраста (A) и имаго (B–O): A — Sphecodina caudata; B — Mirina christophi, самец; C — Paracolax fentoni, самка; D — Pangrapta costaemacula, самка; E — P. suaveola, самец; F — Araeopteron amoena, самец; G — Sinocharis korbae, самец; H — Nacna malachitis, самец; I — Sarbanissa venusta, самец; J — Plusilla rosalia, самец; K — Xylopolia bellula, самец; L — Xestia efflorescens, самец; M — Orthosia satoi, самец; N, O — O. ariuna (N — самец, O — самка). Места сбора: A, F, H, J, N, O — окрестности БΛаговещенска; B, G, L — Архаринский район, окрестности станции Тарманчукан; C, M — окрестности станции Рачи; D, E, I – окрестности с. Грибовка; K — БΛаговещенский район, окрестности с. Новопетровка. Масштабная Λинейка 5 мм Fig. 1. Lepidoptera species from Amur Oblast: habitus of last instar larva (A) and adult (B–O): A — Sphecodina caudata; B — Mirina christophi, male; C — Paracolax fentoni, female; D — Pangrapta costaemacula, female; E — P. suaveola, male; F — Araeopteron amoena, male; G — Sinocharis korbae, male; H — Nacna malachitis, male; I — Sarbanissa venusta, male; J — Plusilla rosalia, male; K — Xylopolia bellula, male; L — Xestia efflorescens, male; M —Orthosia satoi, male; N, O — O. ariuna (N — male, O — female). Localities: A, F, H, J, N, O — environs of Blagoveshchensk; B, G, L — Arkhara District, vicinity of Tarmanchukan; C, M — vicinity of Rachi; D, E, I — vicinity of Gribovka; K — Blagoveshchensk District, vicinity of Novopetrovka. Scale bar 5 mm
Рис. 1. Места нахоΔок Dorcus parallelipipedus (Linnaeus, 1758) в ПриураΛье: 1 – окрестности пос. Мухраново (по ЖуравΛеву [1914]); 2 – окрестности с. ЕгинΔыкоΛь (наши Δанные). Fig. 1. Localities of Dorcus parallelipipedus (Linnaeus, 1758) near Southern Ural region: 1 – Mukhranovo village environs (by [Zhuravlev, 1914]); 2 – Egindykol village environs (our data). in Finding of the lesser stag beetle Dorcus parallelipipedus (Linnaeus, 1758) (Coleoptera: Lucanidae) in Kazakhstan
Рис. 1. Места нахоΔок Dorcus parallelipipedus (Linnaeus, 1758) в ПриураΛье: 1 – окрестности пос. Мухраново (по ЖуравΛеву [1914]); 2 – окрестности с. ЕгинΔыкоΛь (наши Δанные). Fig. 1. Localities of Dorcus parallelipipedus (Linnaeus, 1758) near Southern Ural region: 1 – Mukhranovo village environs (by [Zhuravlev, 1914]); 2 – Egindykol village environs (our data).
Fig. 1. Maps indicating the sampling locality within South Africa. A in Camallanid nematodes from Clarias gariepinus (Burchell, 1822) in the Crocodile River, Gauteng, South Africa: Exploring diversity and divergence in an acid-mine drainage impacted environment
Fig. 1. Maps indicating the sampling locality within South Africa. A- Map of Africa. B- Map of South Africa; red square highlighting area of interest. C- Map of Crocodile River flowing from Lake Heritage (sampling site) to Hartbeespoort Dam further downstream.
Fig. 2. Fossil locality and depositional environment. A in The Early Cambrian origin of thylacocephalan arthropods
Fig. 2. Fossil locality and depositional environment. A. Simplified paleogeographic map of the Yangtze Platform during the Sinian–Cambrian boundary showing main facies distribution (asterisk for fossil locality). B. Alternating siltstones−mudstones layers at Shankoucun (Maotianshan Shale, Lower Cambrian). Map after Zhu et al. (2003; simplified). bg, background mudstone; se, single−event mudstone (see explanation in text).
Environment and phenology shape local adaptation in thermal performance
Populations within species often exhibit variation in traits that reflect local adaptation and further shape existing adaptive potential for species to respond to climate change. However, our mechanistic understanding of how the environment shapes trait variation remains poor. Here, we used common garden experiments to quantify thermal performance in eight populations of the marine snail <i>Urosalpinx cinerea </i>across thermal gradients on the Atlantic and the Pacific coasts of North America. We then evaluated the relationship between thermal performance and environmental metrics derived from time-series data. Our results reveal a novel pattern of "mixed" trait performance adaptation, where thermal optima was positively correlated with spawning temperature (cogradient variation), while maximum trait performance was negatively correlated with season length (countergradient variation). This counterintuitive pattern likely arises because of phenological shifts in the spawning season, whereby "cold" populations delay spawning until later in the year when temperatures are warmer compared to "warm" populations that spawn earlier in the year when temperatures are cooler. Our results show that variation in thermal performance can be shaped by multiple facets of the environment and are linked to organismal phenology and natural history. Understanding the impacts of climate change on organisms therefore requires the knowledge of how climate change will alter different aspects of the thermal environment.
Bilateral hearing impaired children assessment of horizontal auditory localization accuracy in a virtual visual environment with free head movement
<p>Twenty-two hearing-impaired children (13 males and 9 females, mean age: 10.45 years, standard deviation 3.13 years) participated in an auditory localization experiment in a virtual visual environment. We investigated the contribution of head movements to localization along the interaural plane in absence of motor constraints and visual cues on a virtual scene, experienced by individuals wearing a head-mounted display while listening to stimuli coming from a circular loudspeaker array. Each session included multiple test conditions. In each condition, the stimulus was presented from loudspeaker positions that were randomly balanced across a sequence of 13 x 5 = 65 trials. Each participant performed the task first with both devices turned on ("On-On"), then with one device (either the left or right one) turned on and one off ("On-Off"), and finally with both devices turned off ("Off-Off"). The On-On condition was presented first during each test session because it provided an everyday listening context participants were accustomed to, and consequently confident with. The third condition was omitted if a patient's pure tone average threshold was above the stimulus level used for the test in the frequency range [0.5-4] kHz. Depending on this threshold, nine Bi HA listeners attended also the Off-Off condition. Two Bi HA listeners were unable to attend the On-Off test condition either, since their session had to be stopped as early as they reported annoyance or fatigue to the experimenter. Children were affected by non-syndromic hearing loss ("GEN NO SDR") in 8 cases (6 GJB2 gene mutations, 2 other gene mutations), syndromic hearing loss ("SDR") in 4 (2 Usher syndromes, 1 chromosomal instability, 1 Waardenburg syndrome), and 1 enlarged vestibular aqueduct (inner ear malformation, "IEM"). Other causes of hearing loss ("Other") were congenital cytomegalovirus infection in 2 cases, chemotherapy with platinum derivatives for neuroblastoma in 2, preterm delivery in 1, and prolonged neonatal intensive care unit stay in 1 case. The cause was not identified ("ND") in 3 cases. All participants were right-handed and had no diagnosis of motor impairment. Reported are: the participant's anonymous id ("Participant"), the age ("Age"), the cause of hearing impairment ("MacroCause"), the years of experience with each device ("Experience DX", "Experience SX"), the left and right pure-tone individual hearing thresholds at 500 Hz, 1000 Hz, 2000 Hz, and 4000 Hz, without and with devices ("Threshold w/o 500 DX" is the right threshold at 500 Hz without devices, and the others are named accordingly), the group ("Group", an example is "Bi CI On-Off" identifying the group of listeners with two cochlear implants, one turned on and the other turned off, and the others are named accordingly), the test condition ("Condition", an example is "NOICSX_ICDX", identifying the listening condition with the left cochlear implant turned off and the right cochlear implant turned on, and the others are named accordingly), the target ("Target", angle in sexagesimal degrees), the signed error ("Signed_error", the difference between the target angle and the pointed angle in sexagesimal degrees), the unsigned error ("Unsigned_error", the absolute difference between the target angle and the pointed angle in sexagesimal degrees), the difference between the target and head orientation angle in the moment when the target was hit ("Head_rotation", in sexagesimal degrees), the head covered distance during a single trial ("Head_distance", in meters). Here are presented only sessions including the complete set of 65 trials, except seven sessions attended by Bi-CI listeners, each missing one trial (six in the On-Off condition and one in the On-On condition) that was not recorded due to a technical problem.</p>
Data for: Differences in mucilage properties and stomatal sensitivity of locally adapted Zea mays in relation with precipitation seasonality and vapour pressure deficit regime of their native environment
<p>Dataset PlantDirect published manuscript:</p> <p>Berauer <em>et al.</em> (2023) - Differences in mucilage properties and stomatal sensitivity of locally adapted Zea mays in relation with precipitation seasonality and vapour pressure deficit regime of their native environment</p> <p>Article DOI: <em><strong>10.1002/pld3.519</strong></em></p> <p> </p> <p>All data is provided within one excel file. Please, pay attention to the provided ReadMe sheet for information on the dataset.</p>
Dataset and R script used in "Local knowledge reconstructs historical resource use" published in Frontiers in Ecology and the Environment
<p>Data and R code used in: L. Castello, E.G. Martins, M. Sorice, E. Smith, M. Almeida, G.C.C. Bastos, L.G. Cardoso, M. Clauzet, A.P. Dopona, B. Ferreira, M. Haimovici, M. Jorge, J. Mendonça, A.O. Ávila-da-Silva, A.P.O. Roman, M. Ramires, L.M. Villwock, P.F.M. Lopes. (Year) Local knowledge reconstructs historical resource use. Frontiers in Ecology and the Environment.</p>
Environment and phenology shape local adaptation in thermal performance
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Data from: Is the local environment more important than within-host interactions in determining coinfection?
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Data from: Maintaining local adaptation is key for evolutionary rescue and long-term persistence of populations experiencing habitat loss and a changing environment
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Data from: Local environment and coral composition affect recovery and determine long-term coral responses to recurrent mass mortalities in the Lakshadweep Archipelago
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Deep Reinforcement Learning for END-To-END Local Motion Planning of Autonomous Aerial Robots in Unknown Outdoor Environments: Real-Time Flight Experiments
<p> </p> <p>Videos for the real flight tests and the simulation experiments </p>
Data from: Local environment, not local adaptation, drives leaf-out phenology in common gardens along an elevational gradient in Acadia National Park, Maine
PREMISE OF THE STUDY: Climate-driven changes in phenology are substantially affecting ecological relationships and ecosystem processes. The role of variation among species has received particular attention; for example, variation among species' phenological responses to climate can disrupt trophic interactions and can influence plant performance. Variation within species in phenological responses to climate, however, has received much less attention, despite its potential role in ecological interactions and local adaptation to climate change. METHODS: We constructed three common gardens across an elevation gradient on Cadillac Mountain in Acadia National Park, Maine to test population-level responses in leaf-out phenology in a reciprocal transplant experiment. The experiment included three native species: low bush blueberry (Vaccinium angustifolium), sheep's laurel (Kalmia angustifolia), and three-toothed cinquefoil (Sibbaldiopsis tridentata). KEY RESULTS: Evidence for local adaptation of phenological response to temperature varied among the species, but was weak for all three. Rather, variation in phenological response to temperature appeared to be driven by local microclimate at each garden site and year-to-year variation in temperature. CONCLUSIONS: Population-level adaptations in leaf-out phenology appear to be relatively unimportant for these species in Acadia National Park, perhaps a reflection of strong genetic mixing across elevations, or weak differences in selection on phenological response to spring temperatures at different elevations. These results concur with other observational data in Acadia and highlight the utility of experimental approaches to understand the importance of annual and local site variation in affecting phenology both among and within plant species.
Data from: Influence of range position on locally adaptive gene-environment associations in Populus flowering time genes
Local adaptation is pervasive in forest trees, which are characterized by large effective population sizes spanning broad climatic gradients. In addition to having relatively contiguous populations, many species also form isolated populations along the rear edge of their range. These rear-edge populations may contain unique adaptive diversity reflecting a history of selection in marginal environments. Thus, discovering genomic regions conferring local adaptation in rear edge populations is a key priority for landscape genomics to ensure conservation of genetic resources under climate change. Here, we report on adaptive gene-environment associations in SNPs from 27 genes in the Populus flowering time gene network, analyzed on a range-wide collection of >1000 balsam poplar trees, including dense sampling of the southern range edge. We use a combined approach of local adaptation scans to identify candidate SNPs, followed by modeling the compositional turnover of adaptive SNPs along multivariate climate gradients using Gradient Forests (GF). Flowering time candidate genes contained extensive evidence of climate adaptation, namely outlier population structure and gene-environment associations, along with allele frequency divergence between the core and edge of the range. GF showed strong allele frequency turnover along gradients of elevation and diurnal temperature variability, as well as threshold responses to summer temperature and precipitation, with turnover especially strong in edge populations that occur at high elevation but southerly latitudes. We discuss these results in light of how climate may disrupt locally adaptivegene-environment relationships, and suggest that rear edge populations hold climate-adaptive variants that should be targeted for conservation.
Prediction of Compounds in Different Local SAR Environments using ECP
<p>SD files of 15 data sets reported in the manuscript are uploaded. Each data set is represented by its CHEMBL Target ID. The file format is provided in the file 'description.txt'.</p>
Combining X-ray Diffraction and X-ray Absorption Spectroscopy to Unveil Zn Local Environment in Zn-Doped ZrO2 Catalysts
<p>K-space EXAFS spectra; additional PXRD results; EXAFS fitting for reference t-ZrO2; fwhm analysis of first derivative of the Zr K-edge XANES main edge; EXAFS fitting for reference h-ZnO; test Zr K-edge EXAFS fitting of ZrZn-5 using a c-ZrO2 model; additional details on input structures employed in Zn K-edge EXAFS fitting; additional details on cluster size evaluation; additional details on <i>in situ</i> XAS data during activation in H2 and related EXAFS analysis using the Einstein model; <i>in situ</i> XAS data under reaction conditions (CO2/H2, 300 °C, 15 bar) </p>
Dataset/Models for: Active learning accelerated exploration of the single atom local environments in multimetallic systems for oxygen electrocatalysis
<p>This is the datasets and trained models for the work "Active learning accelerated exploration of the single atom local environments in multimetallic systems for oxygen electrocatalysis", by Hoje Chun, Jaclyn R. Lunger, Jeung Ku Kang, Rafael Gómez-Bombarelli, and Byungchan Han. Folder named Models contains the trained models of "m-PaiNN" and "per-site PaiNN". Folder named Dataset contains the torch dataset and Dataset_raw contains the raw Density Functional Theory (DFT) dataset parsed in format of pymatgen Structure. Some structures (868) in the search space are missing due to the lost track of the geometry optimization during the initial dataset curation.</p>
Genetic divergence and local adaptation of Liriodendron driven by heterogeneous environments
<p><span>Ecological adaptive differentiation alters both the species diversity and intraspecific genetic diversity in forests, thus affecting the stability of forest ecosystems. Therefore, knowledge of the genetic underpinnings of the ecological adaptive differentiation of forest species is critical for effective species conservation. In this study, single-nucleotide polymorphisms (SNPs) from population transcriptomes were used to investigate the spatial distribution of genetic variation in <i>Liriodendron</i> to assess whether environmental variables can explain genetic divergence. We examined the contributions of environmental variables to population divergence and explored the genetic underpinnings of local adaptation using a landscape genomic approach. Niche models and statistical analyses showed significant niche divergence between <i>L. chinense</i> and <i>L. tulipifera</i>, suggesting that ecological adaptation may play a crucial role in driving interspecific divergence. We detected a new fine-scale genetic structure in <i>L. chinense</i>, and divergence of the six groups occurred during the late Pliocene to early Pleistocene. Redundancy analysis (RDA) revealed significant associations between genetic variation and multiple environmental variables. Environmental association analyses identified 67 environmental association loci (EALs; nonsynonymous SNPs) that underwent interspecific or intraspecific differentiation, 28 of which were associated with adaptive genes. These 28 candidate adaptive loci provide substantial evidence for local adaptation in <i>Liriodendron</i>. Our findings reveal ecological adaptive divergence pattern between <i>Liriodendron</i> species and provide novel insight into the role of heterogeneous environments in shaping genetic structure and driving local adaptation among populations, informing future <i>L. chinense</i> conservation efforts. </span></p>
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These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.