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2,052 results for “Species tree”
Mapping Tree Species Drought Sensitivity Under Climate Change
<p>Forests cover approximately 30% of Earth's land surface, absorb more carbon than all other terrestrial ecosystems, and provide trillions of dollars' worth of ecosystem services (Food and Agriculture Organization of the United Nations, 2005). However, climate change-induced droughts pose a significant threat to these vital ecosystems. As climate change intensifies, it is critical for our planning and management that we understand how and where trees will be the most threatened. Previous research has examined the effects of these droughts on forests at a global scale, but these large-scale analyses are not particularly helpful for land managers who often focus on specific regions and only a limited number of species. Our project addresses this gap by assessing species-specific sensitivity to increasingly severe and frequent droughts, considering the variations within their ranges. This localized information is crucial for land managers to develop targeted conservation strategies. By analyzing species-specific data, we demonstrate that the impacts of drier conditions are not uniform across or within species. Our findings suggest that effective management strategies must adopt a multifaceted and area-specific approach. To make our findings easily usable, we developed an interactive dashboard for land managers and the public. Here, users can find species-specific sensitivity maps that highlight the areas of greatest concern within manageable spaces, providing a valuable tool for informed decision-making. Our project contributes to the understanding of the potential future drought impacts on forests and emphasizes the need for targeted conservation efforts to mitigate the consequences of climate change on these essential ecosystems.</p>
Figure 1. Phylogenetic tree reconstruction from ASTRAL, using 638 in A Taxonomic Revision of the Madagascar-Endemic Genus Bemangidia (Sapotaceae), with Description of a Second Species
Figure 1. Phylogenetic tree reconstruction from ASTRAL, using 638 protein-coding genes. Note that ASTRAL calculates only internal branch lengths, and that tip lines are artificially fixed at the same length for all the specimens. The node labels represent ASTRAL support values given as posterior probabilities (PP). Specimen collector's numbers are indicated after the species name, except for Capurodendron and Sapoteae, which appear in Boluda et al. (2022). BioSample numbers for sequence accessions are given in Boluda et al. (2022), except for Bemangidia sp. nov. Randriatafika 813 (BioSample no. SAMN35983425), B. lowryi Gautier 5784 (BioSample no. SAMN35982381), B. lowryi Lowryi et al. 6657 (BioSample no. SAMN35983092), Northia seychellana Bernardi 14641 (BioSample no. SAMN35983402) and Tsebona sp. Andriamiarisoa 2582 (BioSample no. SAMN35983419).
Data and code for "Tree species abundance changes at the edges of their climatic distribution: an interplay between climate change, plant traits, and forest management"
<p>## Secondary data and code to accompany the research entitled "Tree species abundance changes at the edges of their climatic distribution: an interplay between climate change, plant traits, and forest management" by Padullés Cubino et al. (2024).</p> <p># There are four folders with (1) "raw data", (2) "processed data", (3) "results", and (4) "scripts".</p> <p># The raw and processed data folders contain the CSV and XLSX files with all the data used for analysis and produced from them</p> <p># The "results" folder contains the figures and table presented in the manuscript.</p> <p># The "scripts" folder contains four scripts for the analyses described in the manuscript:</p> <p> 01_preparation_ClimEdge.R -> data cleaning and processing</p> <p> 02_script_Fig1.R -> code to produce Fig1</p> <p> 03_script_Fig2.R -> code to produce Fig2</p> <p> 04_script_Table1_Fig3.R -> code to produce Table 1 and Fig3</p> <p># If anything is unclear, please contact the corresponding author for clarification (padullesj@gmail.com).</p>
FIGURE 5. Maximum likelihood phylogenetic tree constructed with UCEs and exon loci dataset for the novel species P in A new species of Plumarella (Octocorallia: Calcaxonia: Primnoidae) from the Northeast Pacific, and the redescription of Plumarella longispina Kinoshita, 1908
FIGURE 5. Maximum likelihood phylogenetic tree constructed with UCEs and exon loci dataset for the novel species P. williamsi (in bold), the redescribed species P. longispina (in red), the related taxa and rooted to outgroup genera. ML bootstrap support values>70% are shown above branches.
FIGURE 2. Bayesian Inference Tree inferred from a in A review of Garra (Teleostei: Cypriniformes) from two rivers in West Yunnan, China with description of a new species
FIGURE 2. Bayesian Inference Tree inferred from a combined dataset (4,224 bp from COI, Cyt b, IRBP, and RAG1) for all species. The nodal numbers are posterior probability values. Only posterior probabilities greater than 50% are shown.
FIGURE 1. Maximum Likelihood tree with branch lengths, inferred from a 2,492 in A new species of Hyloscirtus (Anura, Hylidae) from the Colombian and Venezuelan slopes of Sierra de Perijá, and the phylogenetic position of Hyloscirtus jahni (Rivero, 1961)
FIGURE 1. Maximum Likelihood tree with branch lengths, inferred from a 2,492 bp fragment of the mitochondrial genes 12S rRNA, tRNA-Val, and 16S rRNA, depicting phylogenetic relationships of Hyloscirtus species. Bootstrap support values higher than 50% are presented for each node. Values of 100% are represented by an asterisk.
FIGURE 9. Unrooted neighbor-joining tree inferred from a in A new species of nurse-frog (Aromobatidae, Allobates) from the Juami River basin, northwestern Brazilian Amazonia
FIGURE 9. Unrooted neighbor-joining tree inferred from a fragment of the mitochondrial 16S rDNA sampled from three type specimens of Allobates juami sp. nov. and other cis-Andean Allobates species. Clade labels indicate bootstrap support values (in percentage) estimated from 5,000 bootstrap replicates (only support values> 80% are shown). Locations in parentheses are provided for sequences obtained from non-topotypic voucher specimens.
FIGURE 26. Neighbour joining tree generated using K2P in A new Pardosa species from northern Iran (Araneae, Lycosidae)
FIGURE 26. Neighbour joining tree generated using K2P distances of COI for five species of the genus Pardosa belonging to two species groups [mONticOla: P. agrestis, P. mirzakhaniae, P. pontica; prOXima: P. hortensis, P. morosa and Alopecosa virgata used as outgroup].
FIGURE 25. Neighbour joining tree generated using K2P in A new Pardosa species from northern Iran (Araneae, Lycosidae)
FIGURE 25. Neighbour joining tree generated using K2P distances of 16S rRNA for nine species of the genus Pardosa belonging to six species groups [falcata: P. falcata; falcifera: P. falcifera; lapidiciNa: P. sierra; paludicOla: P. astrigera; mONticOla: P. agrestis, P. mirzakhaniae, P. plumipes, P. pontica; saltauria: P. californica and Alopecosa virgata used as outgroup].
FIGURE 4. Phylogenetic tree for 6 in Madeirasquilla tuerkayi, a new genus and species of mantis shrimps from Madeira Island, eastern Atlantic (Crustacea: Stomatopoda: Nannosquillidae)
FIGURE 4. Phylogenetic tree for 6 selected stomatopod species of the family Nannosquillidae, with Squilla mantis (Squillidae) used as outgroup, obtained by Maximum Likelihood analysis of 16S rRNA sequences (GTR+I+Γ substitution model); bootstrap probability values shown in nodes.
FIGURE 4. Bayesian trees constructed using 16S in Species diversity and phylogeny of fleas of small terrestrial mammals in the forests of the Central Highlands of Madagascar
FIGURE 4. Bayesian trees constructed using 16S (A) and 12S (B) sequences. Values at nodes correspond to the posterior probability values (P) obtained after 100 replicates. P values under 0.7 are not shown. Trees were rooted using sequences of the species Tunga trimamillata, T. penetrans, Hectopsylla cypha and H. pulex. The number of sequences we obtained for each species was given in brackets. Sequences of exotic species (available in our data) such as Xenopsylla brasiliensis and X. cheopis were added.
FIGURE 11. Identification tree. Neighbor-Joining analysis involving 20 in Six new species of Afrotropical Allodia (Diptera: Mycetophilidae): DNA barcodes indicate recent diversification with a single origin
FIGURE 11. Identification tree. Neighbor-Joining analysis involving 20 CO1 sequences. Evolutionary distances were calculated using the p-distance model. Abbreviations: M = male, F = female. Sequences retrieved from BOLD (Ratasingham & Hebert 2007) are labelled with Process ID (see Appendix 1). See methods for details.
FIGURE 24 in Identity of the tree-spider crab, Parasesarma leptosoma (Hilgendorf, 1869) (Decapoda: Brachyura: Sesarmidae), with descriptions of seven new species from the Western Pacific
FIGURE 24. In situ photographs of Parasesarma leptosoma species-complex, specimens not collected. A, P. leptosoma (Hilgendorf, 1869), Kenya (Photograph: S. Cannicci); B, P. gecko n. sp., Okinawa, Japan; C, P. macaco n. sp., Pingtung, Taiwan; D, P. kui n. sp., Pingtung, Taiwan; E, P. purpureum n. sp., Borneo, Malaysia; F, P. tarantula n. sp., Sulawesi, Indonesia.
FIGURE 23 in Identity of the tree-spider crab, Parasesarma leptosoma (Hilgendorf, 1869) (Decapoda: Brachyura: Sesarmidae), with descriptions of seven new species from the Western Pacific
FIGURE 23. Colour in life, males, ventral views. A. Parasesarma gecko n. sp., holotype (16.2×14.6 mm) (RUMF-ZC-4710), Okinawa, Japan; B. P. macaco n. sp., holotype (13.8×12.3 mm) (NMNS-7779-005), Pingtung, Taiwan; C. P. kui n. sp. (14.7×13.7 mm) (NMNS-7779-015), Pingtung, Taiwan; D, P. purpureum n. sp. (13.4×11.8 mm) (ZRC 2018.0799), Borneo, Malaysia; E, P. tarantula n. sp. (13.4×11.5 mm) (MZB Cru 4801), Sulawesi, Indonesia.
FIGURE 22 in Identity of the tree-spider crab, Parasesarma leptosoma (Hilgendorf, 1869) (Decapoda: Brachyura: Sesarmidae), with descriptions of seven new species from the Western Pacific
FIGURE 22. Colour in life, males, dorsal views. A. Parasesarma gecko n. sp., holotype (16.2×14.6 mm) (RUMF-ZC-4710), Okinawa, Japan; B. P. macaco n. sp., holotype (13.8×12.3 mm) (NMNS-7779-005), Pingtung, Taiwan; C. P. kui n. sp. (14.7×13.7 mm) (NMNS-7779-015), Pingtung, Taiwan; D, P. purpureum n. sp. (13.4×11.8 mm) (ZRC 2018.0799), Borneo, Malaysia; E, P. tarantula n. sp. (13.4×11.5 mm) (MZB Cru 4801), Sulawesi, Indonesia.
FIGURE 20 in Identity of the tree-spider crab, Parasesarma leptosoma (Hilgendorf, 1869) (Decapoda: Brachyura: Sesarmidae), with descriptions of seven new species from the Western Pacific
FIGURE 20. First to fourth ambulatory legs (P2–P5) (from top to bottom), holotype males. A, Parasesarma gecko n. sp. (16.2×14.6 mm) (RUMF-ZC-4710), Okinawa Island, Japan; B, P. macaco n. sp. male (13.8×12.3 mm) (NMNS-7779-005), Pingtung, Taiwan; C, P. kui n. sp. (14.7×13.7 mm) (NMNS-7779-015), Pingtung, Taiwan; D, P. gracilipes n. sp. (13.6×11.9 mm) (MZB Cru 4803), Papua, Indonesia; E, P. purpureum n. sp. (15.9×13.7 mm) (ZRC 2012.0755a), Tioman Island, Peninsular Malaysia; F, P. parvulum n. sp. (9.6×8.4 mm) (NMCR 50702), Mindoro Island, Philippines; G, P. tarantula n. sp. (13.4×11.5 mm) (MZB Cru 4801), Sulawesi, Indonesia.
FIGURE 21 in Identity of the tree-spider crab, Parasesarma leptosoma (Hilgendorf, 1869) (Decapoda: Brachyura: Sesarmidae), with descriptions of seven new species from the Western Pacific
FIGURE 21. Gonopods of Parasesarma leptosoma species-complex. A, P. leptosoma (17.0×15.2 mm) (ZRC 2000.1718), Kenya; B, P. gecko n. sp., holotype (16.2×14.6 mm) (RUMF-ZC-4710), Okinawa, Japan; C, P. macaco n. sp., holotype (13.8×12.3 mm) (NMNS-7779-005), Pingtung, Taiwan; D, P. kui n. sp., holotype (14.7×13.7 mm) (NMNS-7779-015), Pingtung, Taiwan; E, P. gracilipes n. sp., holotype (13.6×11.9 mm) (MZB Cru 4803), Papua, Indonesia; F, P. purpureum n. sp., holotype (15.9×13.7 mm) (ZRC 2012.0755a), Tioman Island, Peninsular Malaysia; G, P. parvulum n. sp., holotype (9.6×8.4 mm) (NMCR 50702), Mindoro Island, Philippines; H, P. tarantula n. sp., holotype (13.4×11.5 mm) (MZB Cru 4801), Sulawesi, Indonesia.
FIGURE 25. Habitats associated with Parasesarma macaco n in Identity of the tree-spider crab, Parasesarma leptosoma (Hilgendorf, 1869) (Decapoda: Brachyura: Sesarmidae), with descriptions of seven new species from the Western Pacific
FIGURE 25. Habitats associated with Parasesarma macaco n. sp., P. gecko n. sp. and P. kui n. sp., specimens not collected. A–D, P. macaco n. sp., Pingtung (Paoli River), Taiwan; E, P. gecko n. sp., group of crabs on cement wall near mangrove, Okinawa, Japan; F, G, P. kui n. sp., Pingtung (Kangkou River), Taiwan. A, habitat constituted by Talipariti tiliaceum and Clerodendrum inerme; B, male climbing on T. tiliaceum; C, female climbing on C. inerme; D, ovigerous female during breeding migration; F, habitat constituted by T. tiliaceum; G, male climbing on shrubs.
FIGURE 19 in Identity of the tree-spider crab, Parasesarma leptosoma (Hilgendorf, 1869) (Decapoda: Brachyura: Sesarmidae), with descriptions of seven new species from the Western Pacific
FIGURE 19. Outer views of chelae, holotype males. A, Parasesarma leptosoma (17.0×15.2 mm) (ZRC 2000.1718), Kenya; B, P. gecko n. sp. (16.2×14.6 mm) (RUMF-ZC-4710), Okinawa Island, Japan; C, P. macaco n. sp. (13.8×12.3 mm) (NMNS-7779- 005), Pingtung, Taiwan; D, P. kui n. sp. (14.7×13.7 mm) (NMNS-7779-015), Pingtung, Taiwan; E, P. gracilipes n. sp. (13.6×11.9 mm) (MZB Cru 4803), Papua, Indonesia; F, P. purpureum n. sp. (15.9×13.7 mm) (ZRC 2012.0755a), Tioman Island, Peninsular Malaysia; G, P. parvulum n. sp. (9.6×8.4 mm) (NMCR 50702), Mindoro Island, Philippines; H, P. tarantula n. sp. (13.4×11.5 mm) (MZB Cru 4801), Sulawesi, Indonesia.
FIGURE 18. Parasesarma tarantula n in Identity of the tree-spider crab, Parasesarma leptosoma (Hilgendorf, 1869) (Decapoda: Brachyura: Sesarmidae), with descriptions of seven new species from the Western Pacific
FIGURE 18. Parasesarma tarantula n. sp., holotype male (13.4×11.5 mm) (MZB Cru 4801), Sulawesi, Indonesia. A, dorsal view of carapace; B–D, tip of left cheliped; E–H, left G1. B, lateral view of pectinated cristae on palm; C, dorsal view of palm and dactylar finger; D, lateral view of dactylar finger; E, G, dorsal (sternal) views; F, H, ventral (pleonal) views; E, F, distal part of G1. Scale bars: 1.0 mm.
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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.