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7 results for “Nothofagus pumilio”
Ectomycorrhizal community composition associated with Nothofagus pumilio seedlings harvested from Variable Retention treatments at Los Cerros Ranch, Tierra del Fuego, Argentina.
This dataset contains data on Nothofagus pumilio seedlings sampled from a Variable Retention (VR) managed forest in Tierra del Fuego, Argentina seven years after harvesting. We evaluated the effects of a VR timber management system on the EMF community associated with N. pumilio seedlings. We quantified the abundance, composition, and diversity of EMF across aggregate (AR) and dispersed retention (DR) sites within a VR managed area and compared them to primary forest (PF) stands. EMF assemblage and taxonomic identities were determined by ITS-rDNA sequencing of individual root tips sampled from 280 seedlings across three landscape replicates of each VR treatment. To better understand seedling performance, we tested the relationships between fungal colonization, fungal taxonomic composition, seedling biomass, and VR treatment across our study sites. This data was collected as a comparative component to a larger project understanding the effect of mycorrizhae on seedling success after various disturbances such as logging and fire that was ongoing at the Bonanza Creek LTER and other arctic locations.
Mycorrhizal colonization, age, and aboveground biomass (g) of Nothofagus pumilio seedlings harvested from Variable Retention treatments at Los Cerros Ranch, Tierra del Fuego, Argentina.
This dataset contains data on Nothofagus pumilio seedlings sampled from a Variable Retention (VR) managed forest in Tierra del Fuego, Argentina seven years after harvesting. We evaluated the effects of a VR timber management system on the EMF community associated with N. pumilio seedlings. We quantified the abundance, composition, and diversity of EMF across aggregate (AR) and dispersed retention (DR) sites within a VR managed area and compared them to primary forest (PF) stands. EMF assemblage and taxonomic identities were determined by ITS-rDNA sequencing of individual root tips sampled from 280 seedlings across three landscape replicates of each VR treatment. To better understand seedling performance, we tested the relationships between fungal colonization, fungal taxonomic composition, seedling biomass, and VR treatment across our study sites. This data was collected as a comparative component to a larger project understanding the effect of mycorrizhae on seedling success after various disturbances such as logging and fire that was ongoing at the Bonanza Creek LTER and other arctic locations.
Tree stem diameter and height of Araucaria araucana, Nothofagus pumilio and Nothofagus dombeyi in mixed stands affected to different levels by anthropogenic disturbance in south-central Chile
<p><em><strong>Context: </strong></em>Around half of the <em>Araucaria-Nothofagus</em> forests in Chile are affected by anthropogenic disturbances such as logging, grazing, and seed harvesting, causing forest structure to become more heterogeneous. This can critically affect natural regeneration and stand development. It also challenges forest management and yield estimations, involving tree height predictions. The data allow to assess the impact of anthropogenic disturbances on forest structure and to identify optimal tree height models and calibration designs. Based on the data provided, a general workflow for this purpose was developed and published on GitHub as R software (Zhou & Zwanzig 2022).</p> <p><em><strong>Location: </strong></em>Mixed <em>Araucaria-Nothofagus</em> forests of the Andes Cordillera in the Araucaria Region in south-central Chile. Latitude, longitude and altitude of the plots is provided in the data table.</p> <p><em><strong>Taxon:</strong></em> Monkey Puzzle tree (<em>Araucaria araucana</em> (Molina) K.Koch), Lenga Beech (<em>Nothofagus pumilio</em> (Poepp. & Endl.) Krasser), Coigue (<em>Nothofagus dombeyi</em> (Mirb.) Oerst.)</p> <p><em><strong>Methods:</strong></em> A total of twelve stands were studied at four different sites and classified into four different intensities of anthropogenic disturbance depending on the intensity of the combined effects of logging, grazing and seed harvesting. In 25 to 36 plots per stand, horizontal point sampling measurements of stem diameter as well as of height of selected trees were carried out using a basal area factor of 4 m² per hectare. Diameter at breast height (DBH, in cm) was measured for all selected trees and total tree height (HT, in m) was measured for one-third of them using a Haga device.</p> <p>For ten of the plots, in which no trees were found by horizontal point sampling, 'NA' is entered for species and no values are given for DBH and HT in the data table.</p> <p><em><strong>Funding:</strong></em> The field data collection was funded through the project 016/2019 “Indicadores fenológicos y estructurales de alteración de hábitat en bosques de <em>Araucaria</em>”, being part of the Fondo de Investigación del Bosque Nativo (FIBN) of the Corporación Nacional Forestal (CONAF) and the Ministry of Agriculture of Chile.</p> <p><em><strong>Contributions:</strong></em> JH, PC and AP conceived the field study and acquired the funds; EK, JH, PC and AP performed the empirical observations; XZ, EK and MZ reviewed and processed the data collection for publication.</p>
Data from: Halfway encounters: meeting points of colonization routes among the southern beeches Nothofagus pumilio and N. antarctica
The Patagonian region is characterized by a complex biogeographic history, with evidence of deep phylogeographic breaks shared among species. Of particular interest to conservation is the nature of colonization and settlement patterns after the last glacial period, including the detection of secondary contact between different lineages and/or hybridization among related species around phylogeographic breaks. Here we studied population demography and past hybridization of two widespread tree species endemic to South America, Nothofagus pumilio and N. antarctica. Using 8 nuclear microsatellites we genotyped 41 populations of both species. Genetic variation and structure across the geographic region were evaluated within and among species and the past demographic history of hybridization between the two species was inferred using Approximate Bayesian Computation (ABC). Northern and southern lineages were identified in each species, and Bayesian clustering revealed their convergence at mid latitudes (42°S). Spatial genetic structure (SGS) also indicated the existence of a genetic discontinuity at these latitudes, which is in agreement with previous data from maternal DNA markers. Several populations around 42–44°S presented high levels of genetic diversity with a decrease toward southern populations. Even though the species are clearly differentiated (G'ST = 0.335), admixed gene pools were observed in both species. Two independent runs of ABC suggested that inter species admixture-like patterns occurred within the timescale of the Last Glacial Maximum (around 20,000 BP). We also provide evidences of recent and bi-directional hybridization/introgression between the two Nothofagus species and describe features of the populationś demography in the past. The settlement of a secondary contact zone in Nothofagus species around 42–44°S coincides with the phylogeographic breaks and hotspots of genetic diversity found in other plant and animal species in Patagonia, highlighting its importance as reservoir of diversity. The characterization of the population history of native species can contribute substantially to long-term conservation and management policies.
Data from: Halfway encounters: meeting points of colonization routes among the southern beeches Nothofagus pumilio and N. antarctica
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Local adaptation in the Patagonian foundation tree species Nothofagus pumilio
<p><strong>Npumilio_specific_candidate_genes.xlsx </strong></p><ul><li>Study-specific candidate genes. For annotation information on the 1,789 candidate genes from orthogroups, see Milesi at al 2023 (https://doi.org/10.1101/2023.01.05.522822 and Supplemental Tables S12-S14).</li><li>Contains contig, Uniprot-TAIR code and original species, and reason for inclusion in the candidate list (e.g. upregulated or downregulated in the heat stress-transcriptome study (https://doi.org/10.1371/journal.pone.0246615), or of interest for wood growth)</li><li>The list includes some duplicate contigs that are contained in the candidate gene set; they were left in for the "Reason" information</li></ul><p><strong>N_pumilio_06Nov2019_probe_coverage.txt</strong></p><ul><li>Probe design file as provided by IGA Technology Services</li></ul><p>All called SNP variants. Data for 502 individual tree samples are included: 496 adult trees + 6 replicates.</p><ul><li><strong>variants-gatk_haplotypecaller_SNP_raw.vcf.gz</strong> are raw called variants.</li><li><strong>variants-gatk_haplotypecaller_SNP.vcf.gz</strong> are coarsely quality-filtered and are the starting datasets for our downstream analyses.</li></ul><p><strong>Npumilio_IDs_vcforder_all_info.xlsx</strong></p><ul><li>Metadata for all samples in the .vcf files (in the same order), including site name, geographic coordinates and elevation</li></ul><p><strong>Npumilio_orthogroups.csv</strong></p><ul><li>Orthogroups, TAIR codes, and best-hit Nothofagus contigs for cross-referencing with orthogroup candidate gene set (Milesi at al 2023 (https://doi.org/10.1101/2023.01.05.522822 and Supplemental Tables S12-S14)).</li></ul><p> </p>
Nothofagus pumilio draft genome lily.v01
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