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9 results for “autopolyploidy”
Autopolyploidy Genome Duplication Preserves Other Ancient Genome Duplications in Atlantic Salmon (Salmo salar) Supplementary Datasets
<p>For various species, alignments were found between a protein database (produced from Zebrafish) and the sequenced genome of that species. Using Perl scripts and the alignments, gene models were identified in the various species based on the protein sequences. </p> <ul> <li>The gene models, for the various species, can be found in the .gff3 files. Some of the .gff3 files have had ribosomal proteins removed. </li> <li>Homeologous regions were then identified using Perl scripts and can be found in .gff3 files as well. They have Homeologous_Regions.gff3 in their title. </li> <li>Homeologous genes in these regions were counted (named XX_XX_Homeologous_Regions.txt), and compared to all of the genes (not just homeologous genes) in these regions (named Gene_Count_Homeolgous_XX_XX_XX.txt) to find the density. </li> <li>Homeologous gene sequences were compared to each other to identify the Ps values between them using a program called SNAP (Files with _Homeologous_region_analysis_version_1.2.txt at the end). </li> <li>The analyses of these files are summarized in "Pn_Ps_Values_Vertebrate_Homeologous_Regions.ods." </li> <li>The synteny between species can be found in the files with .seg extensions (These can be opened in IGV). </li> <li>A comparison between the gene density and Ps value for each homeologous region can be found in the file, "Gene_Density_Compared_to_Ps_Values.ods."</li> </ul> <p>Included is an extended readme file and Perl scripts (.pl extension) in a compressed file (Final_Scripts.tar.gz).</p>
Autopolyploidy-driven range expansion of a temperate-originated plant to pan-tropic under global change
<p>Angiosperms are believed to have emerged initially in the tropics and expanded their distribution range polewards through diverse mechanisms, for example polyploidization-driven cold-tolerance evolution. Reversed expansion from temperate to pantropic climate through a polyploidization-driven shift in heat-tolerance remains largely unknown. Here, we found autopolyploidy in relation to the global expansion of <i>Solidago canadensis</i> from its temperate-climate native range in North American to hot-summer climate in an introduced range. Our cytogeographical study of 2062 accessions from 471 locations worldwide demonstrates that ploidy levels correlates negatively with latitude and positively with average temperature. An isotherm-dependent shift of the climate niches at the threshold of 20-24ºC between geo-cytotypes can be attributed mainly to autopolyploidy-driven differentiation of heat tolerance; only polyploids and not diploids are able to complete sexual reproduction, germinate and grow in the hot-summer climate of low latitudes. Ploidy-dependent fertility appears to play a key role in the hot-summer introduced range in the northern hemisphere through both pre-adaptation and rapid post-introduction adaptive evolution of delayed flowering and improved heat-tolerance during embryo development. MaxEnt model predicts continuous expansion of this weed under global change. These results provide new insights into the mechanisms governing autopolyploidy-driven backward range-expansion of plant species from temperate origins.</p>
Autopolyploidy-driven range expansion of a temperate-originated plant to pan-tropic under global change
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Data from: Autopolyploidy alters nodule-level interactions in the legume-rhizobium mutualism
Premise of the study: Polyploidy is a major genetic driver of ecological and evolutionary processes in plants, yet its effects on plant interactions with mutualistic microbes remain unresolved. The legume-rhizobium symbiosis regulates global nutrient cycles and plays a role in the diversification of legume taxa. In this mutualism, rhizobia bacteria fix nitrogen in exchange for carbon provided by legume hosts. This exchange occurs inside root nodules, which house bacterial cells and represent the interface of legume-rhizobial interactions. Although polyploidy may directly impact the legume-rhizobium mutualism, no studies have explored how it alters the internal structure of nodules. Methods: We created synthetic autotetraploids using Medicago sativa subsp. caerulea. Neotetraploid plants and their diploid progenitors were singly inoculated with two strains of rhizobia, Sinorhizobium meliloti and S. medicae. Confocal microscopy was used to quantify internal traits of nodules produced by diploid and neotetraploid plants. Key Results: Autotetraploid plants produced larger nodules with larger nitrogen fixation zones than diploids across both strains of rhizobia, although significance of this difference was limited by power. Neotetraploid M. sativa subsp. caerulea plants also produced symbiosomes that were significantly larger, nearly twice the size, than those present in diploids. Conclusions: This study sheds light on how polyploidy directly affects a plant-bacterial mutualism and uncovers novel mechanisms. Changes in plant-microbe interactions that directly result from polyploidy likely contribute to the increased ability of polyploid legumes to establish in diverse environments.
Data from: The effect of autopolyploidy on population genetic signals of hard sweeps
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Data from: A novel method to infer the origin of polyploids from AFLP data reveals that the Alpine polyploid complex of Senecio carniolicus (Asteraceae) evolved mainly via autopolyploidy
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Data from: Autopolyploidy alters nodule-level interactions in the legume-rhizobium mutualism
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Potato autopolyploidy
GEO Series GSE5428. Solanum tuberosum; Solanum phureja. 20 samples. Type: Expression profiling by array.
Transcriptome profiling of an autopolyploidy series of Arabidopsis thaliana
GEO Series GSE52885. Arabidopsis thaliana. 19 samples. Type: Expression profiling by array.
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