On the Trail of Spatial Patterns of Genetic Variation
| Autor: | Miguel A. Alfonso-Sánchez, José A. Peña, Luis Gómez-Pérez |
|---|---|
| Rok vydání: | 2022 |
| Předmět: |
genocline
education.field_of_study software Population isolation by distance Biology computer.software_genre spatial autocorrelation Sammon mapping Disk formatting genetic cline Genetic variation Multidimensional scaling Data mining Gene pool education spatial genetic structuring Spatial analysis computer Ecology Evolution Behavior and Systematics Isolation by distance |
| Zdroj: | Addi. Archivo Digital para la Docencia y la Investigación instname Universidad de Alicante (UA) |
| Popis: | [EN] The accurate determination of the spatial trends on the variability of a species' gene pool is essential to elucidate the underlying demographic-evolutionary events, thus helping to unravel the microevolutionary history of the population under study. Herein we present a new software called GenoCline, mainly addressed to detect genetic clines from allele, haplotype, and genome-wide data. This program package allows identifying the geographic orientation of clinal genetic variation through a system of iterative rotation of a virtual coordinate axis. Besides, GenoCline can perform complementary analyses to explore the potential origin of the genetic clines observed, including spatial autocorrelation, isolation by distance, centroid method, multidimensional scaling and Sammon projection. Among the advantages of this software is the ease in data entry and potential interconnection with other programs. Genetic and geographic data can be entered in spreadsheet table formatting (.xls), whereas genome-wide data can be imported in Eigensoft format. Genetic frequencies can also be exported in a format compatible with other programs dealing with population genetic and evolutionary biology analyses. All illustrations of results are saved in.svg format so that there will be high quality and easily editable vectorial graphs available for the researcher. Being implemented in Java, GenoCline is highly portable, thus working in different operating systems. Open Access funding provided thanks to the CRUE-CSIC agreement with Springer Nature. |
| Databáze: | OpenAIRE |
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