Microsatellite evolutionary rate and pattern in Schistocerca gregaria inferred from direct observation of germline mutations
Unravelling variation among taxonomic orders regarding the rate of evolution in microsatellites is crucial for evolutionary biology and population genetics research. The mean mutation rate of microsatellites tends to be lower in arthropods than in vertebrates, but data are scarce and mostly concern accumulation of mutations in model species. Based on parent–offspring segregations and a hierarchical Bayesian model, the mean rate of mutation in the orthopteran insect Schistocerca gregaria was estimated at 2.1e−4 per generation per untranscribed dinucleotide locus. This is close to vertebrate estimates and one order of magnitude higher than estimates from species of other arthropod orders, such as Drosophila melanogaster and Daphnia pulex. We also found evidence of a directional bias towards expansions even for long alleles and exceptionally large ranges of allele sizes. Finally, at transcribed microsatellites, the mean rate of mutation was half the rate found at untranscribed loci and the mutational model deviated from that usually considered, with most mutations involving multistep changes that avoid disrupting the reading frame. Our direct estimates of mutation rate were discussed in the light of peculiar biological and genomic features of S. gregaria, including specificities in mismatch repair and the dependence of its activity to allele length. Shedding new light on the mutational dynamics of grasshopper microsatellites is of critical importance for a number of research fields. As an illustration, we showed how our findings improve microsatellite application in population genetics, by obtaining a more precise estimation of S. gregaria effective population size from a published data set based on the same microsatellites.
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dig-cirad-fr-5790212024-01-28T23:11:58Z http://agritrop.cirad.fr/579021/ http://agritrop.cirad.fr/579021/ Microsatellite evolutionary rate and pattern in Schistocerca gregaria inferred from direct observation of germline mutations. Chapuis Marie-Pierre, Plantamp Christophe, Streiff Réjane, Blondin Laurence, Piou Cyril. 2015. Molecular Ecology, 24 (24) : 6107-6119.https://doi.org/10.1111/mec.13465 <https://doi.org/10.1111/mec.13465> Microsatellite evolutionary rate and pattern in Schistocerca gregaria inferred from direct observation of germline mutations Chapuis, Marie-Pierre Plantamp, Christophe Streiff, Réjane Blondin, Laurence Piou, Cyril eng 2015 Molecular Ecology H10 - Ravageurs des plantes U10 - Informatique, mathématiques et statistiques Schistocerca gregaria génétique des populations microsatellite marqueur génétique mutation Transcription génique génétique modèle mathématique Orthoptera adn mitochondrial variation génétique http://aims.fao.org/aos/agrovoc/c_31931 http://aims.fao.org/aos/agrovoc/c_34326 http://aims.fao.org/aos/agrovoc/c_36574 http://aims.fao.org/aos/agrovoc/c_24030 http://aims.fao.org/aos/agrovoc/c_5014 http://aims.fao.org/aos/agrovoc/c_35128 http://aims.fao.org/aos/agrovoc/c_3222 http://aims.fao.org/aos/agrovoc/c_24199 http://aims.fao.org/aos/agrovoc/c_5433 http://aims.fao.org/aos/agrovoc/c_1354029675295 http://aims.fao.org/aos/agrovoc/c_15975 Mauritanie http://aims.fao.org/aos/agrovoc/c_4660 Unravelling variation among taxonomic orders regarding the rate of evolution in microsatellites is crucial for evolutionary biology and population genetics research. The mean mutation rate of microsatellites tends to be lower in arthropods than in vertebrates, but data are scarce and mostly concern accumulation of mutations in model species. Based on parent–offspring segregations and a hierarchical Bayesian model, the mean rate of mutation in the orthopteran insect Schistocerca gregaria was estimated at 2.1e−4 per generation per untranscribed dinucleotide locus. This is close to vertebrate estimates and one order of magnitude higher than estimates from species of other arthropod orders, such as Drosophila melanogaster and Daphnia pulex. We also found evidence of a directional bias towards expansions even for long alleles and exceptionally large ranges of allele sizes. Finally, at transcribed microsatellites, the mean rate of mutation was half the rate found at untranscribed loci and the mutational model deviated from that usually considered, with most mutations involving multistep changes that avoid disrupting the reading frame. Our direct estimates of mutation rate were discussed in the light of peculiar biological and genomic features of S. gregaria, including specificities in mismatch repair and the dependence of its activity to allele length. Shedding new light on the mutational dynamics of grasshopper microsatellites is of critical importance for a number of research fields. As an illustration, we showed how our findings improve microsatellite application in population genetics, by obtaining a more precise estimation of S. gregaria effective population size from a published data set based on the same microsatellites. article info:eu-repo/semantics/article Journal Article info:eu-repo/semantics/publishedVersion http://agritrop.cirad.fr/579021/1/PUB660.pdf text Cirad license info:eu-repo/semantics/restrictedAccess https://agritrop.cirad.fr/mention_legale.html https://doi.org/10.1111/mec.13465 10.1111/mec.13465 info:eu-repo/semantics/altIdentifier/doi/10.1111/mec.13465 info:eu-repo/semantics/altIdentifier/purl/https://doi.org/10.1111/mec.13465 info:eu-repo/semantics/dataset/purl/https://doi.org/10.5061/dryad.5ch0p |
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H10 - Ravageurs des plantes U10 - Informatique, mathématiques et statistiques Schistocerca gregaria génétique des populations microsatellite marqueur génétique mutation Transcription génique génétique modèle mathématique Orthoptera adn mitochondrial variation génétique http://aims.fao.org/aos/agrovoc/c_31931 http://aims.fao.org/aos/agrovoc/c_34326 http://aims.fao.org/aos/agrovoc/c_36574 http://aims.fao.org/aos/agrovoc/c_24030 http://aims.fao.org/aos/agrovoc/c_5014 http://aims.fao.org/aos/agrovoc/c_35128 http://aims.fao.org/aos/agrovoc/c_3222 http://aims.fao.org/aos/agrovoc/c_24199 http://aims.fao.org/aos/agrovoc/c_5433 http://aims.fao.org/aos/agrovoc/c_1354029675295 http://aims.fao.org/aos/agrovoc/c_15975 http://aims.fao.org/aos/agrovoc/c_4660 H10 - Ravageurs des plantes U10 - Informatique, mathématiques et statistiques Schistocerca gregaria génétique des populations microsatellite marqueur génétique mutation Transcription génique génétique modèle mathématique Orthoptera adn mitochondrial variation génétique http://aims.fao.org/aos/agrovoc/c_31931 http://aims.fao.org/aos/agrovoc/c_34326 http://aims.fao.org/aos/agrovoc/c_36574 http://aims.fao.org/aos/agrovoc/c_24030 http://aims.fao.org/aos/agrovoc/c_5014 http://aims.fao.org/aos/agrovoc/c_35128 http://aims.fao.org/aos/agrovoc/c_3222 http://aims.fao.org/aos/agrovoc/c_24199 http://aims.fao.org/aos/agrovoc/c_5433 http://aims.fao.org/aos/agrovoc/c_1354029675295 http://aims.fao.org/aos/agrovoc/c_15975 http://aims.fao.org/aos/agrovoc/c_4660 |
spellingShingle |
H10 - Ravageurs des plantes U10 - Informatique, mathématiques et statistiques Schistocerca gregaria génétique des populations microsatellite marqueur génétique mutation Transcription génique génétique modèle mathématique Orthoptera adn mitochondrial variation génétique http://aims.fao.org/aos/agrovoc/c_31931 http://aims.fao.org/aos/agrovoc/c_34326 http://aims.fao.org/aos/agrovoc/c_36574 http://aims.fao.org/aos/agrovoc/c_24030 http://aims.fao.org/aos/agrovoc/c_5014 http://aims.fao.org/aos/agrovoc/c_35128 http://aims.fao.org/aos/agrovoc/c_3222 http://aims.fao.org/aos/agrovoc/c_24199 http://aims.fao.org/aos/agrovoc/c_5433 http://aims.fao.org/aos/agrovoc/c_1354029675295 http://aims.fao.org/aos/agrovoc/c_15975 http://aims.fao.org/aos/agrovoc/c_4660 H10 - Ravageurs des plantes U10 - Informatique, mathématiques et statistiques Schistocerca gregaria génétique des populations microsatellite marqueur génétique mutation Transcription génique génétique modèle mathématique Orthoptera adn mitochondrial variation génétique http://aims.fao.org/aos/agrovoc/c_31931 http://aims.fao.org/aos/agrovoc/c_34326 http://aims.fao.org/aos/agrovoc/c_36574 http://aims.fao.org/aos/agrovoc/c_24030 http://aims.fao.org/aos/agrovoc/c_5014 http://aims.fao.org/aos/agrovoc/c_35128 http://aims.fao.org/aos/agrovoc/c_3222 http://aims.fao.org/aos/agrovoc/c_24199 http://aims.fao.org/aos/agrovoc/c_5433 http://aims.fao.org/aos/agrovoc/c_1354029675295 http://aims.fao.org/aos/agrovoc/c_15975 http://aims.fao.org/aos/agrovoc/c_4660 Chapuis, Marie-Pierre Plantamp, Christophe Streiff, Réjane Blondin, Laurence Piou, Cyril Microsatellite evolutionary rate and pattern in Schistocerca gregaria inferred from direct observation of germline mutations |
description |
Unravelling variation among taxonomic orders regarding the rate of evolution in microsatellites is crucial for evolutionary biology and population genetics research. The mean mutation rate of microsatellites tends to be lower in arthropods than in vertebrates, but data are scarce and mostly concern accumulation of mutations in model species. Based on parent–offspring segregations and a hierarchical Bayesian model, the mean rate of mutation in the orthopteran insect Schistocerca gregaria was estimated at 2.1e−4 per generation per untranscribed dinucleotide locus. This is close to vertebrate estimates and one order of magnitude higher than estimates from species of other arthropod orders, such as Drosophila melanogaster and Daphnia pulex. We also found evidence of a directional bias towards expansions even for long alleles and exceptionally large ranges of allele sizes. Finally, at transcribed microsatellites, the mean rate of mutation was half the rate found at untranscribed loci and the mutational model deviated from that usually considered, with most mutations involving multistep changes that avoid disrupting the reading frame. Our direct estimates of mutation rate were discussed in the light of peculiar biological and genomic features of S. gregaria, including specificities in mismatch repair and the dependence of its activity to allele length. Shedding new light on the mutational dynamics of grasshopper microsatellites is of critical importance for a number of research fields. As an illustration, we showed how our findings improve microsatellite application in population genetics, by obtaining a more precise estimation of S. gregaria effective population size from a published data set based on the same microsatellites. |
format |
article |
topic_facet |
H10 - Ravageurs des plantes U10 - Informatique, mathématiques et statistiques Schistocerca gregaria génétique des populations microsatellite marqueur génétique mutation Transcription génique génétique modèle mathématique Orthoptera adn mitochondrial variation génétique http://aims.fao.org/aos/agrovoc/c_31931 http://aims.fao.org/aos/agrovoc/c_34326 http://aims.fao.org/aos/agrovoc/c_36574 http://aims.fao.org/aos/agrovoc/c_24030 http://aims.fao.org/aos/agrovoc/c_5014 http://aims.fao.org/aos/agrovoc/c_35128 http://aims.fao.org/aos/agrovoc/c_3222 http://aims.fao.org/aos/agrovoc/c_24199 http://aims.fao.org/aos/agrovoc/c_5433 http://aims.fao.org/aos/agrovoc/c_1354029675295 http://aims.fao.org/aos/agrovoc/c_15975 http://aims.fao.org/aos/agrovoc/c_4660 |
author |
Chapuis, Marie-Pierre Plantamp, Christophe Streiff, Réjane Blondin, Laurence Piou, Cyril |
author_facet |
Chapuis, Marie-Pierre Plantamp, Christophe Streiff, Réjane Blondin, Laurence Piou, Cyril |
author_sort |
Chapuis, Marie-Pierre |
title |
Microsatellite evolutionary rate and pattern in Schistocerca gregaria inferred from direct observation of germline mutations |
title_short |
Microsatellite evolutionary rate and pattern in Schistocerca gregaria inferred from direct observation of germline mutations |
title_full |
Microsatellite evolutionary rate and pattern in Schistocerca gregaria inferred from direct observation of germline mutations |
title_fullStr |
Microsatellite evolutionary rate and pattern in Schistocerca gregaria inferred from direct observation of germline mutations |
title_full_unstemmed |
Microsatellite evolutionary rate and pattern in Schistocerca gregaria inferred from direct observation of germline mutations |
title_sort |
microsatellite evolutionary rate and pattern in schistocerca gregaria inferred from direct observation of germline mutations |
url |
http://agritrop.cirad.fr/579021/ http://agritrop.cirad.fr/579021/1/PUB660.pdf |
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