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Auteur Pirog, A.; Blaison, A.; Jaquemet, S.; Soria, M.; Magalon, H. url  doi
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  Titre Isolation and characterization of 20 microsatellite markers from Carcharhinus leucas (bull shark) and cross-amplification in Galeocerdo cuvier (tiger shark), Carcharhinus obscurus (dusky shark) and Carcharhinus plumbeus (sandbar shark) Type Article scientifique
  Année 2015 Publication (up) Revue Abrégée Conservation Genet Resour  
  Volume 7 Numéro 1 Pages 121-124  
  Mots-Clés Animal Anatomy / Morphology / Histology; Bull shark; Carcharhinus leucas; Carcharhinus obscurus; Carcharhinus plumbeus; Conservation Biology/Ecology; Evolutionary Biology; Galeocerdo cuvier; Microsatellite; Plant Sciences  
  Résumé With the development of genetics methods, it becomes possible to study the population structure and some aspects of the reproductive behaviour of endangered sharks. Here we describe the isolation of 20 polymorphic microsatellite markers in the bull shark Carcharhinus leucas (Carcharhinidae) and their characteristics. Two to 10 alleles per locus were detected. Observed and expected heterozygosities ranged from 0.00 to 0.78 and from 0.05 to 0.80, respectively. Four markers showed deviations from Hardy–Weinberg equilibrium; among them, three showed presence of null alleles. No linkage disequilibrium was detected among any of the loci. Moreover, four, 11 and 19 of these 20 markers successfully cross-amplified in the tiger shark Galeocerdo cuvier, the sandbar shark Carcharhinus plumbeus and the dusky shark Carcharhinus obscurus, respectively.  
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  Editeur Lieu de Publication Éditeur  
  Langue en Langue du Résumé Titre Original  
  Éditeur de collection Titre de collection Titre de collection Abrégé  
  Volume de collection Numéro de collection Edition  
  ISSN 1877-7252, 1877-7260 ISBN Médium  
  Région Expédition Conférence  
  Notes Approuvé pas de  
  Numéro d'Appel MARBEC @ isabelle.vidal-ayouba @ collection 1260  
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Auteur Ben Abdelkrim, A.; Hattab, T.; Fakhfakh, H.; Belkadhi, M.S.; Gorsane, F. url  doi
openurl 
  Titre A landscape genetic analysis of important agricultural pest species in Tunisia: The whitefly Bemisia tabaci Type Article scientifique
  Année 2017 Publication (up) Revue Abrégée Plos One  
  Volume 12 Numéro 10 Pages e0185724  
  Mots-Clés Animal migration; Genetic loci; Melons; Microsatellite loci; Pest control; phylogeography; Population genetics; Tunisia  
  Résumé Combining landscape ecology and genetics provides an excellent framework to appreciate pest population dynamics and dispersal. The genetic architectures of many species are always shaped by environmental constraints. Because little is known about the ecological and genetic traits of Tunisian whitefly populations, the main objective of this work is to highlight patterns of biodiversity, genetic structure and migration routes of this pest. We used nuclear microsatellite loci to analyze B. tabaci populations collected from various agricultural areas across the country and we determine their biotype status. Molecular data were subsequently interpreted in an ecological context supplied from a species distribution model to infer habitat suitability and hereafter the potential connection paths between sampling localities. An analysis of landscape resistance to B. tabaci genetic flow was thus applied to take into account habitat suitability, genetic relatedness and functional connectivity of habitats within a varied landscape matrix. We shed light on the occurrence of three geographically delineated genetic groups with high levels of genetic differentiation within each of them. Potential migration corridors of this pest were then established providing significant advances toward the understanding of genetic features and the dynamic dispersal of this pest. This study supports the hypothesis of a long-distance dispersal of B. tabaci followed by infrequent long-term isolations. The Inference of population sources and colonization routes is critical for the design and implementation of accurate management strategies against this pest.  
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  Editeur Lieu de Publication Éditeur  
  Langue Langue du Résumé Titre Original  
  Éditeur de collection Titre de collection Titre de collection Abrégé  
  Volume de collection Numéro de collection Edition  
  ISSN 1932-6203 ISBN Médium  
  Région Expédition Conférence  
  Notes Approuvé pas de  
  Numéro d'Appel MARBEC @ isabelle.vidal-ayouba @ collection 2199  
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Auteur Griot, R.; Allal, F.; Brard-Fudulea, S.; Morvezen, R.; Haffray, P.; Phocas, F.; Vandeputte, M. doi  openurl
  Titre APIS: An auto-adaptive parentage inference software that tolerates missing parents Type Article scientifique
  Année 2020 Publication (up) Revue Abrégée Mol. Ecol. Resour.  
  Volume 20 Numéro 2 Pages 579-590  
  Mots-Clés errors; fitness; genetic-parameters; guide; identification; impact; markers; microsatellites; missing parents; natural-populations; parentage assignment; pedigree; snp  
  Résumé In the context of parentage assignment using genomic markers, key issues are genotyping errors and an absence of parent genotypes because of sampling, traceability or genotyping problems. Most likelihood-based parentage assignment software programs require a priori estimates of genotyping errors and the proportion of missing parents to set up meaningful assignment decision rules. We present here the R package APIS, which can assign offspring to their parents without any prior information other than the offspring and parental genotypes, and a user-defined, acceptable error rate among assigned offspring. Assignment decision rules use the distributions of average Mendelian transmission probabilities, which enable estimates of the proportion of offspring with missing parental genotypes. APIS has been compared to other software (CERVUS, VITASSIGN), on a real European seabass (Dicentrarchus labrax) single nucleotide polymorphism data set. The type I error rate (false positives) was lower with APIS than with other software, especially when parental genotypes were missing, but the true positive rate was also lower, except when the theoretical exclusion power reached 0.99999. In general, APIS provided assignments that satisfied the user-set acceptable error rate of 1% or 5%, even when tested on simulated data with high genotyping error rates (1% or 3%) and up to 50% missing sires. Because it uses the observed distribution of Mendelian transmission probabilities, APIS is best suited to assigning parentage when numerous offspring (>200) are genotyped. We have demonstrated that APIS is an easy-to-use and reliable software for parentage assignment, even when up to 50% of sires are missing.  
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  Langue English Langue du Résumé Titre Original  
  Éditeur de collection Titre de collection Titre de collection Abrégé  
  Volume de collection Numéro de collection Edition  
  ISSN 1755-098x ISBN Médium  
  Région Expédition Conférence  
  Notes WOS:000496576600001 Approuvé pas de  
  Numéro d'Appel MARBEC @ isabelle.vidal-ayouba @ collection 2760  
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