Characterization of microsatellite loci isolated in midget faded rattlesnake (<i>Crotalus viridis concolor</i>)

Oyler‐McCance, Sara J.; John, Judy St.; Parker, Joshua; Anderson, Sandra

doi:10.1111/j.1471-8286.2005.00961.x

Cited by 16 publications

(7 citation statements)

References 6 publications

(5 reference statements)

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“…Eight microsatellite primers were chosen for analysis: four (5A, 7-87, 7-144, and 7-150) originally developed for the Timber Rattlesnake (Crotalus horridus L., 1758) by Villarreal et al (1996) and four (MFRD 5,MFR 9,MFR 12,and MFR 15) originally developed for the Midget Faded Rattlesnake (Crotalus oreganus concolor Woodbury, 1929) by Oyler-McCance et al (2005).…”

Section: Genomic Extraction Microsatellite Amplification and Microsmentioning

confidence: 99%

Lack of detectable genetic differentiation between den populations of the Prairie Rattlesnake (Crotalusviridis) in a fragmented landscape

2014

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Numerous studies have reported genetic fragmentation of species whose habitat has been modified by roads and other anthropogenic features, but it is still not clear how most species respond to roads and whether genetic effects can be detected over a limited number of generations. We used road-crossing models and population genetic analysis (based on microsatellite loci) to make inferences about functional connectivity between populations of the Prairie Rattlesnake (Crotalus viridis (Rafinesque, 1818)) on opposite sides of the Trans-Canada Highway near Medicine Hat (Alberta, Canada). The road-crossing model predicted a high probability of mortality while crossing the Trans-Canada Highway. However, model-based genetic clustering methods (STRUCTURE and BAPS) did not detect structure; a nonmodel-based clustering method (DAPC) found structure, but most groups consisted of individuals captured throughout the study area. Estimates of effective population size were immeasurably large and power to detect genic differentiation was diminished if the effective size exceeded 500; this reduction in power was intensified when the number of loci was reduced (from eight to five to account for null alleles). Our results corroborate accounts of long-distance migration by this species and indicate that genetic fragmentation may not be easily detectable over this spatial and temporal scale. Résumé :Si de nombreuses études ont fait état de la fragmentation génétique d'espèces dont l'habitat a été modifié par des routes ou d'autres éléments d'origine humaine, la réaction de la plupart des espèces à la présence de routes n'est pas bien circonscrite, ni la question à savoir si ses effets génétiques peuvent être détectés sur un nombre restreint de générations. Nous avons utilisé des modèles de franchissement de route et l'analyse génétique des populations (basée sur les marqueurs microsatellites) pour établir des inférences concernant la connectivité fonctionnelle de populations de crotales de l'ouest (Crotalus viridis (Rafinesque, 1818)) de part et d'autre de la route Transcanadienne près de Medicine Hat (Alberta, Canada). Le modèle de franchissement de route prédisait une probabilité élevée de mortalité durant le franchissement de la Transcanadienne. Toutefois, des méthodes de regroupement génétique basées sur des modèles (STRUCTURE et BAPS) n'ont détecté aucune structure; une méthode de regroupement non basée sur un modèle (DAPC) a décelé une structure, mais la plupart des groupes étaient composés d'individus capturés dans toute la région à l'étude. Les estimations de la taille effective des populations étaient trop grandes pour être mesurées et la puissance de détection d'une éventuelle différentiation génétique se trouvait réduite si la taille effective dépassait 500. Cette réduction de la puissance était amplifiée quand le nombre de marqueurs microsatellites était réduit (de huit à cinq pour tenir compte d'allèles nuls). Nos résultats corroborent les cas signalés de migrations sur de grandes distances par cette espèce et indiquent q...

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Section: Genomic Extraction Microsatellite Amplification and Microsmentioning

confidence: 99%

Lack of detectable genetic differentiation between den populations of the Prairie Rattlesnake (Crotalusviridis) in a fragmented landscape

2014

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“…Six dinucleotide-repeat microsatellite loci (Table 1) were isolated and sequenced using methods described previously (Oyler-McCance et al, 2005). The amplification, electrophoresis and scoring methods used were as previously described (Wehausen, Ramey & Epps, 2004).…”

Section: Microsatellitesmentioning

confidence: 99%

Genetic relatedness of the Preble's meadow jumping mouse (Zapus hudsonius preblei) to nearby subspecies of Z. hudsonius as inferred from variation in cranial morphology, mitochondrial DNA and microsatellite DNA: implications for taxonomy and conservation

Ramey

Liu

Epps

et al. 2005

Animal Conservation

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The Preble's meadow jumping mouse (Zapus hudsonius preblei) is listed as a threatened subspecies under the United States Endangered Species Act (US‐ESA). The quantitative description of this subspecies was based on cranial measurements of only three adult specimens. It is one of twelve subspecies of Z. hudsonius and is a peripheral population at the western edge of its range. We tested the uniqueness of Z. h. preblei relative to other nearby subspecies of Z. hudsonius using a hypothesis testing approach and analyses of cranial morphometric, mtDNA sequence and nuclear microsatellite data obtained from museum specimens and archived tissues. Morphometric analysis of variance did not support the original description of Z. h. preblei as a subspecies. Principal component analysis of these data showed Z. h. preblei within the range of variation found in Z. h. campestris and Z. h. intermedius. Discriminant analysis correctly classified only 42% of Z. h. preblei skulls at jackknifed posterior probabilities >0.95 relative to Z. h. campestris. All mtDNA haplotypes found in Z. h. preblei were also found in Z. h. campestris. Simulation based estimates of current and historical gene flow (MDIV) revealed low, but non‐zero, mtDNA gene flow among Z. h. preblei and several nearby subspecies. Analyses of five nuclear microsatellite loci using population pairwise FST, BAPS and STRUCTURE were consistent with morphometric and mtDNA results. These revealed low levels of genetic structure and evidence of recent gene flow and bottlenecks in Z. h. preblei. Due to a lack of clearly recognisable genetic, morphological, or adaptive differences, we synonymise Z. h. preblei and Z. h. intermedius with Z. h. campestris. We suggest that candidates for listing under the US‐ESA, or similar biodiversity laws, be evaluated for genetic and/or morphological uniqueness to prevent the misallocation of resources to non‐distinct taxa like Z. h. preblei.

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“…We also used four microsatellite markers (CH7-87, CH7-144, CH5, CH7-150) that were isolated and characterized for C. horridus (Villarreal et al 1996). Reaction parameters for these four loci follow Oyler-McCance et al (2005) with an annealing temperature of 59°C. PCR products were diluted and run on the CEQ8000 XL DNA Analysis System following the manufacturer's protocol (Beckman-Coulter).…”

Section: Microsatellite Genotypingmentioning

confidence: 99%

A population genetic analysis of the midget faded rattlesnake in Wyoming

Oyler‐McCance

Parker

2010

Conserv Genet

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Little is known about the population biology of midget faded rattlesnakes, a sensitive subspecies of the Western Rattlesnake, despite conservation efforts to protect them. We conducted a molecular genetic study of midget faded rattlesnakes in southwestern Wyoming to investigate population genetic structure in this area, particularly with reference to Flaming Gorge Reservoir and its associated human activities, and to document levels of genetic diversity. We genotyped 229 snakes from 11 sampling sites using 9 microsatellite loci. We found significant levels of genetic structure among sites that were better explained by geographic region and isolation by distance than by position relative to waterways. Sites on either side of the reservoir at its widest point were not significantly different. Six of the sites showed signatures of a population bottleneck using an alpha value of 0.05. Three of these bottlenecked sites (the three most northern) were the most genetically distinct and occur in areas of greatest impact from human activity.

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Characterization of microsatellite loci isolated in midget faded rattlesnake (Crotalus viridis concolor)

Cited by 16 publications

References 6 publications

Lack of detectable genetic differentiation between den populations of the Prairie Rattlesnake (Crotalusviridis) in a fragmented landscape

Lack of detectable genetic differentiation between den populations of the Prairie Rattlesnake (Crotalusviridis) in a fragmented landscape

Genetic relatedness of the Preble's meadow jumping mouse (Zapus hudsonius preblei) to nearby subspecies of Z. hudsonius as inferred from variation in cranial morphology, mitochondrial DNA and microsatellite DNA: implications for taxonomy and conservation

A population genetic analysis of the midget faded rattlesnake in Wyoming

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