scholarly journals Microsatellite Loci for the Threatened Pearl Darter and Cross Amplification in Channel and Coal Darters

2021 ◽  
Vol 12 (1) ◽  
pp. 257-262
Author(s):  
Brian R. Kreiser ◽  
Scott R. Clark ◽  
Jacob F. Schaefer
Keyword(s):  
Microsatellite Loci ◽  
Management Decisions ◽  
Genetic Studies ◽  
River Drainage ◽  
Cross Amplification ◽  
Expected Heterozygosity ◽  
Pascagoula River ◽  
Imperiled Species ◽  
Future Management

Abstract The Pearl Darter Percina aurora is an imperiled species of fish currently only found in the Pascagoula River drainage in southern Mississippi. We tested 60 microsatellite loci identified by Illumina pair-ended sequencing. Forty of these loci were polymorphic in Pearl Darters with a mean number of alleles per locus of 11.5 and mean observed and expected heterozygosity values of 0.818 and 0.805, respectively. Eleven to 17 of these loci were also polymorphic in the closely related Channel Darter P. copelandi and Coal Darter P. brevicauda. These loci should prove useful in genetic studies associated with informing future management decisions for Pearl Darters and conservation efforts in other species of darter.

scholarly journals Development and characterization of fifteen polymorphic microsatellite loci in Bryconamericus aff. iheringii (Teleostei: Characidae) and cross-amplification in related Characidae species

2018 ◽  
Vol 16 (1) ◽  
Author(s):  
Caroline Apolinário-Silva ◽  
Dhiego G. Ferreira ◽  
Analiza F. Cavenagh ◽  
Nícollas G. O. Aprígio ◽  
Bruno A. Galindo ◽  
...  
Keyword(s):  
Information Content ◽  
Microsatellite Loci ◽  
Polymorphic Information Content ◽  
Neotropical Fish ◽  
Genetic Studies ◽  
Cross Amplification ◽  
Abstract Data ◽  
Polymorphic Microsatellite

ABSTRACT Data on 15 novel microsatellite loci from the Neotropical fish Bryconamericus aff. iheringii are presented here. Analyses of 32 individuals from four different streams revealed 192 different alleles, ranging from four to 32 alleles per locus (mean of 12.8 per locus). Observed and expected heterozygosities ranged from 0.094 to 0.813 and 0.205 to 0.952, respectively. These loci showed high polymorphic information content and will be a resource for genetic studies of B. aff. iheringii. Furthermore, several loci also amplified other small Neotropical Characidae (Piabarchus stramineus and Piabina argentea) and should be useful for these species.

scholarly journals Development of microsatellite loci and optimization of a multiplex assay for Latibulus argiolus (Hymenoptera: Ichneumonidae), the specialized parasitoid of paper wasps

2020 ◽  
Vol 10 (1) ◽  
Author(s):  
Agata Kostro-Ambroziak ◽  
Anna Siekiera ◽  
Magdalena Czajkowska ◽  
Jan J. Pomorski ◽  
Hanna Panagiotopoulou
Keyword(s):  
Microsatellite Loci ◽  
Population Genetic ◽  
Null Allele ◽  
Natural Populations ◽  
Multiplex Assay ◽  
Paper Wasps ◽  
Genetic Studies ◽  
Expected Heterozygosity ◽  
Null Allele Frequency ◽  
Polymorphic Microsatellite

Abstract Microsatellite loci are commonly used markers in population genetic studies. In this study, we present 40 novel and polymorphic microsatellite loci elaborated for the ichneumonid parasitoid Latibulus argiolus (Rossi, 1790). Reaction condition optimisation procedures allowed 14 of these loci to be co-amplified in two PCRs and loaded in two multiplex panels onto a genetic analyser. The assay was tested on 197 individuals of L. argiolus originating from ten natural populations obtained from the host nests of paper wasps. The validated loci were polymorphic with high allele numbers ranging from eight to 27 (average 17.6 alleles per locus). Both observed and expected heterozygosity values were high, ranging between 0.75 and 0.92 for HO (mean 0.83) and from 0.70 to 0.90 for HE (mean 0.85). The optimized assay showed low genotyping error rate and negligible null allele frequency. The designed multiplex panels could be successfully applied in relatedness analyses and genetic variability studies of L. argiolus populations, which would be particularly interesting considering the coevolutionary context of this species with its social host.

scholarly journals Microsatellite Loci Transferability in Chestnut

2008 ◽  
Vol 133 (5) ◽  
pp. 692-700 ◽  
Author(s):  
Ying Wang ◽  
Ming Kang ◽  
Hongwen Huang
Keyword(s):  
Microsatellite Loci ◽  
Castanea Sativa ◽  
Breeding Programs ◽  
Genetic Studies ◽  
European Chestnut ◽  
Expected Heterozygosity ◽  
Conservation Genetic

Cross-species amplification of 55 microsatellite loci developed in european chestnut (Castanea sativa Mill.) and japanese chestnut (C. crenata Sieb & Zucc.) was tested in three chestnut species from China [C. mollissima Blume, C. seguinii Dode, and C. henryi (Skan.) Rehder & Wilson]. Among all the tested loci, 47 (85.5%), 47 (85.5%), and 44 (80%) were successfully amplified in each of the three Chinese species, respectively. All microsatellite loci tested from C. crenata successfully amplified in the Chinese species, while only 80.5%, 80.5%, and 73.2% of the loci originating from C. sativa amplified in the three Chinese species. The level of polymorphism and mean number of alleles was 58.2% and 4.12 for C. mollissima, 60% and 4.64 for C. seguinii, and 60% and 4.76 for C. henryi, with mean observed heterozygosity ranging from 0.440 to 0.549 and mean expected heterozygosity ranging from 0.506 to 0.615. Transferability of Castanea Mill. microsatellites provides a powerful tool for chestnut breeding programs and conservation genetic studies of Castanea species.

scholarly journals Cross-amplification and Characterization of Microsatellite Loci for the Genus Rhododendron

HortScience ◽  
2010 ◽  
Vol 45 (9) ◽  
pp. 1394-1397 ◽  
Author(s):  
Xue-qin Wang ◽  
Yuan Huang ◽  
Chun-lin Long
Keyword(s):  
Gene Flow ◽  
Genetic Structure ◽  
Microsatellite Loci ◽  
Evolutionary Relationships ◽  
Cross Amplification ◽  
Expected Heterozygosity

To assess cross-species amplification, we tested 38 microsatellite loci previously developed for Rhododendron delavayi Franch. and R. decorum Franch. in eight species representative of the genus Rhododendron. Sixteen pairs can be amplified successfully in all species, whereas two failed amplification in all species. Nine loci were polymorphic across six examined species with one to 11 alleles per locus. The observed and expected heterozygosity per locus varied from 0.07 to 0.65 and 0.44 to 0.81, respectively. Cross-application of these microsatellite loci will provide a potentially useful tool to investigate the genetic structure, gene flow, and evolutionary relationships in genus Rhododendron.

scholarly journals Development of microsatellite markers for the threatened species Coleocephalocereus purpureus (Cactaceae) using next-generation sequencing

2019 ◽  
Author(s):  
Daphne Amaral Fraga ◽  
Anderson Figueiredo de Carvalho ◽  
Ricardo Souza Santana ◽  
Marlon Câmara Machado ◽  
Gustavo Augusto Lacorte
Keyword(s):  
Microsatellite Loci ◽  
Population Studies ◽  
Null Alleles ◽  
Structure Population ◽  
Genetic Studies ◽  
Expected Heterozygosity ◽  
Whole Genome Shotgun Sequencing ◽  
Scoring Errors ◽  
Generation Sequencing ◽  
Testing Group

AbstractTen microsatellite loci were developed and validated for the endangered cactus species Coleocephalocereus purpureus. The markers were obtained from sequences generated by whole genome shotgun sequencing approaches. A testing group of 36 specimens of the main grouping were genotyped and all described markers presented suitable outcomes to population genetic studies, showing polymorphic status for C. purpureus testing group with clean and reproducible amplification. No evidence for scoring errors, null alleles or linkage disequilibrium was detected. Number of alleles per locus ranged from 3 to 6 and expected heterozygosity ranged from 0.78 to 0.99. These new microsatellite loci are suitable to be used in future diversity and structure population studies of C. purpureus.

Development of Microsatellite Loci Exhibiting Reverse Ascertainment Bias and a Sexing Marker for use in Emperor Geese (Chen Canagica)

2017 ◽  
Vol 10 (4) ◽  
pp. 201-210 ◽  
Author(s):  
Meg C. Gravley ◽  
George K. Sage ◽  
Joel A. Schmutz ◽  
Sandra L. Talbot
Keyword(s):  
Microsatellite Loci ◽  
Statistical Power ◽  
Ascertainment Bias ◽  
Next Generation Sequencing Technology ◽  
Branta Bernicla ◽  
Black Brant ◽  
Expected Heterozygosity ◽  
Cackling Geese ◽  
The 1960S ◽  
Goose Species

The Alaskan population of Emperor Geese ( Chen canagica) nests on the Yukon–Kuskokwim Delta in western Alaska. Numbers of Emperor Geese in Alaska declined from the 1960s to the mid-1980s and since then, their numbers have slowly increased. Low statistical power of microsatellite loci developed in other waterfowl species and used in previous studies of Emperor Geese are unable to confidently assign individual identity. Microsatellite loci for Emperor Goose were therefore developed using shotgun amplification and next-generation sequencing technology. Forty-one microsatellite loci were screened and 14 were found to be polymorphic in Emperor Geese. Only six markers – a combination of four novel loci and two loci developed in other waterfowl species – are needed to identify an individual from among the Alaskan Emperor Goose population. Genetic markers for identifying sex in Emperor Geese were also developed. The 14 novel variable loci and 15 monomorphic loci were screened for polymorphism in four other Arctic-nesting goose species, Black Brant ( Branta bernicla nigricans), Greater White-fronted ( Anser albifrons), Canada ( B. canadensis) and Cackling ( B. hutchinsii) Goose. Emperor Goose exhibited the smallest average number of alleles (3.3) and the lowest expected heterozygosity (0.467). Greater White-fronted Geese exhibited the highest average number of alleles (4.7) and Cackling Geese the highest expected heterozygosity (0.599). Six of the monomorphic loci were variable and able to be characterised in the other goose species assayed, a predicted outcome of reverse ascertainment bias. These findings fail to support the hypothesis of ascertainment bias due to selection of microsatellite markers.

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