scholarly journals Electric eels galore: microsatellite markers for population studies

2020 ◽  
Vol 18 (4) ◽  
Author(s):  
Lenice Souza-Shibatta ◽  
Dhiego G. Ferreira ◽  
Kátia F. Santos ◽  
Bruno A. Galindo ◽  
Oscar A. Shibatta ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Microsatellite Markers ◽  
Microsatellite Loci ◽  
Population Studies ◽  
Genetic Identity ◽  
Amazon Rainforest ◽  
Cross Amplification ◽  
Electric Eel ◽  
Electric Fishes ◽  
Paternity Exclusion

Abstract Fourteen novel microsatellite loci are described and characterized in two species of electric eels, Electrophorus variiand E. voltaifrom floodplains and rivers of the Amazon rainforest. These loci are polymorphic, highly informative, and have the capacity to detect reliable levels of genetic diversity. Likewise, the high combined probability of paternity exclusion value and low combined probability of genetic identity value obtained demonstrate that the new set of loci displays suitability for paternity studies on electric eels. In addition, the cross-amplification of electric eel species implies that it may also be useful in the study of the closely related E. electricus, and to other Neotropical electric fishes (Gymnotiformes) species as tested herein.

scholarly journals Genetic diversity and differentiation in reef-buildingMilleporaspecies, as revealed by cross-species amplification of fifteen novel microsatellite loci

PeerJ ◽  
2017 ◽  
Vol 5 ◽  
pp. e2936 ◽  
Author(s):  
Caroline E. Dubé ◽  
Serge Planes ◽  
Yuxiang Zhou ◽  
Véronique Berteaux-Lecellier ◽  
Emilie Boissin
Keyword(s):  
Genetic Diversity ◽  
Microsatellite Markers ◽  
Microsatellite Loci ◽  
Natural Populations ◽  
454 Sequencing ◽  
Genetic Distances ◽  
Null Alleles ◽  
Future Research ◽  
Significant Linkage ◽  
Pacific Species

Quantifying the genetic diversity in natural populations is crucial to address ecological and evolutionary questions. Despite recent advances in whole-genome sequencing, microsatellite markers have remained one of the most powerful tools for a myriad of population genetic approaches. Here, we used the 454 sequencing technique to develop microsatellite loci in the fire coralMillepora platyphylla, an important reef-builder of Indo-Pacific reefs.We tested the cross-species amplification of these loci in five other species of the genusMilleporaand analysed its success in correlation with the genetic distances between species using mitochondrial 16S sequences. We succeeded in discovering fifteen microsatellite loci in our target speciesM. platyphylla,among which twelve were polymorphic with 2–13 alleles and a mean observed heterozygosity of 0.411. Cross-species amplification in the five otherMilleporaspecies revealed a high probability of amplification success (71%) and polymorphism (59%) of the loci. Our results show no evidence of decreased heterozygosity with increasing genetic distance. However, only one locus enabled measures of genetic diversity in the Caribbean speciesM. complanatadue to high proportions of null alleles for most of the microsatellites. This result indicates that our novel markers may only be useful for the Indo-Pacific species ofMillepora.Measures of genetic diversity revealed significant linkage disequilibrium, moderate levels of observed heterozygosity (0.323–0.496) and heterozygote deficiencies for the Indo-Pacific species. The accessibility to new polymorphic microsatellite markers for hydrozoanMilleporaspecies creates new opportunities for future research on processes driving the complexity of their colonisation success on many Indo-Pacific reefs.

scholarly journals Development of microsatellite markers for the Japanese endemic conifer Thuja standishii and transfer to other East Asian species

2019 ◽  
Author(s):  
James Raymond Peter Worth ◽  
K. S. Chang ◽  
Y.-H. Ha ◽  
Aili Qin
Keyword(s):  
Genetic Diversity ◽  
Microsatellite Markers ◽  
Microsatellite Loci ◽  
East Asian ◽  
Clonal Reproduction ◽  
Sister Species ◽  
Asian Species ◽  
Expected Heterozygosity ◽  
Polymorphic Microsatellite ◽  
Diversity Structure

Abstract Objective: Design polymorphic microsatellite loci that will be useful for studies of the genetic diversity, structure and reproduction in the Japanese endemic conifer Thuja standishii and test the transferability of these loci to the two other East Asian species, T. sutchuenensis and T. koraiensis . Results: Fifteen loci were developed which displayed 3 to 21 alleles per locus (average = 9.2) among 97 samples from three populations of T. standishii . Observed heterozygosity for all samples varied between 0.33-0.75 (average 0.54) while expected heterozygosity values were higher with an average over the 15 loci of 0.62 (0.37-0.91). Low multi-locus probability of identity values (< 0.00001) indicate that these markers will be effective for identifying individuals derived from clonal reproduction. All 15 loci amplified in 13 samples of T. sutchuenensis , the sister species of T. standishii , with 1 to 11 alleles per locus (average = 4.33) while 13 loci amplified in four samples of the more distantly related T. koraiensis with 1 to 5 alleles per locus (average = 2.15).

scholarly journals Identification of duplicates of cassava accessions sampled on the North Region of Brazil using microsatellite markers

2013 ◽  
Vol 43 (4) ◽  
pp. 461-467 ◽  
Author(s):  
Elisa Ferreira Moura ◽  
João Tomé de Farias Neto ◽  
José Edson Sampaio ◽  
Diehgo Tuloza da Silva ◽  
Girena Fernandes Ramalho
Keyword(s):  
Microsatellite Markers ◽  
Microsatellite Loci ◽  
Genetic Identity ◽  
Germplasm Bank ◽  
Maintenance Costs ◽  
Bank Management ◽  
The North ◽  
Germplasm Banks ◽  
Local Farmers

Duplicates are common in germplasm banks and their identification is needed to facilitate germplasm bank management and to reduce maintenance costs. The aim of this work was to identify duplicates of cassava from a germplasm bank in Eastern Amazon, which had been previously characterized both morphological and agronomically. In order to be genotyped with 15 microsatellite loci, 36 accessions were selected. These accessions were classified into 13 groups of similar morpho-agronomical characteristics. All loci were polymorphic, and 75 alleles were identified, with an average of five alleles per loci and H E = 0.66. There were determined 34 pairs of genotypes with identical multiloci profiles and the probability of genetic identity was 1.1x10-12 with probability of exclusion of 99.9999%. Among these duplicates, there are accessions sampled on different years and places, but with different names and accessions with the same name sampled in different places and years. The study identified genotypes that are grown in different places and that have been maintained over the years by local farmers.

scholarly journals Novel microsatellites for Cypseloides fumigatus, cross-amplifiable in Streptoprocne zonaris

2019 ◽  
Vol 27 (3) ◽  
pp. 207-211
Author(s):  
Renata Neves Biancalana ◽  
Fabio Raposo do Amaral ◽  
Cibele Biondo
Keyword(s):  
Microsatellite Markers ◽  
Related Species ◽  
New World ◽  
Population Studies ◽  
Genetic Population ◽  
World Species ◽  
Cross Amplification ◽  
The Cross ◽  
Species Cross

AbstractBased on microsatellite prospection, we isolated and characterized 21 microsatellite markers for the Sooty Swift (Cypseloides fumigatus) and tested the cross-amplification in the White-collared Swift (Streptoprocne zonaris). Both species are New World species included in the Apodidae family. From these 21, only 13 loci were polymorphic in the Sooty Swift, and their levels of polymorphism were surprisingly low compared to related species. Cross-amplification in the White-collared Swift was successful for 11 loci of the 13 polymorphic found for the Sooty Swift, but seven were monomorphic and four were biallelic. The microsatellites described here could be useful in future genetic population studies for Sooty Swifts and related species.

scholarly journals Genetic Diversity of the Endemic Xantus’ Hummingbird Using 16 Novel Polymorphic Microsatellite Loci, and Their Cross Amplification between Six Related Species

2016 ◽  
Vol 06 (01) ◽  
pp. 19-27 ◽  
Author(s):  
Cristina González-Rubio Sanvicente ◽  
Ricardo Rodríguez-Estrella ◽  
Oscar Adrián Lozano-Garza ◽  
Francisco J. García-De-León
Keyword(s):  
Genetic Diversity ◽  
Microsatellite Loci ◽  
Related Species ◽  
Cross Amplification ◽  
Polymorphic Microsatellite

scholarly journals Transferability and Characterization of Microsatellite Markers from Byrsonima Cydoniifolia A. Juss. (MALPIGHIACEAE) in Seven Related Taxa from Cerrado Biome Reveal Genetic Relationships

2021 ◽  
Author(s):  
Vanessa Bernardes ◽  
Devanir M. Murakami ◽  
Nair Bizão ◽  
Tamara N. Souza ◽  
Marcos J. da Silva ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Microsatellite Markers ◽  
Genetic Divergence ◽  
High Efficiency ◽  
Population Studies ◽  
Genetic Relationships ◽  
Species Occurrence ◽  
Genetic Population ◽  
Expected Heterozygosity

Abstract Byrsonima Rich. is one of the largest genera of the Malpighiaceae family, with 97 species occurrence in Brazil. In this study, 17 microsatellite markers previously developed and characterized in Byrsonima cydoniifolia A. Juss. were tested for seven related taxa. All species tested here are native to Brazil, and of these species four are endemic. Cross-amplification as successfully optimized with high efficiency for all species. Microsatellite markers panels ranged from 11 (64,8%) transfered markers in B. viminifolia to 6 (35.2%) in B. umbellata. All loci were genotyped for 16 individuals of each species, except for B. viminifolia (14 individuals), then the polymorphic loci were characterized. The total number of alleles per locus across tested species ranged from 5 (B. linearifolia) to 8 (B. subterranea) alleles. B. umbellata showed lower values of observed and expected heterozygosity (Ho = 0.312; He = 0.436) and B. subterranea presented the highest values (Ho = 0.687; He = 0.778). A greater number of microsatellite markers should be developed for B. umbellata, once that the markers set transferred is reasonably informative, due to the greatest genetic divergence between species. The microsatellite marker panels transferred to the species B. intermedia, B. verbascifolia, B. laxiflora, B. subterranea, B. viminifolia and B. linearifolia are very informative, with a high combined probability of exclusion of paternity (Q ≥ 0.976) and the low combined probability of identity (I ≤ 9.91x10− 6), potentially suitable for future genetic-population studies, supporting strategies for maintaining the genetic diversity and for exploration of Byrsonima species as genetic resources.

scholarly journals Variasi Genetik Itik Bayang Berbasis Marka Mikrosatelit Pada Lokus AY287 dan Lokus AY283

2017 ◽  
Vol 11 (2) ◽  
pp. 91 ◽  
Author(s):  
Rusfidra Rusfidra ◽  
Y. Heryandi ◽  
Jamsari Jamsari ◽  
E. Y. Rahman
Keyword(s):  
Genetic Diversity ◽  
Microsatellite Markers ◽  
Key Words ◽  
Genetic Markers ◽  
Microsatellite Loci ◽  
Gel Electrophoresis ◽  
Genetic Resource ◽  
Allele Frequencies ◽  
Blood Samples

West Sumatera Province has poultry genetic resource of local duck that potential in supply<br />eggs and duck meat. Bayang duck was set by Indonesian Agricultural Ministry in 2012 as national livestock breeds in Indonesia. Microsatellite markers are widely used as a genetic identifier because of their abundant existence, co-dominant and high polymorphic. The purpose of this study was to determine the genetic diversity of Bayang ducks based on two microsatellite loci which include AY287 and AY283. DNA substances used in the study were blood samples from 24 Bayang duck in Pesisir Selatan Regency. The isolated DNA genom from 24 blood samples of Bayang duck could be detected by gel electrophoresis. Results showed that AY287 locus has 6 alleles; allele A (108 bp), allele B (142 bp), allele C (183 bp), allele D (227 bp), allele E (272 bp) and allele F (340 bp). Both allele E and F were specific genetic markers of Bayang duck. Alleles frequencies of the AY287 locus were as follow: allele C (26,93%), allele D (19,24%), allele A (15,38%), allele B (15,38%), allele E (15,38%) and allele F (7,69%). The AY283 locus has 6 alleles consisted of allele A (230 bp), allele B (320 bp), allele C (345 bp), allele D (390 bp), allele E (450 bp) and allele F (500 bp). Allele frequencies of this marker were allele B (20,51%), allele D (20,51%), allele E (20,51%), allele A (15,39%), allele C (15,39%), and allele F (7,69%), respectively. Our finding suggest that two microsatellite markers, AY287 and AY283, were polymorphic in Bayang duck population.<br />Key words: Bayang duck, microsatellite, AY283, AY287

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