scholarly journals Polymorphic Microsatellite Loci in the Independent-founding Wasp Polists versicolor (Hymenoptera: Vespidae)

Sociobiology ◽  
2016 ◽  
Vol 63 (2) ◽  
pp. 845
Author(s):  
Yumi Takahashi ◽  
Ayano Yamada ◽  
Sidnei Mateus ◽  
Ronaldo Zucchi ◽  
Fabio Nascimento ◽  
...  
Keyword(s):  
Social Interactions ◽  
Microsatellite Loci ◽  
Genetic Relatedness ◽  
Conflicts Of Interest ◽  
Microsatellite Primers ◽  
Expected Heterozygosity ◽  
Polistes Wasps ◽  
Polymorphic Microsatellite ◽  
Genetic Conflicts ◽  
Data Banks

Microsatellite primers developed for a given species are sometimes useful for another in the same genus, making possible to search for pre-existing suitable primers in the data banks such as GenBank. We examined whether existing primers developed for Polistes wasps could be used for the independent-founding wasp Polistes versicolor. We tested 50 microsatellite primers from three Polistes species and found that five microsatellite loci show polymorphism in size in P. versicolor. These five loci were highly polymorphic, having four to 10 alleles in P. versicolor with an expected heterozygosity of 0.530–0.836. These loci can be used to study parameters concerning genetic relatedness such as social interactions in colonies and genetic conflicts of interest among nestmate individuals.

scholarly journals Development and characterization of twelve new polymorphic microsatellite loci in the Iberian ribbed newt, Pleurodeles waltl (Caudata: Salamandridae), with data on cross-amplification in P. nebulosus

2014 ◽  
Vol 35 (1) ◽  
pp. 129-134 ◽  
Author(s):  
Jorge Gutiérrez-Rodríguez ◽  
Elena G. Gonzalez ◽  
Íñigo Martínez-Solano
Keyword(s):  
Population Dynamics ◽  
Microsatellite Loci ◽  
Evolutionary History ◽  
The Novel ◽  
Expected Heterozygosity ◽  
History Of ◽  
Southern Iberia ◽  
Polymorphic Microsatellite ◽  
Pleurodeles Waltl

Twelve novel polymorphic microsatellite loci were isolated and characterized for the Iberian ribbed newt, Pleurodeles waltl (Caudata, Salamandridae). The distribution of this newt ranges from central and southern Iberia to northwestern Morocco. Polymorphism of these novel loci was tested in 40 individuals from two Iberian populations and compared with previously published markers. The number of alleles per locus ranged from two to eight. Observed and expected heterozygosity ranged from 0.13 to 0.57 and from 0.21 to 0.64, respectively. Cross-species amplification was tested in Pleurodeles nebulosus, which is listed as Vulnerable by the IUCN. Eight new and seven previously published loci amplified successfully in that species and thus represent a valuable conservation tool. The novel microsatellites will be useful for a better understanding of the population dynamics, demography, genetic structure, and evolutionary history of Pleurodeles waltl and P. nebulosus.

Genome survey and identification of polymorphic microsatellites provide genomic information and molecular markers for the red crab Charybdis feriatus (Linnaeus, 1758) (Decapoda: Brachyura: Portunidae)

2019 ◽  
Vol 40 (1) ◽  
pp. 76-81 ◽  
Author(s):  
Shaobin Fang ◽  
Renxie Wu ◽  
Xi Shi ◽  
Yin Zhang ◽  
Mhd Ikhwanuddin ◽  
...  
Keyword(s):  
Microsatellite Loci ◽  
Gc Content ◽  
Repeat Sequence ◽  
Sequencing Platform ◽  
Genome Survey ◽  
Expected Heterozygosity ◽  
Polymorphic Microsatellites ◽  
Polymorphic Microsatellite ◽  
Insight Into ◽  
Illumina Sequencing Platform

Abstract We conducted a whole genome survey in the portunid crab Charybdis feriatus (Linnaeus, 1758) using Illumina sequencing platform and developed a set of polymorphic microsatellite loci. A total of 117.7 Gb of clean reads were generated, with 74× coverage of the estimated genome size of 1.4 Gb. The GC content, heterozygosity rate, and repeat sequence rate of the genome were estimated to be 40%, 1.1%, and 51%, respectively. A total of 3,779,209 microsatellites were identified from the genome. Sixty microsatellite loci were evaluated in a wild population of 40 individuals. As a result, 14 polymorphic microsatellite loci (23.3%) were obtained. The number of alleles (3 to 15), polymorphism information content (0.365 to 0.884), observed heterozygosity (0.050 to 0.975), and expected heterozygosity (0.450 to 0.907) per locus averaged 6.8, 0.652, 0.691, and 0.707, respectively. We show that the genome of C. feriatus has a high heterozygosity and repeat sequence rates, and provide a novel insight into the genome profile of marine crabs. The genetic markers developed in this study are potentially useful for studies on population dynamics and conservation genetics of C. feriatus and other species of brachyuran crabs.

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 Development and characterization of 29 polymorphic microsatellite loci of Megalobrama pellegrini by next-generation sequencing technology and cross-species amplification in related species

2016 ◽  
Author(s):  
Wen Song ◽  
Dongmei Zhu ◽  
Yefeng Lv ◽  
Weimin Wang
Keyword(s):  
Microsatellite Markers ◽  
Microsatellite Loci ◽  
Related Species ◽  
Polymorphic Information Content ◽  
Sequencing Technology ◽  
Next Generation Sequencing Technology ◽  
Expected Heterozygosity ◽  
Polymorphic Microsatellite ◽  
Generation Sequencing

Megalobrama pellegrini is one of the economically important freshwater fish in China. Here, we developed 29 polymorphic microsatellite loci of M. pellegrini. The number of alleles (Na), effective number of alleles (Ne), observed heterozygosity (HO), expected heterozygosity (HE) and polymorphic information content (PIC) ranged from 3 to 11 (mean±SD 5.4828±1.9571), 2.8708 to 9.6257 (mean±SD 5.0865±1.6681), 0.4333 to 0.9333 (mean±SD 0.7874±0.1213), 0.6627 to 0.9113 (mean±SD 0.7946±0.0751) and 0.5785 to 0.8868 (mean±SD 0.7439±0.0950), respectively. Cross-species amplification was successful at most loci for related species such as M. amblycephala, M. hoffmanni, M. skolkovii and Parabramis pekinensis. The transferability rate of the 29 polymorphic microsatellite markers in M. amblycephala, M. hoffmanni, M. skolkovii and P. pekinensis were 96.55%, 86.21%, 86.21% and 75.86%, respectively. These polymorphic microsatellites are not only useful in genetic study and conservation of M. pellegrini, but also an effective tool for identifying the related species. We could use 5 microsatellite markers (HHF-63, HHF-104, HHF-113, HHF-148, HHF-163) to distinguish the 5 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.

Development and characterization of polymorphic microsatellite markers for Spathoglottis plicata (Orchidaceae)

2018 ◽  
Vol 16 (6) ◽  
pp. 572-575
Author(s):  
Chiuan-Yu Li ◽  
Chi-Chun Huang ◽  
Chaur-Tzuhn Chen ◽  
Kuo-Hsiang Hung
Keyword(s):  
Microsatellite Markers ◽  
Microsatellite Primers ◽  
Wild Populations ◽  
Terrestrial Orchid ◽  
Chain Reaction ◽  
Expected Heterozygosity ◽  
Genetic Patterns ◽  
Polymerase Chain ◽  
Polymorphic Microsatellite

AbstractWe developed novel and polymorphic microsatellite primers for Spathoglottis plicata, a tropical and subtropical terrestrial orchid, to investigate the genetic patterns and population structure among wild populations, and also to identify the varieties and hybrids of S. plicata in horticultural industry. The 12 novel microsatellites from S. plicata were developed by using polymerase chain reaction (PCR)-based isolation of microsatellite arrays. These markers that were successfully PCR amplified exhibited polymorphisms in S. plicata. The number of alleles, observed heterozygosity, expected heterozygosity and polymorphism information content values across loci ranged from 2.000 to 8.000, 0.000 to 0.756, 0.208 to 0.813 and 0.405 to 0.805 in total populations, respectively. The newly developed microsatellite markers exhibited variation in S. plicata. These markers can be used as a tool to further investigate the genetic diversity, conservation genetics and variety/hybrid identification of S. plicata.

scholarly journals Isolation and Characterization of 10 Polymorphic Microsatellite Loci in Paphiopedilum concolor (Batem.) Pfitzer (Orchidaceae) and Cross-species Amplification

HortScience ◽  
2010 ◽  
Vol 45 (8) ◽  
pp. 1286-1287 ◽  
Author(s):  
Long-na Li ◽  
Songjun Zeng ◽  
Feng Zheng ◽  
Zhi-lin Chen ◽  
Kun-lin Wu ◽  
...  
Keyword(s):  
Genetic Structure ◽  
Microsatellite Locus ◽  
Microsatellite Loci ◽  
Genomic Library ◽  
Enriched Genomic Library ◽  
Relationship Patterns ◽  
Isolation And Characterization ◽  
Expected Heterozygosity ◽  
Polymorphic Microsatellite

Ten polymorphic microsatellite loci were isolated and characterized from an enriched genomic library of Paphiopedilum concolor (Batem.) Pfitzer. The number of alleles per microsatellite locus ranged from three to 11 with an average of 6.4 in a sample of 30 individuals from three populations. The observed and expected heterozygosity ranged from 0.200 to 0.800 and from 0.544 to 0.827, respectively. These microsatellites can be used as tools to investigate the genetic structure of P. concolor populations and relationship patterns with closely related taxa.

scholarly journals Isolation and Characterization of Twenty Polymorphic Microsatellite Loci for Moringa oleifera (Moringaceae)

HortScience ◽  
2010 ◽  
Vol 45 (4) ◽  
pp. 690-692 ◽  
Author(s):  
Jiang-Chong Wu ◽  
Jing Yang ◽  
Zhi-Jian Gu ◽  
Yan-Ping Zhang
Keyword(s):  
Microsatellite Markers ◽  
Microsatellite Loci ◽  
Population Genetic ◽  
Moringa Oleifera ◽  
Microsatellite Primers ◽  
Genetic Studies ◽  
Isolation And Characterization ◽  
Hardy Weinberg Equilibrium ◽  
Polymorphic Microsatellite

By using a modified biotin-streptavidin capturing method, a total of 20 polymorphic microsatellite markers were developed from Moringa oleifera Lam. (Moringaceae), a useful multipurpose tree. Twenty-four domesticated individuals, with germplasms of India and Myanmar, were used to screen polymorphism of these 20 microsatellite markers. The number of alleles per locus ranged from two to six. The expected and observed heterozygosity varied from 0.3608 to 0.7606 and from 0.0000 to 0.8750, respectively. Seven loci were significantly deviated from Hardy-Weinberg equilibrium. The availability of these microsatellite primers would provide a powerful tool for aspects of detailed population genetic studies of M. oleifera.

New Microsatellite Markers for Two Sympatric Tinamou Species, the Ornate Tinamou (Nothoprocta ornata) and Darwin's Nothura (Nothura darwinii)

2016 ◽  
Vol 9 (3) ◽  
pp. 139-146 ◽  
Author(s):  
Lina Maria Giraldo Deck ◽  
Jan Christian Habel ◽  
Manuel Curto ◽  
Martin Husemann ◽  
Sarah Sturm ◽  
...  
Keyword(s):  
Microsatellite Loci ◽  
Life History Traits ◽  
Null Alleles ◽  
Genetic Population ◽  
Expected Heterozygosity ◽  
Hardy Weinberg Equilibrium ◽  
Polymorphic Microsatellite ◽  
Successful Amplification ◽  
Low Coverage ◽  
Candidate Loci

Tinamous (Tinamidae) represent one of the most ancient living avian lineages but their life history traits are relatively unstudied. Here we identified microsatellite loci for two sympatric tinamou species, the Ornate Tinamou ( Nothoprocta ornata) and the Darwin's Nothura ( Nothura darwinii) from low coverage Illumina sequencing of genomic DNA. The experiment yielded a large number of candidate loci. We designed primers and tested them for successful amplification in 1 to 2 populations of the target species, tested for deviation from the Hardy–Weinberg equilibrium and the presence of null alleles, the levels of polymorphism and potential cross-amplification. All 30 and 24 loci amplified consistently, in the Ornate Tinamou and in Darwin's Nothura, respectively. In the Ornate Tinamou, 25 loci were polymorphic and in the Darwin's Nothura 12, with 2 to 14 alleles per locus in both species. The expected heterozygosity ranged from 0.054 to 0.917 in the Ornate Tinamou and from 0.044 to 0.908 in the Darwin's Nothura. 23 (40%) of 54 loci were successfully cross-amplified. These newly discovered, polymorphic microsatellite loci represent a valuable tool for future studies on social behaviour, parentage and genetic population structure in tinamous.

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).

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