Development of 18 novel polymorphic microsatellites from Coccinella septempunctata and cross-species amplification in Coccinellidae species

Bouanani, Mohand Ameziane; Magné, Frédéric; Lecompte, Émilie; Crouau‐Roy, Brigitte

doi:10.1007/s12686-014-0392-4

Cited by 4 publications

(5 citation statements)

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“…There are no hexanucleotide repeats found under our searching conditions of microsatellite loci (a minimum of 25, 5, 5, 5, 5 and 5 repeats were used to identify the mono-, di-, tri-, tetra-, penta-, and hexanucleotide motifs, respectively). Dinucleotide repeats are more than the higher order motif, which is in agreement with the previous report of Arthropoda in insects like Aphis glycines (Hemiptera) [ 27 ] and Coccinella septempunctata (Coleoptera) [ 28 ], and in species of Arachnida [ 29 ]. According to the distribution of microsatellite ( Table 1 ), it seems that the quantity of loci decreases followed with the increase of corresponding motif repeats.…”

Section: Resultssupporting

confidence: 92%

Development and Characterization of Novel Microsatellite Markers for the Peach Fruit Moth Carposina sasakii (Lepidoptera: Carposinidae) Using Next-Generation Sequencing

Wang

Cao

Zhu

et al. 2016

IJMS

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Abstract:The peach fruit moth Carposina sasakii is an economically important pest on dozens of fruits from Rosaceae and Rhamnaceae in Northeast Asia. We developed novel microsatellite markers for C. sasakii from randomly sequenced regions of the genome using next-generation sequencing. In total, 95,153 microsatellite markers were isolated from 4.70 GB genomic sequences. Thirty-five polymorphic markers were developed by assessing in 63 individuals from two geographical populations. The allele numbers ranged from 2 to 9 with an average value of 4.60 per locus, while the polymorphism information content ranged from 0.075 to 0.696 with an average value of 0.407. Furthermore, the observed and expected heterozygosity varied from 0.000 to 0.677 and 0.062 to 0.771, respectively. The microsatellites developed provide abundant molecular markers for investigating genetic structure, genetic diversity, and existence of host-plant associated biotypes of C. sasakii.

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Section: Resultssupporting

confidence: 92%

Development and Characterization of Novel Microsatellite Markers for the Peach Fruit Moth Carposina sasakii (Lepidoptera: Carposinidae) Using Next-Generation Sequencing

Wang

Cao

Zhu

et al. 2016

IJMS

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“…The 407 individuals were genotyped for 18 microsatellite markers, previously developed for the seven‐spot ladybird (Bouanani et al. ). The multiplex PCR was performed for each set of two to three loci in 10 μL of a mixture containing 10 ng of template DNA, 0.2 μmol/L of each primer, 5 μL of the Mix Qiagen Multiplex PCR kit and RNase‐free water.…”

Section: Methodsmentioning

confidence: 99%

“…Total genomic DNA was extracted from entire individual (minus elytra) using DNeasy Blood and tissue Kit (Qiagen, Valencia, CA) with PBS protocol according to the manufacturer's instructions. The 407 individuals were genotyped for 18 microsatellite markers, previously developed for the seven-spot ladybird (Bouanani et al 2015). The multiplex PCR was performed for each set of two to three loci in 10 lL of a mixture containing 10 ng of template DNA, 0.2 lmol/L of each primer, 5 lL of the Mix Qiagen Multiplex PCR kit and RNase-free water.…”

Section: Dna Extraction Microsatellite Amplification and Genotypingmentioning

confidence: 99%

“…Our objective is to characterize the patterns of genetic variability and structure in the rear-edge populations by comparing populations across the entire distribution area. To uncover the factors involved in shaping the genetic structure over the range and to test whether its spatial structure is consistent with the central-marginal model, we compared the genetic diversity of 28 sampled populations covering the native range, genotyping 407 individuals for 18 microsatellite markers developed from this species (Bouanani et al 2015). More specifically, we focused on the genetic pattern of two phenotypically differentiated populations located at the rear edges: one in the south (Algeria) and the other in Eastern Asia (Japan).…”

Section: Introductionmentioning

confidence: 99%

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Genetic diversity and structuring across the range of a widely distributed ladybird: focus on rear‐edge populations phenotypically divergent

Lecompte

Bouanani

Magro

et al. 2016

Ecology and Evolution

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Population genetics and phenotypic structures are often predicted to vary along the geographic range of a species. This phenomenon would be accentuated for species with large range areas, with discontinuities and marginal populations. We herein compare the genetic patterns of central populations of Coccinella septempunctata L. with those of two phenotypically differentiated populations considered as rear‐edge populations and subspecies based on phenotype (Algeria and Japan). According to the central‐marginal model and expected characteristics of rear‐edge populations, we hypothesize that these rear‐edge populations have (1) a reduced genetic diversity, resulting from their relative isolation over long periods of time, (2) a higher population genetic differentiation, explained by low contemporary gene flow levels, and (3) a relationship between genetic diversity characteristics and phenotypes, due to historical isolation and/or local adaptation. Based on genotyping of 28 populations for 18 microsatellite markers, several levels of regional genetic diversity and differentiation are observed between and within populations, according to their localization: low within‐population genetic diversity and higher genetic differentiation of rear‐edge populations. The genetic structuring clearly dissociates the Algerian and Eastern Asia populations from the others. Geographical patterns of genetic diversity and differentiation support the hypothesis of the central‐marginal model. The pattern observed is in agreement with the phenotypic structure across species range. A clear genetic break between populations of Algeria, the Eastern Asia, and the remaining populations is a dominant feature of the data. Differential local adaptations, absence of gene flow between marginal and central populations, and/or incapacity to mate after colonization, have contributed to their distinct genotypic and phenotypic characteristics.

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“…The number of microsatellites decreased as the number of repeat motifs increased. There were far more dinucleotide repeats than other repeats in our study, which was common in other species of Lepidoptera (A'Hara & Cottrell, 2013; Pavinato et al , 2013), Thysanoptera (Yang et al , 2012) and Coleoptera (Bouanani et al , 2014).…”

Section: Resultsmentioning

confidence: 52%

Novel microsatellite markers for the oriental fruit mothGrapholita molesta(Lepidoptera: Tortricidae) and effects of null alleles on population genetics analyses

Song

Cao

Wang

et al. 2016

Bull. Entomol. Res.

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The oriental fruit moth (OFM) Grapholita molesta (Lepidoptera: Tortricidae) is an important economic pest of stone and pome fruits worldwide. We sequenced the OFM genome using next-generation sequencing and characterized the microsatellite distribution. In total, 56,674 microsatellites were identified, with 11,584 loci suitable for primer design. Twenty-seven polymorphic microsatellites, including 24 loci with trinucleotide repeat and three with pentanucleotide repeat, were validated in 95 individuals from four natural populations. The allele numbers ranged from 4 to 40, with an average value of 13.7 per locus. A high frequency of null alleles was observed in most loci developed for the OFM. Three marker panels, all of the loci, nine loci with the lowest null allele frequencies, and nine loci with the highest null allele frequencies, were established for population genetics analyses. The null allele influenced estimations of genetic diversity parameters but not the OFM's genetic structure. Both a STRUCTURE analysis and a discriminant analysis of principal components, using the three marker panels, divided the four natural populations into three groups. However, more individuals were incorrectly assigned by the STRUCTURE analysis when the marker panel with the highest null allele frequency was used compared with the other two panels. Our study provides empirical research on the effects of null alleles on population genetics analyses. The microsatellites developed will be valuable markers for genetic studies of the OFM.

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Development of 18 novel polymorphic microsatellites from Coccinella septempunctata and cross-species amplification in Coccinellidae species

Cited by 4 publications

References 4 publications

Development and Characterization of Novel Microsatellite Markers for the Peach Fruit Moth Carposina sasakii (Lepidoptera: Carposinidae) Using Next-Generation Sequencing

Development and Characterization of Novel Microsatellite Markers for the Peach Fruit Moth Carposina sasakii (Lepidoptera: Carposinidae) Using Next-Generation Sequencing

Genetic diversity and structuring across the range of a widely distributed ladybird: focus on rear‐edge populations phenotypically divergent

Novel microsatellite markers for the oriental fruit mothGrapholita molesta(Lepidoptera: Tortricidae) and effects of null alleles on population genetics analyses

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