Development and characterization of multiplex panels of microsatellite markers for Syphacia obvelata, a parasite of the house mouse (Mus musculus), using a high throughput DNA sequencing approach

Wasimuddin, .; Čížková, Dagmar; Ribas, Alexis; Piálek, Jaroslav; Bellocq, Joëlle Goüy de; Bryja, Josef

doi:10.1016/j.molbiopara.2012.07.002

Cited by 5 publications

(4 citation statements)

References 17 publications

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“…This study joins an ever increasing number of others that have successfully employed NGS to detect a virtually unlimited number of polymorphic microsatellites across a wide variety of taxa (e.g., (Wang et al, 2012b; Wasimuddin et al, 2012; Whitney & Karl, 2012; Miller et al, 2013). Our study takes advantage of Roche-454 titanium chemistry.…”

Section: Resultsmentioning

confidence: 78%

Null alleles are ubiquitous at microsatellite loci in the Wedge Clam (Donax trunculus)

Rico

Cuesta

Drake

et al. 2017

PeerJ

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Recent studies have reported an unusually high frequency of nonamplifying alleles at microsatellite loci in bivalves. Null alleles have been associated with heterozygous deficits in many studies. While several studies have tested for its presence using different analytical tools, few have empirically tested for its consequences in estimating population structure and differentiation. We characterised 16 newly developed microsatellite loci and show that null alleles are ubiquitous in the wedge clam, Donax trunculus. We carried out several tests to demonstrate that the large heterozygous deficits observed in the newly characterised loci were most likely due to null alleles. We tested the robustness of microsatellite genotyping for population assignment by showing that well-recognised biogeographic regions of the south Atlantic and south Mediterranean coast of Spain harbour genetically different populations.

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Section: Resultsmentioning

confidence: 78%

Null alleles are ubiquitous at microsatellite loci in the Wedge Clam (Donax trunculus)

Rico

Cuesta

Drake

et al. 2017

PeerJ

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“…Nine microsatellite loci were polymorphic with three to 10 alleles per locus. For 39 of 253 individuals, more than two alleles were detected at three microsatellite loci, Syp‐O‐T1 (two individuals), Syp‐N‐D16 (two individuals) and Syp‐O‐T2 (37 individuals, one shared with each preceding locus), an issue that did not arise in a previous study of fewer Syphacia (Wasimuddin et al, ). It is likely some of the (all female) worms included in our study were gravid with eggs fertilized by male(s) with different alleles.…”

Section: Resultsmentioning

confidence: 76%

“…For PCR conditions, see PCR‐C (Supporting Information Table ). We then completed the 3′ end of COX together with ~300 bp of ND1 in a second PCR using primers SyphaciaCOX1‐A (5′‐TTTATATTTTKATTTTGCCTGC‐3′) and SyphaciaND1‐C (5′‐GCCCCTARCAAACCATATTTAG‐3′) designed based on mt reads obtained from 454 pyrosequencing (see Wasimuddin, et al ), and assembled using Enterobius vermicularis complete mt sequence (GenBank AN: EU281143) as reference. For PCR conditions, see PCR‐D (Supporting Information Table ).…”

Section: Methodsmentioning

confidence: 99%

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Holobiont suture zones: Parasite evidence across the European house mouse hybrid zone

et al. 2018

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Parasite hybrid zones resulting from host secondary contact have never been described in nature although parasite hybridization is well known and secondary contact should affect them similarly to free‐living organisms. When host populations are isolated, diverge and recontact, intimate parasites (host specific, direct life cycle) carried during isolation will also meet and so may form parasite hybrid zones. If so, we hypothesize these should be narrower than the host’s hybrid zone as shorter parasite generation time allows potentially higher divergence. We investigate multilocus genetics of two parasites across the European house mouse hybrid zone. We find each host taxon harbours its own parasite taxa. These also hybridize: Parasite hybrid zones are significantly narrower than the host’s. Here, we show a host hybrid zone is a suture zone for a subset of its parasite community and highlight the potential of such systems as windows on the evolutionary processes of host–parasite interactions and recombinant pathogen emergence.

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Development of microsatellite markers in Caryophyllaeus laticeps (Cestoda: Caryophyllidea), monozoic fish tapeworm, using next-generation sequencing approach

et al. 2014

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Caryophyllaeus laticeps (Pallas 1781) (Cestoda: Caryophyllidea) is a monozoic tapeworm of cyprinid fishes with a distribution area that includes Europe, most of the Palaearctic Asia and northern Africa. Broad geographic distribution, wide range of definitive fish hosts and recently revealed high morphological plasticity of the parasite, which is not in an agreement with molecular findings, make this species to be an interesting model for population biology studies. Microsatellites (short tandem repeat (STR) markers), as predominant markers for population genetics, were designed for C. laticeps using a next-generation sequencing (NGS) approach. Out of 165 marker candidates, 61 yielded PCR products of the expected size and in 25 of the candidates a declared repetitive motif was confirmed by Sanger sequencing. After the fragment analysis, six loci were proved to be polymorphic and tested for heterozygosity, Hardy-Weinberg equilibrium and the presence of null alleles on 59 individuals coming from three geographically widely separated populations (Slovakia, Russia and UK). The number of alleles in particular loci and populations ranged from two to five. Significant deficit of heterozygotes and the presence of null alleles were found in one locus in all three populations. Other loci showed deviations from Hardy-Weinberg equilibrium and the presence of null alleles only in some populations. In spite of relatively low polymorphism and the potential presence of null alleles, newly developed microsatellites may be applied as suitable markers in population genetic studies of C. laticeps.

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Development and characterization of multiplex panels of microsatellite markers for Syphacia obvelata, a parasite of the house mouse (Mus musculus), using a high throughput DNA sequencing approach

Cited by 5 publications

References 17 publications

Null alleles are ubiquitous at microsatellite loci in the Wedge Clam (Donax trunculus)

Null alleles are ubiquitous at microsatellite loci in the Wedge Clam (Donax trunculus)

Holobiont suture zones: Parasite evidence across the European house mouse hybrid zone

Development of microsatellite markers in Caryophyllaeus laticeps (Cestoda: Caryophyllidea), monozoic fish tapeworm, using next-generation sequencing approach

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