Using Massive Parallel Sequencing for the development, validation, and application of population genetics markers in the invasive bivalve zebra mussel (Dreissena polymorpha)

PloS One
Luis PeñarrubiaJordi Viñas

Abstract

The zebra mussel (Dreissena polymorpha, Pallas, 1771) is one of the most invasive species of freshwater bivalves, due to a combination of biological and anthropogenic factors. Once this species has been introduced to a new area, individuals form dense aggregations that are very difficult to remove, leading to many adverse socioeconomic and ecological consequences. In this study, we identified, tested, and validated a new set of polymorphic microsatellite loci (also known as SSRs, Single Sequence Repeats) using a Massive Parallel Sequencing (MPS) platform. After several pruning steps, 93 SSRs could potentially be amplified. Out of these SSRs, 14 were polymorphic, producing a polymorphic yield of 15.05%. These 14 polymorphic microsatellites were fully validated in a first approximation of the genetic population structure of D. polymorpha in the Iberian Peninsula. Based on this polymorphic yield, we propose a criterion for establishing the number of SSRs that require validation in similar species, depending on the final use of the markers. These results could be used to optimize MPS approaches in the development of microsatellites as genetic markers, which would reduce the cost of this process.

References

Oct 5, 1990·Journal of Molecular Biology·S F AltschulD J Lipman
Jul 1, 1983·Annals of Human Genetics·M Nei, R K Chesser
Dec 1, 1994·Current Opinion in Genetics & Development·D Tautz, Schlötterer
Dec 24, 1998·Nucleic Acids Research·G Benson
Feb 5, 2000·Nature Biotechnology·M Schuelke
Mar 21, 2002·Molecular Ecology·L ZaneT Patarnello
Jan 24, 2003·Cytometry. Part a : the Journal of the International Society for Analytical Cytology·J DolezelJ Greilhuber
Apr 8, 2006·Molecular Ecology·Gemma E MayCarol Eunmi Lee
Jul 4, 2007·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·H P MaurerM Frisch
Sep 12, 2008·Molecular Ecology Notes·Daniel FalushJonathan K Pritchard
Dec 5, 2008·Microbiology and Molecular Biology Reviews : MMBR·Guy-Franck RichardBernard Dujon
May 14, 2011·Molecular Ecology Resources·E GuichouxR J Petit
Jan 1, 2008·Molecular Ecology Resources·François Rousset
Sep 1, 1986·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·T HelentjarisJ Nienhuis
Dec 21, 2013·PloS One·David Díez-del-MolinoJose-Luis García-Marín

❮ Previous
Next ❯

Citations

Mar 23, 2017·Developmental and Comparative Immunology·Jonathan H Schultz, Coen M Adema
Apr 2, 2019·Scientific Data·Ilaria ZarrellaGraziano Fiorito

❮ Previous
Next ❯

Datasets Mentioned

BETA
JQ812984-JQ812997
SRX803533
JWHF00000000

Methods Mentioned

BETA
PCR
genotyping

Software Mentioned

GENEPOP
BLASTN
GS DE NOVO ASSEMBLER
ARLEQUIN
TANDEM REPEATS FINDER ( TRF )
MPS
STRUCTURE
DE NOVO ASSEMBLER
GS
CHECKER

Related Concepts

Trending Feeds

COVID-19

Coronaviruses encompass a large family of viruses that cause the common cold as well as more serious diseases, such as the ongoing outbreak of coronavirus disease 2019 (COVID-19; formally known as 2019-nCoV). Coronaviruses can spread from animals to humans; symptoms include fever, cough, shortness of breath, and breathing difficulties; in more severe cases, infection can lead to death. This feed covers recent research on COVID-19.

Blastomycosis

Blastomycosis fungal infections spread through inhaling Blastomyces dermatitidis spores. Discover the latest research on blastomycosis fungal infections here.

Nuclear Pore Complex in ALS/FTD

Alterations in nucleocytoplasmic transport, controlled by the nuclear pore complex, may be involved in the pathomechanism underlying multiple neurodegenerative diseases including Amyotrophic Lateral Sclerosis and Frontotemporal Dementia. Here is the latest research on the nuclear pore complex in ALS and FTD.

Applications of Molecular Barcoding

The concept of molecular barcoding is that each original DNA or RNA molecule is attached to a unique sequence barcode. Sequence reads having different barcodes represent different original molecules, while sequence reads having the same barcode are results of PCR duplication from one original molecule. Discover the latest research on molecular barcoding here.

Chronic Fatigue Syndrome

Chronic fatigue syndrome is a disease characterized by unexplained disabling fatigue; the pathology of which is incompletely understood. Discover the latest research on chronic fatigue syndrome here.

Evolution of Pluripotency

Pluripotency refers to the ability of a cell to develop into three primary germ cell layers of the embryo. This feed focuses on the mechanisms that underlie the evolution of pluripotency. Here is the latest research.

Position Effect Variegation

Position Effect Variagation occurs when a gene is inactivated due to its positioning near heterochromatic regions within a chromosome. Discover the latest research on Position Effect Variagation here.

STING Receptor Agonists

Stimulator of IFN genes (STING) are a group of transmembrane proteins that are involved in the induction of type I interferon that is important in the innate immune response. The stimulation of STING has been an active area of research in the treatment of cancer and infectious diseases. Here is the latest research on STING receptor agonists.

Microbicide

Microbicides are products that can be applied to vaginal or rectal mucosal surfaces with the goal of preventing, or at least significantly reducing, the transmission of sexually transmitted infections. Here is the latest research on microbicides.