Microsatellite primer development in elasmobranchs using next generation sequencing of enriched libraries.

Molecular Biology Reports
Kevin A FeldheimJ Dylan Maddox

Abstract

Microsatellites are useful in studies of population genetics, sibship, and parentage. Here, we screened for microsatellites from multiple elasmobranch genomic libraries using an enrichment protocol followed by sequencing on an Illumina platform. We concurrently screened five and then nine genomes and describe the number of potential loci from each respective round of sequencing. To validate the efficacy of the protocol, we developed and tested primers for the pelagic thresher shark, Alopias pelagicus. The method described here is a cost-effective protocol to increase the pool of potential useful loci and allows the concurrent screening of multiple libraries.

References

Feb 5, 2000·Nature Biotechnology·M Schuelke
May 4, 2005·Methods in Enzymology·Travis C Glenn, Nancy A Schable
May 8, 2008·Zoological Science·Anchalee AowpholKumthorn Thirakhupt
Jan 29, 2010·The Journal of Heredity·Kevin A FeldheimBob Snowden
Mar 1, 2009·Molecular Ecology Resources·Kevin A FeldheimCarol A Stepien
Nov 1, 2009·Molecular Ecology Resources·Kevin A FeldheimBrian R Kreiser
Jan 1, 2008·Molecular Ecology Resources·François Rousset
Jun 17, 2011·Molecular Ecology Resources·T N JenningsR C Cronn
Mar 6, 2012·Nature Methods·Ben Langmead, Steven L Salzberg
Apr 18, 2012·Journal of Computational Biology : a Journal of Computational Molecular Cell Biology·Anton BankevichPavel A Pevzner
Jun 26, 2012·Nucleic Acids Research·Andreas UntergasserSteven G Rozen
Sep 10, 2014·Applications in Plant Sciences·Theresa M CulleyBenjamin J Merritt
Jan 6, 2016·Nature Reviews. Genetics·Kimberly R AndrewsPaul A Hohenlohe
Dec 24, 2018·Molecular Ecology·Sarah P Flanagan, Adam G Jones
Jan 27, 2019·Molecular Ecology Resources·Mariah H Meek, Wesley A Larson

❮ Previous
Next ❯

Methods Mentioned

BETA
PCR
restriction digest
PCRs

Software Mentioned

Cutadapt
Bowtie 2
SPAdes
MSATCOMMANDER
Primer3
Geneious
Genepop

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.