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Microsatellite marker development in Spanish mackerel Scomberomorus commerson using third generation sequencing

Linu Joy¹, Sunitha Paulose¹, P R Divya²

¹PMFGR Centre, ICAR NBFGR, Kochi, India.

Molecular Biology Reports

|November 10, 2020

Summary

This study developed 32 new microsatellite markers for Spanish mackerel (S. commerson), aiding genetic diversity analysis and conservation efforts. These species-specific markers are crucial for understanding population structures and ensuring sustainable fisheries management.

Keywords:

Conservation Marine resources Population genetics Short tandem repeat Spanish mackerel

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Area of Science:

Marine Biology
Fisheries Science
Molecular Ecology
Conservation Genetics

Background:

Spanish mackerel (S. commerson) is a commercially important marine fish species with increasing global demand.
Understanding the genetic diversity of S. commerson is vital for effective conservation strategies and sustainable fisheries management.
Microsatellite markers are powerful molecular tools for analyzing population genetics due to their high variability.

Purpose of the Study:

To develop and characterize the first multiplex panel of species-specific microsatellite loci for Spanish mackerel (S. commerson).
To assess the intra- and inter-population genetic variation within S. commerson populations.
To provide a valuable tool for future population structure analyses across the species' distribution range.

Main Methods:

Utilized Third Generation Sequencing technology (PacBio RSII, Single-Molecule Real-Time sequencing) to develop microsatellite markers.
Isolated and characterized 32 microsatellite loci in S. commerson.
Genotyped individuals from three distinct populations along the Indian coast (Kochi, Veraval, Chennai).

Main Results:

Successfully developed and characterized 32 species-specific microsatellite loci for S. commerson.
Observed a high number of alleles per locus (4-17) and significant heterozygosity (mean observed: 0.656–0.753).
High Polymorphic Information Content (PIC) values (85% loci > 0.75) indicate marker informativeness.
Validated cross-transferability of these markers in Scomberomorus guttatus.

Conclusions:

The developed suite of 32 nuclear microsatellite markers represents the first species-specific multiplex panel for S. commerson.
These markers enable precise assessment of population genetic structures across the species' distribution.
The markers are valuable for conservation genetics, population management, and understanding the evolutionary history of Spanish mackerel.