Development and characterization of microsatellite markers for the lizardfish known as the Bombay duck, Harpadon nehereus (Synodontidae)

Abstract

ABSTRACT. The Bombay duck, or bummalo (Harpadon nehereus), is a lizardfish native to the Arabian sea, but also common in the China sea. It is normally dried and salted before consumption and export. To provide molecular information on this economically important fish species, we developed and characterized microsatellite markers. Ninety positive clones from the (CA) 15 -enriched genomic library were sequenced; 62 sequences contained sufficient repeat motifs (di-, tri-and tetra-nucleotide). Twentyeight primer pairs were designed and 21 were successfully amplified; five loci were polymorphic, but with a low number of alleles (three or four). The observed and expected heterozygosities ranged from 0.3500 to 0.8421 and from 0.5244 to 0.6244, respectively. All of the five polymorphic loci were at Hardy-Weinberg equilibrium (adjusted), while linkage disequilibrium between Hane-97 and Hane-175 (P < 0.05, adjusted P value = 0.01) was significant. The low degree of polymorphism of microsatellite markers may be due to the large size of the repeat motifs. These markers will be useful for genetic diversity analysis of H. nehereus.

Genome-Wide Survey Reveals the Microsatellite Characteristics and Phylogenetic Relationships of Harpadon nehereus

“…However, most studies on H. nehereus have been conducted focusing on stock assessment, morphological traits, biological habits and nutrition processing [10][11][12][13], and limited studies involve the field of genetics. For example, these studies include population genetic structure and genetic variation analysis based on simple sequence repeat (SSR), sequence-related amplified polymorphism (SRAP) and mitochondrial DNA (mtDNA) markers [14][15][16][17], the molecular phylogenetic relationship revealed by mtDNA Cyt b, 16S rRNA and the complete mtDNA genome [17][18][19], and the expression analysis of calcium cycling genes by transcriptome sequencing [20]. With the accomplishment of the Human Genome Project (HGP) early in 2001, a new era of genomics has arrived in the field of genetics research.…”

Stock structure analysis of ‘Bombay duck’ (Harpadon nehereusHamilton, 1822) along the Indian coast using truss network morphometrics

“…Inferences based on methods adopted from other disciplines such as genetic analysis, fatty acid profiles and elemental otolith compositions may provide more insight into the stock structure of this species (Cadrin, ). Very recently, microsatellite markers have been developed for Bombay duck and can be used to study their genetic variations (Xu et al., ).…”

“…We investigated the stock structure of Harpadon nehereus (Hamilton, 1822) along the Indian coast, a species commonly known as ‘Bombay duck’ and belonging to the Family Synodontidae. Widely distributed along the Indo‐Pacific region covering the coasts of East Africa, the Indian subcontinent, Malaysia, Indonesia and China (Kakatkar et al., ; Xu et al., ; Jin et al., ), Bombay duck forms one of the important pelagic fishery resources and single species fisheries in India (Kurian, ). The moisture content of this fish is above 90% and is highly perishable (Kakatkar et al., ).…”

A new species of western Atlantic lizardfish (Teleostei: Synodontidae: Synodus) and resurrection of Synodus bondi Fowler, 1939, as a valid species from the Caribbean with redescriptions of S. bondi, S. foetens (Linnaeus, 1766), and S. intermedius (Agassiz, 1829)

“…Trachinocephalus myops, Synodus synodus, Saurida tumbil (Greater Lizardfisb), and Harpadon nehereus (Bombay Duck) are targeted tbrougbout the Mediterranean, Indian Ocean, and Southeast Asia (Raje et al, 2004;Ghosh et al, 2009;Xu et al, 2011). In the western Atlantic, synodontid species are encountered almost exclusively as bycatch in recreational and commercial fisberies.…”