Adaptive evolution after duplication of penaeidin antimicrobial peptides

Abstract

Penaeidin antimicrobial peptides in penaeid shrimps are an important component of their innate immune system that provides immunity against infection caused by several gram-positive bacteria and filamentous fungal species. Despite the knowledge on the identification and characterization of these peptides in penaeid shrimps, little is known about the evolutionary pattern of these peptides and the underlying genetic mechanisms that maintain high sequence diversities in the penaeidin gene family. Based on the phylogenetic analyses and maximum likelihood-based codon substitution analyses, here we present the convincing evidence that multiple copies of penaeidins have evolved by gene duplication, and positive Darwinian selection (adaptive evolution) is the likely cause of accelerated rate of amino acid substitutions among these duplicated genes.fisheries of the country has led to a remarkable increase in fish landings, the problem of by-catch and targeted juvenile fishing is ever increasing. The present analysis shows that the contribution in the form of annual average profit by various craft–gear combinations is often not sufficient to compensate the overall loss generated by the same to the fishery through the harvest of juvenile fishes. Even though the fishermen gain some transient economic incentives from the juveniles landed, the estimated economic loss calculated was at about US$ 19,445 million year−1 from the mechanised as well as motorised sector. Both intergenerational and conventional discounting was applied to show the net present value (NPV) of future loss due to juvenile fishing. Some of the less capital intensive gears also substantially contribute towards the economic deficit caused by juvenile fishing. We suggest that, while considering the ecosystem impacts of accidental by-catch and intentional juvenile fishing, the economic impacts also should be taken into account prior to formulating any management measures. The study provides an insight to the cost of juvenile fishing in a multi-species multi-gear fishery, where a homogeneous management system is ineffective. The possible causes of increased growth overfishing in the country and subsequent economic loss to the industry are also discussed.