Systematic and Evolutionary Insights Derived from mtDNA COI Barcode Diversity in the Decapoda (Crustacea: Malacostraca)

Background: Decapods are the most recognizable of all crustaceans and comprise a dominant group of benthic invertebrates of the continental shelf and slope, including many species of economic importance. Of the 17635 morphologically described Decapoda species, only 5.4% are represented by COI barcode region sequences. It therefore remains a challenge to compile regional databases that identify and analyse the extent and patterns of decapod diversity throughout the world. Methodology/Principal Findings: We contributed 101 decapod species from the North East Atlantic, the Gulf of Cadiz and the Mediterranean Sea, of which 81 species represent novel COI records. Within the newly-generated dataset, 3.6% of the species barcodes conflicted with the assigned morphological taxonomic identification, highlighting both the apparent taxonomic ambiguity among certain groups, and the need for an accelerated and independent taxonomic approach. Using the combined COI barcode projects from the Barcode of Life Database, we provide the most comprehensive COI data set so far examined for the Order (1572 sequences of 528 species, 213 genera, and 67 families). Patterns within families show a general predicted molecular hierarchy, but the scale of divergence at each taxonomic level appears to vary extensively between families. The range values of mean K2P distance observed were: within species 0.285% to 1.375%, within genus 6.376% to 20.924% and within family 11.392% to 25.617%. Nucleotide composition varied greatly across decapods, ranging from 30.8 % to 49.4 % GC content. Conclusions/Significance: Decapod biological diversity was quantified by identifying putative cryptic species allowing a rapid assessment of taxon diversity in groups that have until now received limited morphological and systematic examination. We highlight taxonomic groups or species with unusual nucleotide composition or evolutionary rates. Such data are relevant to strategies for conservation of existing decapod biodiversity, as well as elucidating the mechanisms and constraints shaping the patterns observed.FCT - SFRH/BD/25568/ 2006EC FP6 - GOCE-CT-2005-511234 HERMESFCT - PTDC/MAR/69892/2006 LusomarBo

Pocillopora cryptofauna and their response to host coral mortality

The cryptofauna are the small cryptic organisms that inhabit the interstices of coral colonies and have a great contribution to the biodiversity of the reef. Some of these species are vulnerable to environmental deterioration due to their dependency on living coral. In the 1990s, Culebra Bay, located in the North Pacific of Costa Rica, was considered one of the most important reef areas in the country, with a mean live coral cover over 40%. However, in the last two decades there was a drastic decrease in live coral cover to 5%, due to El Niño events and recurrent harmful phytoplankton blooms. To evaluate the effect of the deterioration of the reef on the cryptofauna, we compare two time periods: before (2003–2004) and after (2013–2014) coral decline. Pocillopora spp. colonies (~20 cm high by ~20 cm wide) were collected and all associated invertebrates removed. Twenty colonies were sampled each period. During the first period, sampled colonies were alive and healthy, whereas a decade later, exposed skeletons of dead colonies were sampled. A total of 3482 invertebrate individuals were found, belonging to 133 species, 72 families, and nine classes. While abundance and diversity were greater during the 2013–2014 period, we hypothesize that this is due to disturbance intensity being intermediate to high. If these conditions are persistent or intensify over time, however, we expect that once all substrate and reef structure is lost, an abrupt decline in cryptofauna abundance and diversity will take place. Reefs with dead corals therefore have a remarkably different composition of the cryptofauna. Obligate commensal fauna were replaced by boring, opportunistic, and facultative species in these habitats. These changes in live coral cover favored an increase in the diversity of organisms, but this enhanced diversity may be temporary as bioerosion reduces dead colonies to skeleton rubble. This change in the cryptofauna community can affect the recovery and sustainability of the reef ecosystem over time.Universidad de Costa Rica/[]/UCR/Costa RicaUCR::Vicerrectoría de Docencia::Ciencias Básicas::Facultad de Ciencias::Escuela de BiologíaUCR::Vicerrectoría de Investigación::Unidades de Investigación::Ciencias Básicas::Centro de Investigación en Ciencias del Mar y Limnología (CIMAR)UCR::Vicerrectoría de Investigación::Unidades de Investigación::Ciencias Básicas::Centro de Investigación en Biodiversidad y Ecología Tropical (CIBET