An intimate link between antimicrobial peptide sequence diversity and binding to essential components of bacterial membranes

Antimicrobial peptides and proteins (AMPs) are widespread in the living kingdom. They are key effectors of defense reactions and mediators of competitions between organisms. They are often cationic and amphiphilic, which favors their interactions with the anionic membranes of microorganisms. Several AMP families do not directly alter membrane integrity but rather target conserved components of the bacterial membranes in a process that provides them with potent and specific antimicrobial activities. Thus, lipopolysaccharides (LPS), lipoteichoic acids (LTA) or the peptidoglycan precursor Lipid II are targeted by a broad series of AMPs. Studying the functional diversity of immune effectors tells us about the essential residues involved in AMP mechanism of action. Marine invertebrates have been found to produce a remarkable diversity of AMPs. Molluscan defensins and crustacean anti-LPS factors (ALF) are diverse in terms of amino acid sequence and show contrasted phenotypes in terms of antimicrobial activity. Their activity is directed essentially against Gram-positive or Gram-negative bacteria due their specific interactions with Lipid II or Lipid A, respectively. Through those interesting examples, we discuss here how sequence diversity generated throughout evolution informs us on residues required for essential molecular interaction at the bacterial membranes and subsequent antibacterial activity. Through the analysis of molecular variants having lost antibacterial activity or shaped novel functions, we also discuss the molecular bases of functional divergence in AMPs.

Stimulation of bacterial exoproteolytic activity by fish farming in coastal marine ponds: Effect on dissolved protein cycling

The effect of fish farming on dissolved amino acid concentrations, bacterioplankton abundance and exoproteolytic activity was assessed in 3 experimental marine ponds. Different standing stocks of fish were introduced (semi-intensive pond: 250 g.m(-2); semi-extensive pond: 50 g.m(-2) control pond: 0). Sea bass farming increased dissolved combined amino acid (DCAA) concentrations only in the semi-intensive pond. Bacterial standing stock was unaffected by fish food supply. However, bacterial exoproteolytic activity was strongly stimulated by aquaculture intensification; the average maximal rate of dissolved protein hydrolysis (V-m) increased with intensity (control pond: 1 500 nM.h(-1); semi-extensive pond: 2 600 nM.h(-1) semi-intensive pond: 5 100 nM.h(-1)). DCAA fluxes through bacterial exoproteolytic activity ranged between 16 (semi-extensive) and 11% (semi-intensive) of the daily nitrogen input by fish food. Bacterial exoproteolytic activity allowed a substantial part of the increased supply of dissolved amino nitrogen to be incorporated into bacterial biomass, then available for transfer to higher trophic levels within the ponds. It also significantly decreased dissolved organic nitrogen export from the ponds to the surrounding environment.

High diversity of skin-associated bacterial communities of marine fishes is promoted by their high variability among body parts, individuals and species

Animal-associated microbiotas form complex communities, which are suspected to play crucial functions for their host fitness. However, the biodiversity of these communities, including their differences between host species and individuals, has been scarcely studied, especially in case of skin-associated communities. In addition, the intraindividual variability (i.e. between body parts) has never been assessed to date. The objective of this study was to characterize skin bacterial communities of two teleostean fish species, namely the European seabass (Dicentrarchus labrax) and gilthead seabream (Sparus aurata), using a high-throughput DNA sequencing method. In order to focus on intrinsic factors of host-associated bacterial community variability, individuals of the two species were raised in controlled conditions. Bacterial diversity was assessed using a set of four complementary indices, describing the taxonomic and phylogenetic facets of biodiversity and their respective composition (based on presence/absence data) and structure (based on species relative abundances) components. Variability of bacterial diversity was quantified at the interspecific, interindividual and intraindividual scales. We demonstrated that fish surfaces host highly diverse bacterial communities, whose composition was very different from that of surrounding bacterioplankton. This high total biodiversity of skin-associated communities was supported by the important variability, between host species, individuals and the different body parts (dorsal, anal, pectoral and caudal fins).

Dating of sediments in the Biscay bay: Implication for pollution chronology

Important historical informations on the temporal changes of anthropogenic pollution in marine environment can be assessed using sediment analysis. Dating is a crucial prerequisite to reconstruct pollution events, to calculate fluxes, and thus to allow comparison between different sites. This work presents estimates of accumulation rates of sediments in the Bay of Biscay. Fives cores were collected during RIKEAU 2002 cruise on board o/v Thalia in order to study temporal changes in PAH and organohalogens compounds content of sediment. We compare chronostratigraphic estimates on cores derived from the natural radionuclide 210Pb in excess with estimates from the known times of introduction of the artificial radionuclide 137Cs to the environment. 210Pb, 226Ra and 137Cs were measured directly by non-destructive gamma spectrometry using a well type γ-detector. Total 210Pb and 226Ra activities vary from 30 to 150 mBq g-1, and 20 to 36 mBq g-1 respectively; 137Cs presents lower levels (< 5 mBq g-1). Profiles of 210Pb in three cores present a well mixed layer, from 2-3 to 10 cm, in the uppermost sediments, followed by an exponential decrease of activities, suitable for the determination of sedimentation rates. Under constant flux and sedimentation rate assumptions, vertical accretion rates derived from 210Pb present a large range from nearly 0.1 cm yr-1 up to almost 0.3 cm yr-1. Differences are mainly due to relative position of studied cores regarding the muddy patch. Although the moderate level of 137Cs limits the accuracy of this dating method, profiles of 137Cs with depth strengthen mean rates derived from 210Pb data. The implication of this dating on pollutant inputs in sediments of the Bay of Biscay is briefly discussed.