Distribution and activity of virioplankton in the Toliara Large Reef (Madagascar)

Until then, the study of aquatic viruses concerned almost exclusively temperate and polar environments while the tropics were rarely explored. In this study, we examined the spatial and temporal variability of viral and bacterial communities in two different tide periods (spring/ neap tide), on 22 stations covering the Toliara Large Reef (TLR) located in Madagascar. The coupling of these two communities was also analyzed in several contrasted stations of the reef by physiological and ecological descriptors means. The epifluorescence microscopy technique allowed to achieve the bacterial and viral count support of this work. The results obtained show that the bacterial and viral concentrations for the whole TLR were significantly higher during spring than neap tide, probably because of the hydrodynamics very marked in this area. In addition, the Mitomycin C used permitted to establish that the cells fraction in phase of lysogenic infection was very low (< 3%) despite the oligotrophic status of TLR waters. This suggests that the lysogeny was the viral reproduction dominant strategy, which was diverted spontaneously and in a continuous way towards the lytic pathway, under the solar conditions’ influence. Finally, we show that the viruses form a dynamic and ubiquitous component of reef ecosystems, whose activity appears once again, closely related to the physico-chemical and biological environment nature.Keywords: Virus, lysogeny, lysis, tropical latitud

Skin microbiome of coral reef fish is highly variable and driven by host phylogeny and diet

Background The surface of marine animals is covered by abundant and diversified microbial communities, which have major roles for the health of their host. While such microbiomes have been deeply examined in marine invertebrates such as corals and sponges, the microbiomes living on marine vertebrates have received less attention. Specifically, the diversity of these microbiomes, their variability among species, and their drivers are still mostly unknown, especially among the fish species living on coral reefs that contribute to key ecosystem services while they are increasingly affected by human activities. Here, we investigated these knowledge gaps analyzing the skin microbiome of 138 fish individuals belonging to 44 coral reef fish species living in the same area. Results Prokaryotic communities living on the skin of coral reef fishes are highly diverse, with on average more than 600 OTUs per fish, and differ from planktonic microbes. Skin microbiomes varied between fish individual and species, and interspecific differences were slightly coupled to the phylogenetic affiliation of the host and its ecological traits. Conclusions These results highlight that coral reef biodiversity is greater than previously appreciated, since the high diversity of macro-organisms supports a highly diversified microbial community. This suggest that beyond the loss of coral reefs-associated macroscopic species, anthropic activities on coral reefs could also lead to a loss of still unexplored host-associated microbial diversity, which urgently needs to be assessed

Population Dynamics and Diversity of Viruses, Bacteria and Phytoplankton in a Shallow Eutrophic Lake

We have studied the temporal variation in viral abundances and community assemblage in the eutrophic Lake Loosdrecht through epifluorescence microscopy and pulsed field gel electrophoresis (PFGE). The virioplankton community was a dynamic component of the aquatic community, with abundances ranging between 5.5 × 107 and 1.3 × 108 virus-like particles ml−1 and viral genome sizes ranging between 30 and 200 kb. Both viral abundances and community composition followed a distinct seasonal cycle, with high viral abundances observed during spring and summer. Due to the selective and parasitic nature of viral infection, it was expected that viral and host community dynamics would covary both in abundances and community composition. The temporal dynamics of the bacterial and cyanobacterial communities, as potential viral hosts, were studied in addition to a range of environmental parameters to relate these to viral community dynamics. Cyanobacterial and bacterial communities were studied applying epifluorescence microscopy, flow cytometry, and denaturing gradient gel electrophoresis (DGGE). Both bacterial and cyanobacterial communities followed a clear seasonal cycle. Contrary to expectations, viral abundances were neither correlated to abundances of the most dominant plankton groups in Lake Loosdrecht, the bacteria and the filamentous cyanobacteria, nor could we detect a correlation between the assemblage of viral and bacterial or cyanobacterial communities during the overall period. Only during short periods of strong fluctuations in microbial communities could we detect viral community assemblages to covary with cyanobacterial and bacterial communities. Methods with a higher specificity and resolution are probably needed to detect the more subtle virus–host interactions. Viral abundances did however relate to cyanobacterial community assemblage and showed a significant positive correlation to Chl-a as well as prochlorophytes, suggesting that a significant proportion of the viruses in Lake Loosdrecht may be phytoplankton and more specific cyanobacterial viruses. Temporal changes in bacterial abundances were significantly related to viral community assemblage, and vice versa, suggesting an interaction between viral and bacterial communities in Lake Loosdrecht

Functional Effects of Parasites on Food Web Properties during the Spring Diatom Bloom in Lake Pavin: A Linear Inverse Modeling Analysis

This study is the first assessment of the quantitative impact of parasitic chytrids on a planktonic food web. We used a carbon-based food web model of Lake Pavin (Massif Central, France) to investigate the effects of chytrids during the spring diatom bloom by developing models with and without chytrids. Linear inverse modelling procedures were employed to estimate undetermined flows in the lake. The Monte Carlo Markov chain linear inverse modelling procedure provided estimates of the ranges of model-derived fluxes. Model results support recent theories on the probable impact of parasites on food web function. In the lake, during spring, when ‘inedible’ algae (unexploited by planktonic herbivores) were the dominant primary producers, the epidemic growth of chytrids significantly reduced the sedimentation loss of algal carbon to the detritus pool through the production of grazer-exploitable zoospores. We also review some theories about the potential influence of parasites on ecological network properties and argue that parasitism contributes to longer carbon path lengths, higher levels of activity and specialization, and lower recycling. Considering the “structural asymmetry” hypothesis as a stabilizing pattern, chytrids should contribute to the stability of aquatic food webs

The Molecular Diversity of Freshwater Picoeukaryotes Reveals High Occurrence of Putative Parasitoids in the Plankton

Eukaryotic microorganisms have been undersampled in biodiversity studies in freshwater environments. We present an original 18S rDNA survey of freshwater picoeukaryotes sampled during spring/summer 2005, complementing an earlier study conducted in autumn 2004 in Lake Pavin (France). These studies were designed to detect the small unidentified heterotrophic flagellates (HF, 0.6–5 µm) which are considered the main bacterivores in aquatic systems. Alveolates, Fungi and Stramenopiles represented 65% of the total diversity and differed from the dominant groups known from microscopic studies. Fungi and Telonemia taxa were restricted to the oxic zone which displayed two fold more operational taxonomic units (OTUs) than the oxycline. Temporal forcing also appeared as a driving force in the diversification within targeted organisms. Several sequences were not similar to those in databases and were considered as new or unsampled taxa, some of which may be typical of freshwater environments. Two taxa known from marine systems, the genera Telonema and Amoebophrya, were retrieved for the first time in our freshwater study. The analysis of potential trophic strategies displayed among the targeted HF highlighted the dominance of parasites and saprotrophs, and provided indications that these organisms have probably been wrongfully regarded as bacterivores in previous studies. A theoretical exercise based on a new ‘parasite/saprotroph-dominated HF hypothesis’ demonstrates that the inclusion of parasites and saprotrophs may increase the functional role of the microbial loop as a link for carbon flows in pelagic ecosystems. New interesting perspectives in aquatic microbial ecology are thus opened

Effect of Ni and black carbon addition on bacterial production, respiration and community composition on aggregates in the barrier reef Lagoon of Noumea (New Caledonia)

International audienceThe barrier reef lagoon of Noumea (New Caledonia) is potentially influenced by Ni and black carbon (BC) rich aerosols (the two latter originating from a Ni power plant). Experiments were performed with lagoon water collected close to the reef crest to assess the effect of anthropogenic influences on bacterial abundance (BA), production (BP), respiration (BR), growth efficiency (BGE) and community composition (BCC) in artificial produced aggregates. In both treatments, BA and VA were not affected or enhanced compared to the unamended control (up to 40% for BA and 180% for VA). BP was not or negatively affected (up to70%). No clear trend was found for BR in the Ni treatment; in the BC treatment BR was enhanced by 63-69%. BGE was reduced in both treatments. The strongest effects on BCC profiles as determined by 16S rDNA denaturing gradient gel electrophoresis were due to incubation time treatment particularly for BC. BP was not or negatively (-38-70%) influenced. A phylotype corresponding to a specific BC band was closely related to Acinetobacter oleivorans DR1. Thus, this experimental study confirms potential anthropogenic influences for the bacterial and viral community on aggregates in the Bay of Noumea

The functional importance of bacteriophages in the microbial loop of an oligomesotrophic lake over a diel cycle

The abundances of the different compartments of the microbial loop (i.e., viruses, heterotrophic bacteria, heterotrophic nanoflagellates, and pigmented nanoflagellates), total (TPP) and excreted (EPP) primary production, bacterial production (BP), viral lytic activity (LA), and bacterivory by nanoflagellates (FG) were measured on June 15 and 16, 1998, in a moderate-altitude oligomesotrophic lake (Lac Pavin, France), at 5 and 10 m depths. At both depths, losses of the bacterial community by viral lysis (LA5 m = 1.7 x 106 cells.1-1.h-1, LA10 m = 2.0 x 106 cells.1-1.h-1) were, on average, lower than those due to the grazing activity of flagellates (FG5 m = 10.3 x 106 cells.1-1.h-1 , FG10 m = 8.4 x 106 cells.1-1.h-1). A carbon budget exercise indicated that, for the sampling period and depths, 17.8 % of C from TPP (= 38.1 % of EPP) was used by bacteria. On the other hand, 52.7 % of BP (= 2.15 % of TPP) was grazed by nanoflagellates, while 11.0 % of BP (= 0.45 % of TPP) was lysed by viruses