Thyasirid species composition (Bivalvia: Thyasiridae) and genetic connectivity of Parathyasira equalis (A. E. Verrill & K. J. Bush, 1898) in deep basins of sub-Arctic fjords.

Background: Thyasirid bivalves are often recorded as a dominant component of macrobenthic infaunal communities in depositional environments such as fjord basins. Fjord basins comprise patchy soft-bottom habitats bounded by steep walls and sills; however, little is known how this semi-isolated nature of fjords affects benthic populations. Accordingly, data on the composition and population connectivity of thyasirids can provide valuable information on the ecology of these ecosystems.

gene family expansion underpins adaptation to diverse hosts and environments in symbiotic sulfide oxidizers.

Sulfur-oxidizing bacteria (SOB) have developed distinct ecological strategies to obtain reduced sulfur compounds for growth. These range from specialists that can only use a limited range of reduced sulfur compounds to generalists that can use many different forms as electron donors. Forming intimate symbioses with animal hosts is another highly successful ecological strategy for SOB, as animals, through their behavior and physiology, can enable access to sulfur compounds.

Descriptive analyses of bacterial communities in marine sediment microcosms spiked with fish wastes, emamectin benzoate, and oxytetracycline.

In marine sediments surrounding salmon aquaculture sites, organic matter (OM) enrichment has been shown to influence resident bacterial community composition; however, additional effects on these communities due to combined use of the sea-lice therapeutant emamectin benzoate (EMB) and the widely used antibiotic oxytetracycline (OTC) are unknown. Here, we use sediment microcosms to assess the influence of OM, EMB, and OTC on benthic bacterial communities. Microcosms consisted of mud or sand sediments enriched with OM (fish and feed wastes) and spiked with EMB and OTC at environmentally-relevant concentrations.

Resource and seasonality drive interspecific variability in simulations from a dynamic energy budget model.

Animals show a vast array of phenotypic traits in time and space. Such variation patterns have traditionally been described as ecogeographical rules; for example, the tendency of size and clutch size to increase with latitude (Bergmann's and Lack's rules, respectively). Despite considerable research into these variation patterns and their consequences for biodiversity and conservation, the processes behind trait variation remain controversial.

Novel Divergent Members of the Discovered through Metagenomics in the Intestinal Contents of Red-Backed Voles ().

Metagenomic methods are powerful tools to investigate viral diversity in biological or environmental samples and to identify previously unknown viruses. We used RNA metagenomics to identify, in the gut of red-backed voles, the nearly complete genomes of two novel members of the , a phylum including viruses with positive-sense ssRNA genomes encoding an RNA-directed RNA polymerase. The genome of a novel member of the presented four open reading frames (ORFs); a -1 frameshift is potentially involved in generating the viral replicase.

A novel calicivirus discovered in trumpeter swans () expands the richness of known avian caliciviruses.

Caliciviruses are ssRNA viruses that can infect a wide range of hosts, including birds. While several avian caliciviruses have been discovered, their taxonomy and host distribution are largely unknown. We molecularly characterized a novel calicivirus (trumpeter swan calicivirus: TruSCV) in trumpeter swans over-wintering in south-west British Columbia, Canada.

Distinct epidemiological profiles of porcine circovirus 3 and fox circovirus in Canadian foxes ( spp.).

Circoviruses (genus , family ) are ssDNA viruses that infect mammals, and they sometimes can transmit among different species. We investigated the distribution and diversity of porcine circovirus 3 (PCV-3, species ) and fox circovirus (species ) in different populations of foxes ( spp.) inhabiting the Canadian province of Newfoundland and Labrador to compare their epidemiological profiles.

A Novel Iridovirus Discovered in Deep-Sea Carnivorous Sponges.

Carnivorous sponges (family Cladorhizidae) use small invertebrates as their main source of nutrients. We discovered a novel iridovirus (carnivorous sponge-associated iridovirus, CaSpA-IV) in and specimens collected in the Arctic and Atlantic oceans at depths of 537-852 m. The sequenced viral genome (~190,000 bp) comprised 185 predicted ORFs, including those encoding 26 iridoviral core proteins, and phylogenetic analyses showed that CaSpA-IV is a close relative to members of the genus and highly identical to a partially sequenced virus pathogenic to decapod shrimps.

Newlavirus, a Novel, Highly Prevalent, and Highly Diverse Protoparvovirus of Foxes ( spp.).

The genus (family ) includes several viruses of carnivores. We describe a novel fox protoparvovirus, which we named Newlavirus as it was discovered in samples from Newfoundland and Labrador, Canada. Analysis of the full non-structural protein (NS1) sequence indicates that this virus is a previously uncharacterized species.

The role of symbiosis in the first colonization of the seafloor by macrobiota: Insights from the oldest Ediacaran biota (Newfoundland, Canada).

The earliest record of animal life comes from the Ediacaran of Newfoundland, including dm scale fossil organisms, most of which are inferred to have been epibenthic immotile eumetazoans. This work introduces the palaeobiology of the major fossil groups in the Newfoundland assemblages including strange fractal-like taxa and addresses some of biogeochemical challenges such as sulfide buildup that could most easily have been overcome by symbiogenesis. Specifically, the epibenthic reclining nature of some of the Ediacaran biota-with their fractal-like high surface area lower surfaces-are considered to have been well designed for gaining nutriment from chemosynthetic, sulfur-oxidizing bacteria.

Investigating the Diversity and Host Range of Novel Parvoviruses from North American Ducks Using Epidemiology, Phylogenetics, Genome Structure, and Codon Usage Analysis.

Parvoviruses are small single-stranded DNA viruses that can infect both vertebrates and invertebrates. We report here the full characterization of novel viruses we identified in ducks, including two viral species within the subfamily (duck-associated chapparvovirus, DAC) and a novel species within the subfamily (duck-associated ambidensovirus, DAAD). Overall, 5.

Metagenomic analysis suggests broad metabolic potential in extracellular symbionts of the bivalve Thyasira cf. gouldi.

Background: Next-generation sequencing has opened new avenues for studying metabolic capabilities of bacteria that cannot be cultured. Here, we provide a metagenomic description of chemoautotrophic gammaproteobacterial symbionts associated with Thyasira cf. gouldi, a sediment-dwelling bivalve from the family Thyasiridae.

Temporal Bacterial Surveillance of Salmon Aquaculture Sites Indicates a Long Lasting Benthic Impact With Minimal Recovery.

Coastal aquaculture has experienced substantial growth in the last few decades and associated impacts on natural environments are of increasing importance. Understanding both the effects of aquaculture on marine ecosystems and the processes of recovery during fallowing periods is crucial for the development of a more environmentally sustainable industry. Because bacteria are sensitive to environmental change, surveying fluctuations in bacterial communities is a promising tool for monitoring the status of benthic environments.

ViDiT-CACTUS: an inexpensive and versatile library preparation and sequence analysis method for virus discovery and other microbiology applications.

High-throughput sequencing (HTS) technologies are becoming increasingly important within microbiology research, but aspects of library preparation, such as high cost per sample or strict input requirements, make HTS difficult to implement in some niche applications and for research groups on a budget. To answer these necessities, we developed ViDiT, a customizable, PCR-based, extremely low-cost (less than US$5 per sample), and versatile library preparation method, and CACTUS, an analysis pipeline designed to rely on cloud computing power to generate high-quality data from ViDiT-based experiments without the need of expensive servers. We demonstrate here the versatility and utility of these methods within three fields of microbiology: virus discovery, amplicon-based viral genome sequencing, and microbiome profiling.

The bivalve cf. hosts chemoautotrophic symbiont populations with strain level diversity.

Invertebrates from various marine habitats form nutritional symbioses with chemosynthetic bacteria. In chemosynthetic symbioses, both the mode of symbiont transmission and the site of bacterial housing can affect the composition of the symbiont population. Vertically transmitted symbionts, as well as those hosted intracellularly, are more likely to form clonal populations within their host.

Coronafacoyl Phytotoxin Biosynthesis and Evolution in the Common Scab Pathogen Streptomyces scabiei.

Coronafacoyl phytotoxins are an important family of plant toxins that are produced by several different phytopathogenic bacteria, including the gammaproteobacterium and the actinobacterium (formerly ). The phytotoxins consist of coronafacic acid (CFA) linked via an amide bond to different amino acids or amino acid derivatives. Previous work suggested that and use distinct biosynthetic pathways for producing CFA, which is subsequently linked to its amino acid partner to form the complete phytotoxin.

Microbiome analysis shows enrichment for specific bacteria in separate anatomical regions of the deep-sea carnivorous sponge Chondrocladia grandis.

The Cladorhizidae is a unique family of carnivorous marine sponges characterised by either the absence or reduction of the aquiferous system and by the presence of specialised structures to trap and digest mesoplanktonic prey. Previous studies have postulated a key role of host-associated bacteria in enabling carnivory in this family of sponges. In this study, we employed high-throughput Illumina-based sequencing to identify the bacterial community associated with four individuals of the deep-sea sponge Chondrocladia grandis sampled in the Gulf of Maine.

The usage of visual indicators in regulatory monitoring at hard-bottom finfish aquaculture sites in Newfoundland (Canada).

Finfish aquaculture can be installed over hard and patchy substrates where grab sampling is challenging and use of video can be an appropriate tool to document benthic changes. Video monitoring can show visual indicators of enrichment, namely flocculent matter, Beggiatoa-like mats, and opportunistic polychaete complexes (OPC). We examined factors influencing presence of indicators using 52 video monitoring reports collected in Newfoundland, Canada.

Lipid Classes and Fatty Acids in Ophryotrocha cyclops, a Dorvilleid from Newfoundland Aquaculture Sites.

A new opportunistic annelid (Ophryotrocha cyclops) discovered on benthic substrates underneath finfish aquaculture sites in Newfoundland (NL) may be involved in the remediation of organic wastes. At those aquaculture sites, bacterial mats and O. cyclops often coexist and are used as indicators of organic enrichment.

A new annelid species from whalebones in Greenland and aquaculture sites in Newfoundland: Ophryotrocha cyclops, sp. nov. (Eunicida: Dorvilleidae).

A new species of Ophryotrocha was discovered on whalebones in Greenland (120 m depth) and at finfish aquaculture sites in Newfoundland (30-70 m depth), where it is considered to be a bioindicator of aquaculture-related organic enrichment. Phylogenetic analyses based on three genes (COI, 16S mitochondrial and H3 nuclear genes) show close affinities with O. lobifera and O.

Magnetosome-containing bacteria living as symbionts of bivalves.

Bacteria containing magnetosomes (protein-bound nanoparticles of magnetite or greigite) are common to many sedimentary habitats, but have never been found before to live within another organism. Here, we show that octahedral inclusions in the extracellular symbionts of the marine bivalve Thyasira cf. gouldi contain iron, can exhibit magnetic contrast and are most likely magnetosomes.

Divergent chemosymbiosis-related characters in Thyasira cf. gouldi (Bivalvia: Thyasiridae).

Within the marine bivalve family Thyasiridae, some species have bacterial chemosymbionts associated with gill epithelial cells while other species are asymbiotic. Although the abundance of symbionts in a particular thyasirid species may vary, the structure of their gills (i.e.