Long-Read Metagenomics Improves the Recovery of Viral Diversity from Complex Natural Marine Samples.

The recovery of DNA from viromes is a major obstacle in the use of long-read sequencing to study their genomes. For this reason, the use of cellular metagenomes (>0.2-μm size range) emerges as an interesting complementary tool, since they contain large amounts of naturally amplified viral genomes from prelytic replication.

Ecological diversification reveals routes of pathogen emergence in endemic populations.

Pathogen emergence is a complex phenomenon that, despite its public health relevance, remains poorly understood. , an emergent human pathogen, can cause a deadly septicaemia with over 50% mortality rate. To date, the ecological drivers that lead to the emergence of clinical strains and the unique genetic traits that allow these clones to colonize the human host remain mostly unknown.

Dysbiosis in marine aquaculture revealed through microbiome analysis: reverse ecology for environmental sustainability.

The increasing demand for products for human consumption is leading to the fast-growing expansion of numerous food sectors such as marine aquaculture (mariculture). However, excessive input of nutrients and pollutants modifies marine ecosystems. Here, we applied a metagenomic approach to investigate these perturbations in samples from marine farms of gilthead seabream cultures.

Metagenome Mining Reveals Hidden Genomic Diversity of Pelagimyophages in Aquatic Environments.

The SAR11 clade is one of the most abundant bacterioplankton groups in surface waters of most of the oceans and lakes. However, only 15 SAR11 phages have been isolated thus far, and only one of them belongs to the family (pelagimyophages). Here, we have analyzed 26 sequences of myophages that putatively infect the SAR11 clade.

Evolutionary Model of Cluster Divergence of the Emergent Marine Pathogen : From Genotype to Ecotype.

, an opportunistic pathogen, is the causative agent of a life-threatening septicemia and a rising problem for aquaculture worldwide. The genetic factors that differentiate its clinical and environmental strains remain enigmatic. Furthermore, clinical strains have emerged from every clade of In this work, we investigated the underlying genomic properties and population dynamics of the species from an evolutionary and ecological point of view.