Publications by authors named "Felipe Hernandes Coutinho"
Aquifers have significant social, economic, and ecological importance. They supply 30 % of the freshwater for human consumption worldwide, including agricultural and industrial use. Despite aquifers' importance, the relationships between aquifer categories and their inhabiting microbial communities are still unknown.
View Article and Find Full Text PDFThe host range of bacteriophages defines their impact on bacterial communities and genome diversity. Here, we characterize 94 novel staphylococcal phages from wastewater and establish their host range on a diversified panel of 117 staphylococci from 29 species. Using this high-resolution phage-bacteria interaction matrix, we unveil a multi-species host range as a dominant trait of the isolated staphylococcal phages.
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- A new machine-learning tool called RaFAH was developed to predict which prokaryotic hosts (Archaea and Bacteria) viruses might infect by analyzing protein clusters from their genomes.
- RaFAH showed similar effectiveness to existing methods in identifying virus-host relationships across various genomic datasets, including metagenomes and single amplified genomes.
- The application of RaFAH revealed 537 previously unidentified archaeal virus sequences, suggesting new viral lineages and providing insights into how these viruses may interact with their hosts' cellular processes.
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.
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- The SAR11 clade is the most prevalent group of planktonic cells in ocean waters, yet the reasons for its success are not fully understood.
- This study used a metagenomic approach to analyze genetic variation in SAR11 populations from different aquatic environments, revealing patterns of mutation accumulation and recombination.
- Results showed SAR11 populations maintain genetic stability through widespread recombination and high genetic diversity, contrasting with other marine microbes that exhibit different evolutionary dynamics.
Article Synopsis
- The study explores the evolutionary dynamics between viruses and bacteria in marine environments, specifically through analyzing metagenomes from Mediterranean seawater at various depths.
- Researchers found that viral genetic diversity varied significantly with depth, linked to factors like energy availability and host abundance, influencing how viruses adapt and evolve.
- The findings suggest that in nutrient-rich surface waters, selection emphasizes diversity for better host interaction, while in nutrient-poor deeper waters, the focus shifts to enhancing viral replication efficiency.
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- A multi-resistant strain of Vibrio parahaemolyticus was found in a tropical estuary in Rio de Janeiro, Brazil.
- Genome sequencing was performed to understand the genetic reasons behind its antibiotic resistance.
- The analysis showed that while this strain is not harmful (non-virulent), it has multiple genes that contribute to its resistance to antibiotics.
Article Synopsis
- - Advances in omics-based techniques have transformed our understanding of marine microorganisms, including archaea and bacteria, along with their viruses, by using genomics, metagenomics, and ecogenomics to study their ecology.
- - The review highlights three key areas: the unique roles of microbes in ecosystems, interactions between viruses and their hosts, and the relationships between microeukaryotes and other microorganisms.
- - The paper also touches on the discovery of new marine taxa, the need for a solid classification system for prokaryotes, progress in understanding cyanobacteria diversity, and improvements in ecological modeling, while also noting existing challenges and future research directions.