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Chronic pulmonary aspergillosis involves the formation of a fungal ball (aspergilloma) in lung cavities. Pseudomonas aeruginosa commonly co-colonizes these lesions; however, the in vivo mechanisms underlying its persistence are unknown. Using a multi-omics approach on …
Read PDFProkaryotic taxonomy based on short 16S rRNA sequences may lead to an overestimation of microbial diversity. In addition, a lack of sufficient coverage of previously reported taxa may lead to repetition or overestimation of novel …
Read PDF<b>Background:</b><i>Stenotrophomonas maltophilia</i> is an increasingly important multidrug-resistant opportunistic pathogen frequently isolated from clinical, environmental, and plant-associated niches. Despite its medical relevance, the global population structure, species-complex boundaries, and genomic determinants of antimicrobial resistance (AMR) and …
Read PDFThree slow-growing rhizobial strains, designated as 1AS2L<sup>T</sup>, 1AS20L and 1AS5L, were isolated from nodules of <i>Acacia saligna</i> in Borj Cedria, northern Tunisia. These strains, which belong to the symbiovar cyanophyllae, were characterized using a polyphasic …
Read PDFThe rhizosphere microbiome is crucial for plant growth and stress resilience in sustainable horticulture. Here, we report the complete genome assembly and functional characterisation of Rhizobium anhuiense Xianghu001, a nitrogen-fixing symbiont isolated from pea (Pisum …
Read PDFEukaryotic diversity is largely microbial, with macroscopic lineages (plants, animals, and fungi) nesting among a plethora of diverse protists. Our understanding of the evolutionary relationships among eukaryotes is rapidly advancing through 'omics analyses, but phylogenomic …
Read PDFYeasts play a pivotal role in coffee fermentation, shaping microbial succession and contributing to the development of final flavor profiles. Despite their importance, yeast taxonomy in this context remains poorly resolved. Traditional classification methods often …
Read PDFThe translation of nucleotide sequences into amino acid sequences, governed by the genetic code, is one of the most conserved features of molecular biology. The standard genetic code, which uses 61 sense codons to encode …
Read PDF<h4>Background</h4>The aerial surface of plants, known as the phyllosphere, hosts a complex and dynamic microbiome that plays essential roles in plant health and environmental processes. While research has focused on root-associated microbiomes, the phyllosphere remains …
Read PDF<i>Mortierellaceae</i> are cosmopolitan, soil-inhabiting fungi that can be found in nearly all terrestrial habitat types and are therefore considered an essential part of the core soil microbiome. Many species of this family are known to …
Read PDFEndophytic bacteria from plants adapted to arid and semi-arid environments represent an underexplored reservoir of microbial diversity with potential agricultural applications. Here, we report a polyphasic taxonomic and genome-based characterization of <i>Achromobacter</i> sp. isolates recovered …
Read PDF<h4>Background</h4>The initial colonization of the infant gut is a complex process that defines the foundation for a healthy microbiome development. <i>Bifidobacterium longum</i> is one of the first colonizers of newborns' gut, playing a crucial role …
Read PDFUnknown ellipsoid bodies, later classified as apicomplexan cysts, are prevalent in the ovaries of Japanese sea cucumbers (Apostichopus japonicus), where they can lead to lower fecundity in infected individuals and adverse effects on wild populations …
Read PDFMethanogens are strictly anaerobic archaea capable of energy conservation by methane production, yet their presence in oxic and arid environments challenges existing paradigms. In this study, we enriched and genomically characterized seven methanogenic cultures from …
Read PDFBiogas production through the anaerobic digestion (AD) of organic waste plays a crucial role in promoting sustainability and closing the carbon cycle. Over the past decade, this has driven global research on biogas-producing microbiomes, leading …
Read PDF<i>Acacia saligna</i>, a leguminous plant known for its ability to thrive under challenging environmental conditions, plays an important role in bioremediation by enhancing soil fertility and facilitating pollutant degradation. In this study, three slow-growing rhizobial …
Read PDFA cyanobacterial strain isolated from Brazilian mangrove soil and classified as a member of the genus <i>Phormidium</i> was afterward affiliated to the genus <i>Oxynema</i>. To define the species of this <i>Oxynema</i> strain CENA135, we sequenced …
Read PDF<h4>Introduction</h4>Cyanobacteria form a morphologically and phylogenetically diverse group of oxygenic phototrophic bacteria inhabiting a wide range of environments, including extreme habitats such as hot springs and volcanic steam vents. Many lineages, particularly those from these …
Read PDFEarly-life oral microbiome development is a complex community assembly process that influences long-term health outcomes. Nevertheless, microbial functions and interactions driving these ecological processes remain poorly understood. In this study, we analyze oral microbiomes from …
Read PDFRapid and economical DNA sequencing has resulted in a revolution in phylogenomics. The impact of changes in nomenclature can be perceived as an absolute necessity of scientific rigour, coupled with the slight inconvenience of needing …
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