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Alterations to the community structure and function of the microbiome are associated with changes to host physiology, including immune responses. However, the contribution of microbe-derived RNAs carried by outer membrane vesicles (OMVs) to host immune …
Read PDF<h4>Background</h4>Colorectal cancer (CRC) is the second leading cause of cancer-related deaths, accounting for more than 900,000 deaths a year worldwide. Microbial dysbiosis, including the presence of oral bacteria in the gut, has been linked to …
Read PDFStudies of whole viral populations-the "virome"-are yielding exciting new insights into biological systems, but methods are still being optimized. Here, we describe generation and use of a synthetic viral community and its use to evaluate …
Read PDFThe CHAB-I-5 cluster is a pelagic lineage that can comprise a significant proportion of all Roseobacters in surface oceans and has predicted roles in biogeochemical cycling via heterotrophy, aerobic anoxygenic photosynthesis (AAnP), CO oxidation, DMSP …
Read PDFThe oral microbiota has an enormous impact on human health, with oral dysbiosis now linked to many oral and systemic diseases. Recent advancements in sequencing, mass spectrometry, bioinformatics, computational biology, and machine learning are revolutionizing …
Read PDFThree bacterial strains, 1AS14I<sup>T</sup>, 1AS12I and 6AS6, isolated from root nodules of <i>Acacia saligna</i>, were characterized using a polyphasic approach. Phylogenetic analysis based on <i>rrs</i> sequences placed all three strains within the <i>Rhizobium leguminosarum</i> complex. …
Read PDFProtists play important roles in nutrient cycling across ecosystems, yet the composition and function of their associated microbiomes remain poorly studied. Here, we use cultivation-independent single-cell isolation and genome-resolved metagenomics to investigate the microbiomes and …
Read PDFMicrobiome scientists critically need modern tools to explore and analyze microbial evolution. Often this involves studying the evolution of microbial genomes as a whole. However, different genes in a single genome can be subject to …
Read PDFMarine macroalgae-associated <i>Bacteroidota</i> play crucial roles in global carbon cycling through polysaccharide degradation, yet their taxonomic and functional diversity remains understudied. Here, we describe six novel species (strains 3-376<sup>T</sup>, 4-2040<sup>T</sup>, 2-473A<sup>T</sup>, 4-528<sup>T</sup>, 4-911<sup>T</sup> and 463<sup>T</sup>) …
Read PDFAlthough the 16S (and 18S) rRNA gene has been an essential tool in classifying prokaryotes, using a single locus to revise bacteria taxonomy can introduce unwanted artifacts. There was a recent proposition to split the …
Read PDFStrain PK034 was isolated from a municipal wastewater treatment plant in Stillwater, OK, USA. A comparison of 16S rRNA gene sequences revealed ≥99.4% sequence similarity to the type strains of <i>Macellibacteroides fermentans</i> (isolated from an …
Read PDFThe discovery of Asgard archaea about a decade ago has greatly reshaped our understanding of archaeal evolution and the origin of eukaryotes. Asgards are currently thought to be the closest prokaryotic relatives of eukaryotes and …
Read PDFDeception Island fumaroles in Antarctica represent rare environments where extreme heat intersects with cryospheric and marine conditions, creating remarkable environmental gradients. From the near-boiling sediments, we reconstructed a high-quality metagenome-assembled genome affiliated with the <i>Pyrodictiaceae</i>. …
Read PDFMangrove wetlands are ecologically and biogeochemically important "blue-carbon" ecosystems, yet long-term genomic resources for their microbial communities remain scarce. Here we present a seven-year (2017-2023) metagenomic dataset from the Futian Mangrove National Nature Reserve, China, …
Read PDFThis study systematically evaluated the taxonomic relationship between <i>Streptococcus taoyuanensis</i> ST2<sup>T</sup> and <i>Streptococcus caecimuris</i> CLAAV18<sup>T</sup>. Comparative genomic analysis revealed a high 16S rRNA gene sequence similarity of 99.6%, with the two strains clustering closely in …
Read PDFIn 2024, bacterial strains KXB24, KXB25 and KXB45 were isolated from sweet corn (<i>Zea mays</i> L.) plants exhibiting foliar chlorosis and streaking, typical symptoms of bacterial infection, in the Everglades Agricultural Area in Florida, USA. …
Read PDFHot springs are natural laboratories for studying microbial diversity, evolution, and adaptation to extreme environments. Despite their abundance across the Western US, information about the functional and genomic structure of inhabiting microbial communities is restricted …
Read PDFHeterotrophic nanoflagellates are the chief agents of bacterivory in the aquatic microbial loop but remain underrepresented in culture collections and in genomic databases. We isolated and characterized a representative of the previously uncultured freshwater Cryptomonad …
Read PDFLearning about the metabolic activities and adaptations of deep-sea microbes is challenging, as sample collection and retrieval often cause RNA degradation and microbial community shifts. Here, we employed an in situ DNA/RNA co-extraction device to …
Read PDFThe genus <i>Corynebacterium</i> is commonly isolated from camel uteri, yet it is rarely identified to the species level. During our routine clinical examination of she-camels brought to the hospital with history of reproductive and systemic …
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