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Niche Partitioning and Intraspecific Variation of Thaumarchaeota in Deep Ocean Sediments.
Environ Microbiol
January 2025
Frontiers Science Center for Deep Ocean Multispheres and Earth System, and College of Marine Life Sciences, Ocean University of China, Qingdao, China.
Deep-sea sediments contain a large number of Thaumarchaeota that are phylogenetically distinct from their pelagic counterparts. However, their ecology and evolutionary adaptations are not well understood. Metagenomic analyses were conducted on samples from various depths of a 750-cm sediment core collected from the Mariana Trench Challenger Deep.
View Article and Find Full Text PDFComplete Mitochondrial Genomes of and with Phylogenetic Analysis of Charadriiformes.
Genes (Basel)
December 2024
Shaanxi Key Laboratory of Qinling Ecological Security, Shaanxi Institute of Zoology, Xi'an 710032, China.
Background: Plovers (Charadriidae), within the order of Charadriiformes, a group of modern birds distributed worldwide, are a frequent subject of molecular phylogenetic studies. While research on mitochondrial genome (mitogenome) variation within the family Charadriidae, especially intraspecific variation, is limited. Additionally, the monophyly of and the phylogenetic placement of remain contentious.
View Article and Find Full Text PDFComparative Evolutionary Genomics Reveals Genetic Diversity and Differentiation in .
Genes (Basel)
November 2024
Division of Anaerobe Research, Life Science Research Center, Gifu University, Gifu City 501-1194, Gifu, Japan.
Background/objectives: is the pathogenic anaerobe most commonly isolated from intra-abdominal infections, abscesses, and blood. Despite its clinical importance, research on its pan-genome-scale evolution is still limited.
Methods: Herein, we analyzed the pan-genome architecture of 374 strains to explore their intra-species genomic diversity and evolutionary patterns.
Comparative genome analysis of microbial strains marketed for probiotic interventions: an extension of the Integrated Probiotic Database.
Microbiome Res Rep
September 2024
Laboratory of Probiogenomics, Department of Chemistry, Life Sciences, and Environmental Sustainability University of Parma, Parma 43124, Italy.
Members of the genus and lactobacilli are the most commonly used probiotics to promote human health. In this context, genome-based analyses have been demonstrated as a fast and reliable tool for identifying and characterizing health-promoting activities imputed to probiotics. This study is an extension of the Integrated Probiotic Database (IPDB) previously created on probiotics of the genus , facilitating a comprehensive understanding of the genetic characteristics that contribute to the diverse spectrum of beneficial effects of probiotics.
View Article and Find Full Text PDFIntraspecies Variation Offers Potential to Improve White Rot Fungi for Increasing Degradability of Lignocellulose for Ruminants.
J Fungi (Basel)
December 2024
Plant Breeding, Wageningen University & Research, 6708 PB Wageningen, The Netherlands.
The aim of fungal treatment of organic matter for ruminants is the improvement of its degradability. So far, such treatment appears to be time-consuming and improvement has been modest. In previous work, we observed within three white rot species that there is modest () or low ( and ) variation in fiber degradation in wheat straw during seven weeks of incubation.
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