Genome-resolved metagenomics: a game changer for microbiome medicine

N Kim, J Ma, W Kim, J Kim, P Belenky… - Experimental & Molecular …, 2024 - nature.com
Recent substantial evidence implicating commensal bacteria in human diseases has given
rise to a new domain in biomedical research: microbiome medicine. This emerging field …

Population genomics meets the taxonomy of cyanobacteria

P Dvořák, E Jahodářová, A Stanojković, S Skoupý… - Algal Research, 2023 - Elsevier
The emergence of cyanobacterial species (speciation) is driven by mutation, selection, gene
flow, and geographical and ecological isolation. Population genomics explores the process …

Building a genome-based understanding of bacterial pH preferences

J Ramoneda, E Stallard-Olivera, M Hoffert… - Science …, 2023 - science.org
The environmental preferences of many microbes remain undetermined. This is the case for
bacterial pH preferences, which can be difficult to predict a priori despite the importance of …

Response surface methodology as a statistical tool for optimization and FAME profile by GC-MS for assessing microalgae Scenedesmus quadricauda as a potential …

AS Kirrolia, NR Bishnoi, A Kumar… - Journal of the Taiwan …, 2025 - Elsevier
Background Scenedesmus quadricauda isolates were tested for growth kinetics and lipid
accumulation capability. Scenedesmus quadricauda revealed greater potential as a biofuel …

Accurately clustering biological sequences in linear time by relatedness sorting

E Wright - Nature Communications, 2024 - nature.com
Clustering biological sequences into similar groups is an increasingly important task as the
number of available sequences continues to grow exponentially. Search-based approaches …

The overlooked evolutionary dynamics of 16S rRNA revises its role as the “gold standard” for bacterial species identification

O Bartoš, M Chmel, I Swierczková - Scientific Reports, 2024 - nature.com
The role of 16S rRNA has been and largely remains crucial for the identification of microbial
organisms. Although 16S rRNA could certainly be described as one of the most studied …

Insights into prokaryotic metataxonomics and predictive metabolic function in field-scale anaerobic digesters treating various organic wastes

HH Kim, B Basak, DY Lee, WJ Chung… - … and Sustainable Energy …, 2023 - Elsevier
The operational temperature and nature of the substrates are two critical parameters in
shaping the functional microbiota and determining the biogas productivity of field-scale …

AMRomics: a scalable workflow to analyze large microbial genome collections

DQ Le, TT Nguyen, CH Nguyen, TH Ho, NS Vo… - BMC genomics, 2024 - Springer
Whole genome analysis for microbial genomics is critical to studying and monitoring
antimicrobial resistance strains. The exponential growth of microbial sequencing data …

Short-term dietary fiber interventions produce consistent gut microbiome responses across studies

CI Rodriguez, K Isobe, JBH Martiny - Msystems, 2024 - Am Soc Microbiol
The composition of the human gut microbiome varies tremendously among individuals,
making the effects of dietary or treatment interventions difficult to detect and characterize …

Potential role of intratumor bacteria outside the gastrointestinal tract: More than passengers

Z Liu, LL Hong, ZQ Ling - Cancer Medicine, 2023 - Wiley Online Library
Introduction Tumor‐associated bacteria and gut microbiota have gained significant attention
in recent years due to their potential role in cancer development and therapeutic response …