[HTML][HTML] Current methods for recombination detection in bacteria

AE Shikov, YV Malovichko, AA Nizhnikov… - International Journal of …, 2022 - mdpi.com
The role of genetic exchanges, ie, homologous recombination (HR) and horizontal gene
transfer (HGT), in bacteria cannot be overestimated for it is a pivotal mechanism leading to …

Probiotics and commensal bacteria metabolites trigger epigenetic changes in the gut and influence beneficial mood dispositions

L Vitetta, M Bambling, E Strodl - Microorganisms, 2023 - mdpi.com
The effect of the intestinal microbiome on the gut–brain axis has received considerable
attention, strengthening the evidence that intestinal bacteria influence emotions and …

Whole-genome sequences from wild-type and laboratory-evolved strains define the alleleome and establish its hallmarks

EA Catoiu, P Phaneuf, J Monk, BO Palsson - Proceedings of the National …, 2023 - pnas.org
The genomic diversity across strains of a species forms the genetic basis for differences in
their behavior. A large-scale assessment of sequence variation has been made possible by …

Comparative pangenomics: analysis of 12 microbial pathogen pangenomes reveals conserved global structures of genetic and functional diversity

JC Hyun, JM Monk, BO Palsson - BMC genomics, 2022 - Springer
Background With the exponential growth of publicly available genome sequences,
pangenome analyses have provided increasingly complete pictures of genetic diversity for …

Gene flow and introgression are pervasive forces sha** the evolution of bacterial species

A Diop, EL Torrance, CM Stott, LM Bobay - Genome Biology, 2022 - Springer
Background Although originally thought to evolve clonally, studies have revealed that most
bacteria exchange DNA. However, it remains unclear to what extent gene flow shapes the …

Population genomics and morphological data bridge the centuries of cyanobacterial taxonomy along the continuum of Microcoleus species

S Skoupý, A Stanojković, DA Casamatta, C McGovern… - Iscience, 2024 - cell.com
The filamentous cyanobacterium Microcoleus is among the most important global primary
producers, especially in hot and cold desert ecosystems. This taxon represents a continuum …

Microevolution, speciation and macroevolution in rhizobia: genomic mechanisms and selective patterns

NA Provorov, EE Andronov, AK Kimeklis… - Frontiers in Plant …, 2022 - frontiersin.org
Nodule bacteria (rhizobia), N2-fixing symbionts of leguminous plants, represent an excellent
model to study the fundamental issues of evolutionary biology, including the tradeoff …

In vivo, in vitro and in silico: an open space for the development of microbe‐based applications of synthetic biology

A Danchin - Microbial Biotechnology, 2022 - Wiley Online Library
Living systems are studied using three complementary approaches: living cells, cell‐free
systems and computer‐mediated modelling. Progresses in understanding, allowing …

New Insights on Metabolic Features of Bacillus subtilis Based on Multistrain Genome-Scale Metabolic Modeling

B Blázquez, D San León, A Rojas, M Tortajada… - International Journal of …, 2023 - mdpi.com
Bacillus subtilis is an effective workhorse for the production of many industrial products. The
high interest aroused by B. subtilis has guided a large metabolic modeling effort of this …

Systems biology approach to functionally assess the Clostridioides difficile pangenome reveals genetic diversity with discriminatory power

CJ Norsigian, HA Danhof, CK Brand, FS Midani… - Proceedings of the …, 2022 - pnas.org
Combatting Clostridioides difficile infections, a dominant cause of hospital-associated
infections with incidence and resulting deaths increasing worldwide, is complicated by the …