Whole genome sequencing for the risk assessment of probiotic lactic acid bacteria

X Peng, A Ed-Dra, M Yue - Critical Reviews in Food Science and …, 2023 - Taylor & Francis
Probiotic bacteria exhibit beneficial effects on human and/or animal health, and have been
widely used in foods and fermented products for decades. Most probiotics consist of lactic …

Microbial genomic island discovery, visualization and analysis

C Bertelli, KE Tilley, FSL Brinkman - Briefings in bioinformatics, 2019 - academic.oup.com
Horizontal gene transfer (also called lateral gene transfer) is a major mechanism for
microbial genome evolution, enabling rapid adaptation and survival in specific niches …

[HTML][HTML] Host genetic regulation of human gut microbial structural variation

DV Zhernakova, D Wang, L Liu, S Andreu-Sánchez… - Nature, 2024 - nature.com
Although the impact of host genetics on gut microbial diversity and the abundance of specific
taxa is well established,,,,–, little is known about how host genetics regulates the genetic …

Metagenome-assembled genome binning methods with short reads disproportionately fail for plasmids and genomic islands

F Maguire, B Jia, KL Gray, WYV Lau… - Microbial …, 2020 - microbiologyresearch.org
Metagenomic methods enable the simultaneous characterization of microbial communities
without time-consuming and bias-inducing culturing. Metagenome-assembled genome …

Symbiotic bacteria confer insecticide resistance by metabolizing buprofezin in the brown planthopper, Nilaparvata lugens (Stål)

B Zeng, F Zhang, YT Liu, SF Wu, C Bass… - Plos …, 2023 - journals.plos.org
Buprofezin, a chitin synthesis inhibitor, is widely used to control several economically
important insect crop pests. However, the overuse of buprofezin has led to the evolution of …

Enabling genomic island prediction and comparison in multiple genomes to investigate bacterial evolution and outbreaks

C Bertelli, KL Gray, N Woods, AC Lim… - Microbial …, 2022 - microbiologyresearch.org
Outbreaks of virulent and/or drug-resistant bacteria have a significant impact on human
health and major economic consequences. Genomic islands (GIs; defined as clusters of …

Isolation, identification, and whole-genome sequencing of high-yield protease bacteria from Daqu of ZhangGong Laojiu

Y Liu, J Fu, L Wang, Z Zhao, H Wang, S Han, X Sun… - PLoS …, 2022 - journals.plos.org
A total of 296 strains of protease-producing bacteria were isolated and purified from medium-
temperature Daqu produced by ZhangGong LaoJiu Wine Co. Ltd. After calculating the ratio …

Genomic characterisation of an international Pseudomonas aeruginosa reference panel indicates that the two major groups draw upon distinct mobile gene pools

L Freschi, C Bertelli, J Jeukens… - FEMS microbiology …, 2018 - academic.oup.com
Pseudomonas aeruginosa is an important opportunistic pathogen, especially in the context
of infections of cystic fibrosis (CF). In order to facilitate coordinated study of this pathogen, an …

The man, the plant, and the insect: shooting host specificity determinants in Serratia marcescens pangenome

AE Shikov, AV Merkushova, IA Savina… - Frontiers in …, 2023 - frontiersin.org
Introduction Serratia marcescens is most commonly known as an opportunistic pathogen
causing nosocomial infections. It, however, was shown to infect a wide range of hosts apart …

Detailed genomic and biochemical characterization and plant growth promoting properties of an arsenic-tolerant isolate of Bacillus pacificus from contaminated …

A Kabiraj, U Halder, AS Panja, A Chitikineni… - Biocatalysis and …, 2023 - Elsevier
In this study, arsenic tolerating bacteria Bacillus pacificus (AKS1a) was isolated from arsenic
contaminated groundwater of Purbasthali, Purba Bardhaman, West Bengal, India and its …