4.6 Article

Anaerobiosis, a neglected factor in phage-bacteria interactions

相关参考文献

注意:仅列出部分参考文献,下载原文获取全部文献信息。
Review Biochemistry & Molecular Biology

Microbial and Genetic Resources for Cobalamin (Vitamin B12) Biosynthesis: From Ecosystems to Industrial Biotechnology

Larissa Balabanova et al.

Summary: The biosynthesis of vitamin B12 has been successfully studied and applied in natural ecosystems and industrial production, utilizing microbial and genetic resources. Metabolic engineering techniques and renewable resources have improved the bioprocess of vitamins, benefiting both economics and environment. Commercial production mainly relies on two industrial strains, but there are still unresolved issues in biosynthesis that need clarification for future improvements.

INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES (2021)

Article Virology

Host cell volume explains differences in the size of DsDNA viruses

Lauren A. Holian et al.

Summary: There is a relationship between genome size of diverse dsDNA viruses and their hosts, as well as between virus volume and host cell volume. The findings suggest that the size and number of dsDNA viruses produced by a particular host may be constrained by the volume of the infected host cell, which can impact virus-host population dynamics and host specificity.

VIRUS RESEARCH (2021)

Article Microbiology

Novel Siphoviridae Bacteriophages Infecting Bacteroides uniformis Contain Diversity Generating Retroelement

Stina Hedzet et al.

Summary: The isolated Bacuni phages belong to a novel viral genus and their genomes encode diversity-generating retroelements, potentially aiding in adaptation to changing environmental conditions and expanding host range.

MICROORGANISMS (2021)

Review Microbiology

Biological Functions of Type II Toxin-Antitoxin Systems in Bacteria

Muhammad Kamruzzaman et al.

Summary: TA systems, commonly found in bacterial chromosomes and MGEs, play important roles in maintaining genetic material and regulating bacterial physiology, although there are still controversies surrounding their functions.

MICROORGANISMS (2021)

Article Genetics & Heredity

PHROG: families of prokaryotic virus proteins clustered using remote homology

Paul Terzian et al.

Summary: Viruses exhibit high diversity, and the PHROG library, generated using a new clustering approach, proves to be a valuable tool in annotating and understanding the diversity of viral genomes. This will aid the scientific community in exploring the evolution and ecology of viruses.

NAR GENOMICS AND BIOINFORMATICS (2021)

Article Biochemistry & Molecular Biology

eggNOG-mapper v2: Functional Annotation, Orthology Assignments, and Domain Prediction at the Metagenomic Scale

Carlos P. Cantalapiedra et al.

Summary: The article introduces a major upgrade of the eggNOG-mapper tool, optimized for functional annotation of vast genomic and metagenomic datasets, including database updates, efficiency enhancements, and new features such as de novo gene prediction and fast protein domain discovery.

MOLECULAR BIOLOGY AND EVOLUTION (2021)

Article Multidisciplinary Sciences

Sustainability of spatially distributed bacteria-phage systems

Rasmus Skytte Eriksen et al.

SCIENTIFIC REPORTS (2020)

Review Microbiology

A Primary Physiological Role of Toxin/Antitoxin Systems Is Phage Inhibition

Sooyeon Song et al.

FRONTIERS IN MICROBIOLOGY (2020)

Review Virology

Phages in Anaerobic Systems

Santiago Hernandez et al.

VIRUSES-BASEL (2020)

Article Agriculture, Dairy & Animal Science

Phage cocktail SalmoFREE® reduces Salmonella on a commercial broiler farm

V. Clavijo et al.

POULTRY SCIENCE (2019)

Review Virology

Understanding and Exploiting Phage-Host Interactions

Edel Stone et al.

VIRUSES-BASEL (2019)

Article Multidisciplinary Sciences

Phi CrAss001 represents the most abundant bacteriophage family in the human gut and infects Bacteroides intestinalis

Andrey N. Shkoporov et al.

NATURE COMMUNICATIONS (2018)

Letter Biotechnology & Applied Microbiology

MMseqs2 enables sensitive protein sequence searching for the analysis of massive data sets

Martin Steinegger et al.

NATURE BIOTECHNOLOGY (2017)

Review Microbiology

Menage a trois in the human gut: interactions between host, bacteria and phages

Mohammadali Khan Mirzaei et al.

NATURE REVIEWS MICROBIOLOGY (2017)

Article Biochemical Research Methods

Optimized semi-quantitative blot analysis in infection assays using the Stain-Free technology

Anna F. Zeitler et al.

JOURNAL OF MICROBIOLOGICAL METHODS (2016)

Article Genetics & Heredity

SNP-sites: rapid efficient extraction of SNPs from multi-FASTA alignments

Andrew J. Page et al.

MICROBIAL GENOMICS (2016)

Article Biochemical Research Methods

HTSeq-a Python framework to work with high-throughput sequencing data

Simon Anders et al.

BIOINFORMATICS (2015)

Article Biochemical Research Methods

Trimmomatic: a flexible trimmer for Illumina sequence data

Anthony M. Bolger et al.

BIOINFORMATICS (2014)

Review Cell Biology

Vitamin B12 as a Modulator of Gut Microbial Ecology

Patrick H. Degnan et al.

CELL METABOLISM (2014)

Article Microbiology

Clostridium difficile phages: Still difficult?

Katherine R. Hargreaves et al.

FRONTIERS IN MICROBIOLOGY (2014)

Review Microbiology

Environmental bacteriophages: viruses of microbes in aquatic ecosystems

Telesphore Sime-Ngando

FRONTIERS IN MICROBIOLOGY (2014)

Article Biotechnology & Applied Microbiology

Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2

Michael I. Love et al.

GENOME BIOLOGY (2014)

Article Biochemical Research Methods

STAR: ultrafast universal RNA-seq aligner

Alexander Dobin et al.

BIOINFORMATICS (2013)

Article Agriculture, Dairy & Animal Science

Bacterial census of poultry intestinal microbiome

S. Wei et al.

POULTRY SCIENCE (2013)

Article Gastroenterology & Hepatology

Movers and shakers Influence of bacteriophages in shaping the mammalian gut microbiota

Susan Mills et al.

GUT MICROBES (2013)

Article Biotechnology & Applied Microbiology

A Novel Restriction-Modification System Is Responsible for Temperature-Dependent Phage Resistance in Listeria monocytogenes ECII

Jae-Won Kim et al.

APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2012)

Review Biochemistry & Molecular Biology

Cell Size Control in Bacteria

An-Chun Chien et al.

CURRENT BIOLOGY (2012)

Article Multidisciplinary Sciences

Intestinal inflammation allows Salmonella to use ethanolamine to compete with the microbiota

Parameth Thiennimitr et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2011)

Review Biochemistry & Molecular Biology

Acetogenesis and the Wood-Ljungdahl pathway of CO2 fixation

Stephen W. Ragsdale et al.

BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS (2008)

Article Multidisciplinary Sciences

Determination of cell fate selection during phage lambda infection

Francois St-Pierre et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2008)

Review Multidisciplinary Sciences

The microbial engines that drive Earth's biogeochemical cycles

Paul G. Falkowski et al.

SCIENCE (2008)

Article Biochemical Research Methods

TASSEL: software for association mapping of complex traits in diverse samples

Peter J. Bradbury et al.

BIOINFORMATICS (2007)

Article Microbiology

Recovery of temperate Desulfovibrio vulgaris bacteriophage using a novel host strain

Christopher B. Walker et al.

ENVIRONMENTAL MICROBIOLOGY (2006)

Article Biochemical Research Methods

MUSCLE: a multiple sequence alignment method with reduced time and space complexity

RC Edgar

BMC BIOINFORMATICS (2004)

Article Biochemistry & Molecular Biology

Comparative Genomics of the vitamin B12 metabolism and regulation in prokaryotes

DA Rodionov et al.

JOURNAL OF BIOLOGICAL CHEMISTRY (2003)