Comparative genomics reveals the organic acid biosynthesis metabolic pathways among five lactic acid bacterial species isolated from fermented vegetables

Niche-Specific Adaptive Evolution of Lactobacillus plantarum Strains Isolated From Human Feces and Paocai

(2021) Qiqi Pan et al.   Frontiers in Cellular and Infection Microbiology

Efficient Production of Pyruvate Using Metabolically Engineered Lactococcus lactis

(2021) Fan Suo et al.   Frontiers in Bioengineering and Biotechnology

Comparative Genomic Analysis of Lactiplantibacillus plantarum Isolated from Different Niches

(2021) Bingyong Mao et al.   Genes

Comparative genomics analysis of two banana Fusarium wilt biocontrol endophytes Bacillus subtilis R31 and TR21 provides insights into their differences on phytobeneficial trait

(2021) Chunji Li et al.   GENOMICS

antiSMASH 6.0: improving cluster detection and comparison capabilities

(2021) Kai Blin et al.   NUCLEIC ACIDS RESEARCH

Metabolism Characteristics of Lactic Acid Bacteria and the Expanding Applications in Food Industry

(2021) Yaqi Wang et al.   Frontiers in Bioengineering and Biotechnology

Genome Characterization of Lactiplantibacillus plantarum Strain UTNGt2 Originated from Theobroma grandiflorum (White Cacao) of Ecuadorian Amazon: Antimicrobial Peptides from Safety to Potential Applications

(2021) Gabriela N. Tenea et al.   Antibiotics-Basel

An overview of functional genomics and relevance of glycosyltransferases in exopolysaccharide production by lactic acid bacteria

(2021) M.P. Soumya et al.   INTERNATIONAL JOURNAL OF BIOLOGICAL MACROMOLECULES

Lactic Acid Bacteria as Antimicrobial Agents: Food Safety and Microbial Food Spoilage Prevention

(2021) Salam A. Ibrahim et al.   Foods

Genome-scale exploration of transcriptional regulation in the nisin Z producer Lactococcus lactis subsp. lactis IO-1

(2020) Naghmeh Poorinmohammad et al.   Scientific Reports

Comparative Genomics of Pediococcus pentosaceus Isolated From Different Niches Reveals Genetic Diversity in Carbohydrate Metabolism and Immune System

(2020) Jie Jiang et al.   Frontiers in Microbiology

Discovery and Characterization of a Class IV Lanthipeptide with a Nonoverlapping Ring Pattern

(2020) Hengqian Ren et al.   ACS Chemical Biology

Therapeutic and biotechnological applications of substrate specific microbial aminopeptidases

(2020) Arya Nandan et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

Large-scale genome-wide analysis links lactic acid bacteria from food with the gut microbiome

(2020) Edoardo Pasolli et al.   Nature Communications

Effect of wet sea buckthorn pomace utilized as an additive on silage fermentation profile and bacterial community composition of alfalfa

(2020) Liangyin Chen et al.   BIORESOURCE TECHNOLOGY

Detection of mobile genetic elements associated with antibiotic resistance in Salmonella enterica using a newly developed web tool: MobileElementFinder

(2020) Markus H K Johansson et al.   JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY

Uncovering carbohydrate metabolism through a genotype-phenotype association study of 56 lactic acid bacteria genomes

(2019) Gemma Buron-Moles et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

A computational system for identifying operons based on RNA-seq data

(2019) Brian Tjaden   METHODS

Diversity and Functional Properties of Lactic Acid Bacteria Isolated From Wild Fruits and Flowers Present in Northern Argentina

(2019) Luciana G. Ruiz Rodríguez et al.   Frontiers in Microbiology

Complete Genome Sequencing and Comparative Genome Characterization of Lactobacillus johnsonii ZLJ010, a Potential Probiotic With Health-Promoting Properties

(2019) Wei Zhang et al.   Frontiers in Genetics

Transcription Factor Atf1 Regulates Expression of Cellulase and Xylanase Genes during Solid-State Fermentation of Ascomycetes

(2019) Shuai Zhao et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Pleiotropic regulation of a glucose-specific PTS in Clostridium acetobutylicum for high-efficient butanol production from corn stover without detoxification

(2019) Youduo Wu et al.   Biotechnology for Biofuels

A meta‐analysis examining lactic acid bacteria inoculants for maize silage: Effects on fermentation, aerobic stability, nutritive value and livestock production

(2019) Alexandre Bernardi et al.   GRASS AND FORAGE SCIENCE

A Bioinformatic Analysis of Integrative Mobile Genetic Elements Highlights Their Role in Bacterial Adaptation

(2019) Matthew G. Durrant et al.   Cell Host & Microbe

Single-Cell Profiles of Retinal Ganglion Cells Differing in Resilience to Injury Reveal Neuroprotective Genes

(2019) Nicholas M. Tran et al.   NEURON

Operon-mapper: a web server for precise operon identification in bacterial and archaeal genomes

(2018) Blanca Taboada et al.   BIOINFORMATICS

Inferring synteny between genome assemblies: a systematic evaluation

(2018) Dang Liu et al.   BMC BIOINFORMATICS

Investigation of Substrate Recognition and Biosynthesis in Class IV Lanthipeptide Systems

(2018) Julian D. Hegemann et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

MEGA X: Molecular Evolutionary Genetics Analysis across Computing Platforms

(2018) Sudhir Kumar et al.   MOLECULAR BIOLOGY AND EVOLUTION

PredCRP: predicting and analysing the regulatory roles of CRP from its binding sites in Escherichia coli

(2018) Ming-Ju Tsai et al.   Scientific Reports

Mobile Genetic Elements Associated with Antimicrobial Resistance

(2018) Sally R. Partridge et al.   CLINICAL MICROBIOLOGY REVIEWS

Assembly of Schizosaccharomyces cryophilus chromosomes and their comparative genomic analyses revealed principles of genome evolution of the haploid fission yeasts

(2018) Lajos Ács-Szabó et al.   Scientific Reports

Roles of D-Lactate Dehydrogenases in the Anaerobic Growth of Shewanella oneidensis MR-1 on Sugars

(2018) Takuya Kasai et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Genome-Wide Comparison of Carbohydrate-Active Enzymes (CAZymes) Repertoire of Flammulina ononidis

(2018) Young-Jin Park et al.   MYCOBIOLOGY

Meta-analysis of effects of inoculation with homofermentative and facultative heterofermentative lactic acid bacteria on silage fermentation, aerobic stability, and the performance of dairy cows

(2017) André S. Oliveira et al.   JOURNAL OF DAIRY SCIENCE

Lactic Acid Bacteria and Their Bacteriocins: Classification, Biosynthesis and Applications against Uropathogens: A Mini-Review

(2017) Mduduzi Paul Mokoena   MOLECULES

IslandViewer 4: expanded prediction of genomic islands for larger-scale datasets

(2017) Claire Bertelli et al.   NUCLEIC ACIDS RESEARCH

The LexA transcription factor regulates fatty acid biosynthetic genes in the cyanobacterium Synechocystis sp. PCC 6803

(2017) Ayumi Kizawa et al.   PLANT JOURNAL

Genome-scale modeling and transcriptome analysis of Leuconostoc mesenteroides unravel the redox governed metabolic states in obligate heterofermentative lactic acid bacteria

(2017) Lokanand Koduru et al.   Scientific Reports

Unicycler: Resolving bacterial genome assemblies from short and long sequencing reads

(2017) Ryan R. Wick et al.   PLoS Computational Biology

SOAPnuke: a MapReduce acceleration-supported software for integrated quality control and preprocessing of high-throughput sequencing data

(2017) Yuxin Chen et al.   GigaScience

Aminotransferase and glutamate dehydrogenase activities in lactobacilli and streptococci

(2016) Guillermo Hugo Peralta et al.   BRAZILIAN JOURNAL OF MICROBIOLOGY

Metabolic engineering in the biotechnological production of organic acids in the tricarboxylic acid cycle of microorganisms: Advances and prospects

(2015) Xian Yin et al.   BIOTECHNOLOGY ADVANCES

Metabolic engineering of Escherichia coli for production of (2S,3S)-butane-2,3-diol from glucose

(2015) Haipei Chu et al.   Biotechnology for Biofuels

Comparative genome analysis of the candidate functional starter culture strains Lactobacillus fermentum 222 and Lactobacillus plantarum 80 for controlled cocoa bean fermentation processes

(2015) Koen Illeghems et al.   BMC GENOMICS

Complete genome sequences and comparative genome analysis of Lactobacillus plantarum strain 5-2 isolated from fermented soybean

(2015) Chen-Jian Liu et al.   GENOMICS

Molecular characterization of the genes involved in the secretion and immunity of lactococcin Q, a two-peptide bacteriocin produced by Lactococcus lactis QU 4

(2015) Naoki Ishibashi et al.   MICROBIOLOGY-SGM

Minimum Information about a Biosynthetic Gene cluster

(2015) Marnix H Medema et al.   Nature Chemical Biology

Prokka: rapid prokaryotic genome annotation

(2014) T. Seemann   BIOINFORMATICS

Horizontal gene transfer among microorganisms in food: Current knowledge and future perspectives

(2014) Franca Rossi et al.   FOOD MICROBIOLOGY

Transcription Factors Bind Negatively Selected Sites within Human mtDNA Genes

(2014) Amit Blumberg et al.   Genome Biology and Evolution

Pyruvate Formate-Lyase Is Essential for Fumarate-Independent Anaerobic Glycerol Utilization in the Enterococcus faecalis Strain W11

(2014) Y. Doi et al.   JOURNAL OF BACTERIOLOGY

Pilon: An Integrated Tool for Comprehensive Microbial Variant Detection and Genome Assembly Improvement

(2014) Bruce J. Walker et al.   PLoS One

The carbohydrate-active enzymes database (CAZy) in 2013

(2013) Vincent Lombard et al.   NUCLEIC ACIDS RESEARCH

Membrane transport metabolons

(2012) Trevor F. Moraes et al.   BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES

Detection of mobile genetic elements in pediocin PA-1 like producing lactic acid bacteria

(2012) Sundru Manjulata Devi et al.   JOURNAL OF BASIC MICROBIOLOGY

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

TIGRFAMs and Genome Properties in 2013

(2012) Daniel H. Haft et al.   NUCLEIC ACIDS RESEARCH

Interesting Starter Culture Strains for Controlled Cocoa Bean Fermentation Revealed by Simulated Cocoa Pulp Fermentations of Cocoa-Specific Lactic Acid Bacteria

(2011) Timothy Lefeber et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Genomic diversity and versatility of Lactobacillus plantarum, a natural metabolic engineer

(2011) Roland J Siezen et al.   Microbial Cell Factories

progressiveMauve: Multiple Genome Alignment with Gene Gain, Loss and Rearrangement

(2010) Aaron E. Darling et al.   PLoS One

An insight into the role of phosphotransacetylase (pta) and the acetate/acetyl-CoA node in Escherichia coli

(2009) Sara Castaño-Cerezo et al.   Microbial Cell Factories

Transcriptional effects of CRP* expression in Escherichia coli

(2009) Reza Khankal et al.   Journal of Biological Engineering

Genome Analysis of Food Grade Lactic Acid-Producing Bacteria: From Basics to Applications

(2008) B. Mayo et al.   CURRENT GENOMICS