research topics in industrial microbiology

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Lactobacillus plantarum SMFM2017-YK1 and Limosilactobacillus fermentum SMFM2017-NK1 to alleviate periodontitis">Development of postbiotics by bioconverting whey using Lactobacillus plantarum SMFM2017-YK1 and Limosilactobacillus fermentum SMFM2017-NK1 to alleviate periodontitis

Yuna Choi, Eunyoung Park, Yohan Yoon, Jimyeong Ha

Bipyridines mediate electron transfer from an electrode to nicotinamide adenine dinucleotide phosphate

Fumiya Wayama, Noriyuki Hatsugai, Yasuaki Okumura

High surface area nitrogen-functionalized Ni nanozymes for efficient peroxidase-like catalytic activity

Anuja Tripathi, Kenneth D. Harris, Anastasia L. Elias

Catalysis of the electrochemical oxygen reduction reaction (ORR) by animal and human cells

Simon Guette-Marquet, Christine Roques, Alain Bergel

Synthesis of a precursor of D-fagomine by immobilized fructose-6-phosphate aldolase

Gerard Masdeu, Luis Miguel Vázquez,  [ ... ], Marina Guillén

Stable and efficient immobilization of bi-enzymatic NADPH cofactor recycling system under consecutive microwave irradiation

Rong Chen, Qiuhui Wei,  [ ... ], Tian Xie

The biosynthetic pathway to tetromadurin (SF2487/A80577), a polyether tetronate antibiotic

Rory F. Little, Markiyan Samborskyy, Peter F. Leadlay

Structure-function investigation of 3-methylaspartate ammonia lyase reveals substrate molecular determinants for the deamination reaction

Veronica Saez-Jimenez, Željka Sanader Maršić,  [ ... ], Valeria Mapelli

The biosynthetic pathway to ossamycin, a macrocyclic polyketide bearing a spiroacetal moiety

Oksana Bilyk, Markiyan Samborskyy, Peter F. Leadlay

Design of stable magnetic hybrid nanoparticles of Si-entrapped HRP

Sonali Correa, Sara Puertas,  [ ... ], Lorena Betancor

Effective detection of biocatalysts with specified activity by using a hydrogel-based colourimetric assay – β-galactosidase case study

Karolina Labus

Modulating the antioxidant system by exogenous 2-(3,4-dichlorophenoxy) triethylamine in maize seedlings exposed to polyethylene glycol-simulated drought stress

Tenglong Xie, Wanrong Gu,  [ ... ], Wenhua Li

Systematic metabolic profiling and bioactivity assays for bioconversion of Aceraceae family

Jinyong Park, Dong Ho Suh,  [ ... ], Choong Hwan Lee

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Six Key Topics in Microbiology: 2019

Read an essential collection of papers showcasing high-quality content from across the five FEMS Journals, which together provide an overview of current research trends in microbiology. Follow the topic area links below for access to articles:

• Antimicrobial Resistance

Environmental Microbiology

Pathogenicity & virulence, biotechnology & synthetic biology, microbiomes, food microbiology, antimicrobial resistance.

Effects of sample preservation and DNA extraction on enumeration of antibiotic resistance genes in wastewater An-Dong Li, Jacob W Metch, Yulin Wang, Emily Garner, An Ni Zhang, Maria V Riquelme, Peter J Vikesland, Amy Pruden, Tong Zhang FEMS Microbilogy Ecology , DOI: 10.1093/femsec/fix189 First published online: 1 February 2018

Occurrence and abundance of antibiotic resistance genes in agricultural soil receiving dairy manure Chad W McKinney, Robert S Dungan, Amber Moore, April B Leytem FEMS Microbiology Ecology , DOI: 10.1093/femsec/fiy010; First published online: 1 March 2018

Environmental factors influencing the development and spread of antibiotic resistance Johan Bengtsson-Palme, Erik Kristiansson, D G Joakim Larsson FEMS Microbiology Reviews , DOI: 10.1093/femsre/fux053 First published online: 01 January 2018

Comparative genomic and transcriptomic analyses unveil novel features of azole resistnce and adaptation to the human host in Candida glabrata Sara Barbosa Salazar, Can Wang, Martin Münsterkötter, Michiyo Okamoto, Azusa Takahashi-Nakaguchi, Hiroji Chibana, Maria Manuel Lopes, Ulrich Güldener, Geraldine Butler, Nuno Pereira Mira FEMS Yeast Research , DOI: 10.1093/femsyr/fox079 First published online: 01 February 2018

How proteases from Enterococcus faecalis contribute to its resistance to short a-helical antimicrobial peptides Ondrej Nešuta, Miloš Budešínský, Romana Hadravová, Lenka Monincová, Jana Humpolicková, Václav Cerovský FEMS Pathogens and Disease , DOI: 10.1093/femspd/ftx091 First published online: 29 September 2017

Ice algal bloom development on the surface of the Greenland Ice Sheet C J Williamson, A M Anesio, J Cook, A Tedstone, E Poniecka, A Holland, D Fagan, M Tranter, M L Yallop FEMS Microbiology Ecology DOI: 10.1093/femsec/fiy025 First published online: 01 March 2018

Investigation of viable taxa in the deep terrestrial biosphere suggests high rates of nutrient recycling Margarita Lopez-Fernandez, Elias Broman, Stephanie Turner, Xiaofen Wu, Stefan Bertilsson, Mark Dopson FEMS Microbiology Ecology , DOI: 10.1093/femsec/fiy121 First published online: 01 August 2018

Soil Protists: a fertile frontier in soil biology research Stefan Geisen, Edward A D Mitchell, Sina Adl, Michael Bonkowski, Micah Dunthorn, Flemming Ekelund, Leonardo D Fernández, Alexandre Jousset, Valentyna Krashevska, David Singer, Frederick W Spiegel, Julia Walochnik, Enrique Lara FEMS Microbiology Reviews , DOI: 10.1093/femsre/fuy006 First published online: 01 May 2018

Vector-borne diseases and climate change: a European perspective Jan C Semenza, Jonathan E Suk FEMS Microbiology Letters , DOI: 10.1093/femsle/fnx244 First published online: 01 January 2018

Beyond nitrogen metabolism: nitric oxide, cyclic-di- GMP and bacterial biofilms Serena Rinaldo, Giorgio Giardina, Federico Mantoni, Alessio Paone, Francesca Cutruzzolàr FEMS Microbiology Letters , DOI: 10.1093/femsle/fny029 First published online: 01 March 2018

Bacterial-fungal interactions: ecology, mechanisms and challenges Aurélie Deveau, Gregory Bonito, Jessie Uehling, Mathieu Paoletti, Matthias Becker, Saskia Bindschedler, Stéphane Hacquard, Vincent Hervé, Jessy Labbé, Olga A Lastovetsky, Sophie Mieszkin, Larry J Millet, Balázs Vajna, Pilar Junier, Paola Bonfante, Bastiaan P Krom, Stefan Olsson, Jan Dirk van Elsas, Lukas Y Wick FEMS Microbiology Reviews , DOI: 10.1093/femsre/fuy008 First published online: 01 May 2018

The human cytomegalovirus terminase complex as an antiviral target: a close-up view G Ligat, R Cazal, S Hantz, S Alain; FEMS Microbiology Reviews , DOI: 10.1093/femsre/fuy004 First published online: 01 March 2018

Molecular variability and genetic structure of white spot syndrome virus strains from northwest Mexico based on the analysis of genomes Delia Patricia Parrilla-Taylor, Norberto Vibanco-Pérez, Maria de Jesús Durán-Avelar, Bruno Gomez- Gil, Raúl Llera-Herrera, Ricardo Vázquez-Juárez FEMS Microbiology Letters , DOI: 10.1093/femsle/fny216 First published online: 01 October 2018

The first known virus isolates from Antarctic sea ice have complex infection patterns Anne-Mari Luhtanen, Eeva Eronen-Rasimus, Hanna M Oksanen, Jean-Louis Tison, Bruno Delille, Gerhard S Dieckmann, Janne-Markus Rintala, Dennis H Bamford FEMS Microbiology Ecology , DOI: 10.1093/femsec/fiy028 First published online: 1 April 2018

Host-pathogen redox dynamics modulate Mycobacterium tuberculosis pathogenesis Hayden T Pacl, Vineel P Reddy, Vikram Saini, Krishna C Chinta, Adrie J C Steyn FEMS Pathogens and Disease , DOI: 10.1093/femspd/fty036 First published online: 01 July 2018

The CRISPR-Cas system in Enterobacteriaceae Liliana Medina-Aparicio, Sonia Dávila, Javier E Rebollar-Flores, Edmundo Calva, Ismael Hernández- Lucas FEMS Pathogens and Disease , DOI: 10.1093/femspd/fty002 First published online: 01 February 2018

Mycobacterial biomaterials and resources for researchers Manzour Hernando Hazbón, Leen Rigouts, Marco Schito, Matthew Ezewudo, Takuji Kudo, Takashi Itoh, Moriya Ohkuma, Katalin Kiss, Linhuan Wu, Juncai Ma, Moriyuki Hamada, Michael Strong, Max Salfinger ,Charles L Daley, Jerry A Nick, Jung-Sook Lee, Nalin Rastogi, David Couvin, Raquel Hurtado-Ortiz, Chantal Bizet, Anita Suresh, Timothy Rodwell, Audrey Albertini, Karen A Lacourciere, Ana Deheer- Graham, Sarah Alexander, Julie E Russell, Rebecca Bradford, Marco A Riojas FEMS Pathogens and Disease , DOI: 10.1093/femspd/fty042 First published online: 01 June 2018

Yeast 2.0- connecting the dots in the construction of the world's first functional synthetic eukaryotic genome I S Pretorius, J D Boeke FEMS Yeast Research , DOI: 10.1093/femsyr/foy032 First published online: 01 June 2018

Laboratory evolution for forced glucose-xylose co-consumption enables identification of mutations that improve mixed-sugar fermentation by xylose-fermenting Saccharomyces cerevisiae Ioannis Papapetridis, Maarten D Verhoeven, Sanne J Wiersma, Maaike Goudriaan, Antonius J A van Maris, Jack T Pronk FEMS Yeast Research , DOI: 10.1093/femsyr/foy056 First published online:01 September 2018

State of the art in eukaryotic nitrogenase engineering Stefan Burén, Luis M Rubio FEMS Microbiology Letters , DOI: 10.1093/femsle/fnx274 First published online: 01 January 2018

Whole-genome sequencing based characterization of antimicrobial resistance in Enterococcus Gregory H Tyson, Jonathan L Sabo, Crystal Rice-Trujillo, Jacqueline Hernandez, Patrick F McDermott FEMS Pathogens and Disease , DOI: 10.1093/femspd/fty018 First published online: 01 March 2018

Biofilm growth and control in cooling water industrial systems F Di Pippo, L Di Gregorio, R Congestri, V Tandoi, S Rossetti FEMS Microbiology Ecology , DOI: 10.1093/femsec/fiy044 First published online: 01 May 2018

Novel sequencing technologies to support industrial biotechnology Adalberto Costessi, Bartholomeus van den Bogert, Ali May, Emiel Ver Loren van Themaat, Johannes A Roubos, Marc A B Kolkman, Derek Butler, Walter Pirovano FEMS Microbiology Letters , DOI: 10.1093/femsle/fny103 First published online: 01 August 2018

Influenza A virus subtype H9N2 infection disrupts the composition of intestinal microbiota of chickens Alexander Yitbarek, J Scott Weese, Tamiru Negash Alkie, John Parkinson, Shayan Sharif FEMS Microbiology Ecology , DOI: 10.1093/femsec/fix165 First published online: 01 January 2018

Pathogens, microbiome and the host: emergence of the ecological Koch's postulates Pascale Vonaesch, Mark Anderson, Philippe J Sansonetti FEMS Microbiology Reviews , DOI: 10.1093/femsre/fuy003 First published online: 09 January 2018

Talk to your gut: the oral-gut microbiome axis and its immunomodulatory role in the etiology of rheumatoid arthritis Marines du Teil Espina, Giorgio Gabarrini, Hermie J M Harmsen, Johanna Westra, Arie Jan van Winkelhoff, Jan Maarten van Dijl FEMS Microbiology Reviews , DOI: 10.1093/femsre/fuy035 First published online: 01 January 2019

Shift of hindgut microbiota and microbial short chain fatty acids profiles in dairy calves from birth to pre-weaning Yang Song, Nilusha Malmuthuge, Michael A Steele, Le Luo Guan FEMS Microbiology Ecology , DOI: 10.1093/femsec/fix179 First published online: 01 March 2018

The Smallest Intestine (TSI)- a low volume in vitro model of the small intenstine with increased throughput T Cieplak, M Wiese, S Nielsen, T Van de Wiele, F van den Berg, D S Nielsen FEMS Microbiology Letters , DOI: 10.1093/femsle/fny231 First published online: 01 November 2018

Saccharomyces cerevisiae variety diastaticus friend or foe? - spoilage potential and brewing ability of different Saccharomyces cerevisiae variety diastaticus yeast isolates by genetic, phenotypic and physiological characterization Tim Meier-Dörnberg, Oliver Ingo Kory, Fritz Jacob, Maximilian Michel, Mathias Hutzler FEMS Yeast Research , DOI: 10.1093/femsyr/foy023 First published online: 01 June 2018

Trans-regulation and localization of orthologous maltose transporters in the interspecies lager yeast hybrid Virve Vidgren, Brian Gibson FEMS Yeast Research , DOI: 10.1093/femsyr/foy065 First published online: 01 September 2018

Fermentation performances and aroma production of non-conventional wine yeasts are influenced by nitrogen preferences Stéphanie Rollero, Audrey Bloem, Anne Ortiz-Julien, Carole Camarasa, Benoit Divol FEMS Yeast Research , DOI: 10.1093/femsyr/foy055 First published online: 01 August 2018

Community-led comparative genomic and phenotypic analysis of the aquaculture pathogen Pseudomonas baetica a390T sequenced by Ion semiconductor and Nanopore technologies Ainsley Beaton, Cédric Lood, Edward Cunningham-Oakes, Alison MacFadyen, Alex J Mullins, Walid El Bestawy, João Botelho, Sylvie Chevalier, Shannon Coleman, Chloe Dalzell, Stephen K Dolan, Alberto Faccenda, Maarten G K Ghequire, Steven Higgins, Alexander Kutschera, Jordan Murray, Martha Redway, Talal Salih, Ana C da Silva, Brian A Smith, Nathan Smits, Ryan Thomson, Stuart Woodcock, Martin Welch, Pierre Cornelis, Rob Lavigne, Vera van Noort, Nicholas P Tucker FEMS Microbiology Letters , DOI: 10.1093/femsle/fny069 First published online: 01 May 2018

Antibiotic resistance phenotypes and virulence-associated genes in Escherichia coli isolated from animals and animal food products in Tunisia Souhir Badi, Paola Cremonesi, Mohamed Salah Abbassi, Chourouk Ibrahim, Majdi Snoussi, Giulia Bignoli, Mario Luini, Bianca Castiglioni, Abdennaceur Hassen FEMS Microbiology Letters , DOI: 10.1093/femsle/fny088 First published online: 01 May 2018

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Top Research Topics on Industrial Microbiology

Table of Contents

• Autopsy: The Dying Diagnostic.
• Evaluation of Antimicrobial Effect of Extracts of Medicinal Plants Leaves.
• Computer-Assisted Vaccine Design by Analysis of  Zika Virus  E Proteins Obtained either from Humans or from Aedes Mosquitos.
• Antibiotic Allergy, When to Test, Challenge or Desensitize.
• Probiotic Properties of Lactic Acid Bacteria from Human Milk.
• Isolation of Anaerobic Bacteria from the Peritoneal Fluid of Patient who has Unstrangulated Umbilical Hernia.
• Role of Microbes in Food and Industrial Microbiology.
• Characterization of Microbiota Isolated from Traditional Honduran Cheese.
• Development and Quality Evaluation of Barnyard Millet Bran Incorporated Rusk and Muffin.
• Sensory Evaluation of Allium sativum – Cheddar Cheese in the Presence and Absence of Fish Collagen during Ripening and Refrigerated Storage.
• Preparation and Evaluation of Peach-Soy Fruit Toffees.
• Statistical Optimization of Production Conditions of Alkaline Pectin Lyase from Bacillus species using Response Surface Methodology.
• Research Dryer for Drying Agricultural Products.
• Optimization of Ingredients for Development of Low-Fat Biscuits Using Response Surface Methodology.
• Isolation and Detection of  Listeria monocytogenes  in Minced Meat, Frozen Chicken and Cheese by using RT-PCR.
• Identification and Virulence of  Enterobacter sakazakii .
• Proximate Analysis and Microbial Quality of Ready-To-Eat (RTE) Fried Chicken Parts
• Antimicrobial Susceptibility Pattern of Isolated microorganisms.
• Purification, Characterization and Synthesis of Galacto-oligosaccharides
• Bactericidal and Sporicidal Activities against Pathogenic Bacteria of Direct Flow Electrolyzed Water
• Non-destructive Analysis of Food Adulteration and Legitimacy by FTIR Technology
• Optimization of  Cyclodextrin Glycosyltransferase  Production from Sorghum
• Physicochemical and  Spectroscopic  Characterization of Biofield Treated Butylated Hydroxytoluene.
• Utilizing probiotic Lactic acid bacteria for fermentation of Psidiumguajava Juice.
• Degradation of Lignin in Paper Mill Sludge by White-Rot Fungi in Submerged Fermentation.
• Isolation and Screening of Fungal Isolates through submerged and solid state fermentation for the purpose of Multienzyme Production.
• Control of certain Microbes at Some Selected Solid Supports for Enhanced Fermentation Process.
• Removal of Endogenous Chemicals from Pretreated  Lignocellulosic Biomass . For Enhancement of Saccharification and Fermentation.
• How fermentation Kinectics increases the bioethanol production from Glucose, Sucrose and Molasses.
• Production, Purification and Characterization of L-Asparaginase from Marine fungal sp.
• Solid-State Fermentation for fungal lipase production.
• Structural Clarification and Antioxidant Activity of a Polysaccharide isolated from fungal sources.
• How to genetically modify  Saccharomyces cerevisiae  for Ethanol Production from Starch Fermentation.
• Study of Food Grade Preservatives effects on the Physicochemical and Microbiological Properties of Coconut Toddy during Fermentation.
• Microbiology  technology for environmental nourishment.
• Development and application of rapid microbiology methods in manufacturing and control of pharmaceuticals.
• Extensive study of Industrial biorefinery of lignocellulose for bioethanol and biomaterials.
• Use of microalgal biomass for production of biodiesel and other industrially important co-products through an algal refinery approach.
• Industrial biodiesel manufacture from low-cost feedstock using immobilized and soluble-free enzyme.
• How to make a recombinant microbial strain of bio-safety for agricultural and industrial engineering?

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Applied microbiology articles from across Nature Portfolio

Applied microbiology is a scientific discipline that deals with the application of microorganisms and the knowledge about them. Applications include biotechnology, agriculture, medicine, food microbiology and bioremediation.

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A new polyene macrolide antibiotic, machidamycin, produced by Streptomyces sp. K22-0017

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Exploring the antifungal, antibiofilm and antienzymatic potential of Rottlerin in an in vitro and in vivo approach

• Nagela Bernadelli Sousa Silva
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Bacteriocin diversity, function, discovery and application as antimicrobials

In this Review, Sugrue, Ross and Hill explore recent developments in bacteriocin research, including new discoveries and bioengineering approaches for improved activity, and discuss their application in microbiome modulation and clinical potential.

• Ivan Sugrue
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Oral microbiome dysbiosis among cigarette smokers and smokeless tobacco users compared to non-users

• Suhana Chattopadhyay
• Leena Malayil
• Amy R. Sapkota

Biosynthetic production of anticoagulant heparin polysaccharides through metabolic and sulfotransferases engineering strategies

Microbial heparin bioproduction is hampered by the difficulty of recombinant expression of active heparan sulfate N -deacetylase/ N -sulfotransferase. Here, the authors solve the problem by developing a cellular system-based semisynthetic strategy and achieve the production of active heparin by engineered E. coli .

• Jian-Qun Deng
• Ju-Zheng Sheng

Production, characterization, and application of Pseudoxanthomonas taiwanensis biosurfactant: a green chemical for microbial enhanced oil recovery (MEOR)

• Isty Adhitya Purwasena
• Maghfirotul Amaniyah
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News and Comment

Decomposer communities are universal in death

Decomposer microbiomes are universal across cadavers regardless of environmental conditions, and they use complex cross-feeding and interkingdom interactions to break down organic matter.

• Michael S. Strickland
• Laurel Lynch

Cutibacterium improves skin condition

In this study, Knödlseder et al. explore the potential of an engineered Cutibacterium acnes strain as a microbiome-based therapy for skin conditions.

• Agustina Taglialegna

QurvE: user-friendly software for the analysis of biological growth and fluorescence data

• Nicolas T. Wirth
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Insulin as a catalyst to recombinant DNA technology

Scientific research on human insulin was a crucial development in medicine, and its discovery led to the treatment of diabetes, one of the most prevalent global chronic diseases. A seminal work published in 1979 describing recombinant DNA technology to produce human insulin through biocatalysis has resulted in this field’s establishment and routine industrial applications.

• Thavendran Govender
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A bacterial syringe to target them all

In this study, Kreitz et al. examine a bacterial extracellular contractile injection system that can deliver diverse proteins into different target cells.

Lignin modification by anaerobes revealed

We present evidence that lignin, a recalcitrant and partially aromatic polymer found in plant cell walls, can be modified by anaerobic microorganisms. This finding overturns a long-standing paradigm that all biological processes of lignin degradation require oxygen and motivates further exploration of understudied biology to inform biotechnological innovation.

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Main Content

Microbiology - research topics.

The following Research Topics are led by experts in their field and contribute to the scientific understanding of microbiology. These Research topics are published in the peer-reviewed journal Frontiers in Microbiology , as open access articles .

Roles of RNA in Host-Microbiome Interactions and Impact on Human Diseases

Background: The range of microorganisms (bacteria, archaea, fungi, and viruses) that can comprise the microbiota in different living beings and ecosystems are being reported to affect the host’s physiology and health.

Forest Microbiome: Dynamics and Interactions in the Anthropocene Era

Background: Forests encompass around 40.6 million km2 of the Earth's surface, making them a vital component of our ecosystem. Not only do they contribute to reducing carbon footprints and influencing biogeochemical cycles, but...

Microbial Phytoremediation of Soil and Sediment Pollution: Mechanism, Application and Prospect

Background: Soil and sediment pollution caused by various contaminants, including heavy metals, organic pollutants, and other toxic substances, poses significant threats to environmental quality and human health.

Exploring the Depths: Marine-Derived Antimicrobials as New Frontiers in Combating Antimicrobial Resistance

Background: Antimicrobial resistance (AMR) presents a critical challenge, surpassing deaths from HIV and malaria, with a forecast of 10 million annual deaths by 2050.

Omics Technologies and Bioinformatic Tools in Probiotic Research

Background: Probiotics are defined as live microorganisms (bacteria and fungi) that can exert beneficial health effects in the gut and extra-intestinal sites when consumed in sufficient quantity.

Microbial Biotechnologies for Efficient Wastewater Treatment and Resource Recovery

Background: Microorganisms play a pivotal role in both natural and engineered ecosystems. The Conventional Activated Sludge (CAS) process, an engineered ecosystem, has been an important component of modern sanitation systems used to treat domestic...

Microbial-Mediated Induced Resistance: Interactive Effects for Improving Crop Health

Background: The current population of the Earth, which is approximately 7.88 billion, is projected to reach 9.8 billion by the year 2050. In order to accommodate this growth, it is crucial that we prepare for the increased demand for food.

Reviews in Molecular Evolution of Infectious Agents and Diseases

The current research topic aims to publish high-quality scholarly review papers on key topics in molecular epidemiology and evolution of infectious pathogens.

Bacteriophages, Prophages, and Their Products: Regulating Bacterial Populations

Background: Bacteriophages represent the most abundant biological entities in the biosphere and play a crucial role in controlling the number and biodiversity of bacterial populations.

Extremophiles: Environmental Adaptation Mechanisms, Modification to Synthetic Biology, and Industrial Application

Background: Extremophiles are unique microorganisms adapted to survive in ecological niches characterized by high or low temperatures, extreme pH, high salt concentrations, and high pressure.

Microorganisms in Tea and Tea Beverages

Background: Tea is one of the most popular and widely consumed beverages in the world, and microorganisms are closely related to the tea industry.

Artificial Intelligence in Pathogenic Microorganism Research

Background: Infections caused by pathogenic microorganisms, including bacteria, viruses, fungi, and other eukaryotic microbes, seriously threaten human health.

Climate is Changing: Harnessing Plant-Microbe Interactions For Sustainable Agriculture in Arid Areas

This Research Topic aims to compile the latest information and innovations in the field of plant-microbe interaction research.