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Table of Contents

Volume 7 • Number 4 • August 2022

Commentary

Host-Microbial InteractionsCommentary11 August 2022

The Microbiota-Gut-Brain Axis in Sepsis-Associated Encephalopathy

https://doi.org/10.1128/msystems.00533-22
The gut microbiota is increasingly being found to contribute to the etiology and severity of multiple diseases, including within the central nervous system (CNS). This microbiota-gut-brain (MGB) axis facilitates communication between gut microbes and the ...

Minireview

Editor's PickEnvironmental MicrobiologyMinireview05 July 2022

Methods and Strategies to Uncover Coral-Associated Microbial Dark Matter

https://doi.org/10.1128/msystems.00367-22
The vast majority of environmental microbes have not yet been cultured, and most of the knowledge on coral-associated microbes (CAMs) has been generated from amplicon sequencing and metagenomes. However, exploring cultured CAMs is key for a detailed and ...

Observation

Environmental MicrobiologyObservation15 June 2022

Sentinel Cards Provide Practical SARS-CoV-2 Monitoring in School Settings

https://doi.org/10.1128/msystems.00109-22
Because SARS-CoV-2, the virus that causes COVID-19, persists on surfaces, testing swabs taken from surfaces is useful as a monitoring tool. This approach is especially valuable in school settings, where there are cost and privacy concerns that are ...

Resource Report

Computational BiologyResource Report01 August 2022

Multilayered Networks of SalmoNet2 Enable Strain Comparisons of the Salmonella Genus on a Molecular Level

https://doi.org/10.1128/msystems.01493-21
Multilayered network databases collate interaction information from multiple sources, and are powerful both as a knowledge base and subject of analysis. Here, we present SalmoNet2, an integrated network resource containing protein-protein, transcriptional ...

Methods and Protocols

Eukaryotic CellsMethods and Protocols05 July 2022

Determination of the Stage Composition of Plasmodium Infections from Bulk Gene Expression Data

https://doi.org/10.1128/msystems.00258-22
Differences in cell type proportions among samples can introduce artifacts in gene expression analyses and mask genuine differences in gene regulation. Gene expression deconvolution allows estimation of the proportion of each cell type present in one ...
Editor's PickComputational BiologyMethods and Protocols11 August 2022

MetaProClust-MS1: an MS1 Profiling Approach for Large-Scale Microbiome Screening

https://doi.org/10.1128/msystems.00381-22
Growing evidence suggests that human gut microbiome composition and function are highly associated with health and disease. As such, high-throughput metaproteomic studies are becoming more common in gut microbiome research.
Computational BiologyMethods and Protocols15 June 2022

MAGNETO: An Automated Workflow for Genome-Resolved Metagenomics

https://doi.org/10.1128/msystems.00432-22
Genome-resolved metagenomics has led to the discovery of previously untapped biodiversity within the microbial world. As the development of computational methods for the recovery of genomes from metagenomes continues, existing strategies need to be ...

Research Articles

Open Peer ReviewBacteriophagesResearch Article28 June 2022

Phage Cocktails Constrain the Growth of Enterococcus

https://doi.org/10.1128/msystems.00019-22
Due to the rise in antibiotic resistance, Enterococcus infections are a major health crisis that requires the development of alternative therapies. Phage therapy offers an alternative to antibiotics and has shown promise in both in vitro and early ...
Editor's PickEnvironmental MicrobiologyResearch Article13 July 2022

Stimulation of Distinct Rhizosphere Bacteria Drives Phosphorus and Nitrogen Mineralization in Oilseed Rape under Field Conditions

https://doi.org/10.1128/msystems.00025-22
Plant-microbe interactions are critical to ecosystem function and crop production. While significant advances have been made toward understanding the structure of the plant microbiome, learning about its full functional role is still in its infancy.
ParasitologyResearch Article01 August 2022

Profiles of Microbial Community and Antibiotic Resistome in Wild Tick Species

https://doi.org/10.1128/msystems.00037-22
The emergence of antibiotic-resistant bacteria poses serious threat to the public health around the world. Ticks are obligate hematophagous ectoparasites, surviving via feeding on the blood of various animal hosts.
Open Peer ReviewMicrobial EcologyResearch Article28 June 2022

Environment Constrains Fitness Advantages of Division of Labor in Microbial Consortia Engineered for Metabolite Push or Pull Interactions

https://doi.org/10.1128/msystems.00051-22
Most naturally occurring microorganisms persist in consortia where metabolic interactions are common and often essential to ecosystem function. This study uses synthetic ecology to test how different cellular interaction motifs influence performance ...
Environmental MicrobiologyResearch Article20 July 2022

Metabolic Phenotyping of Marine Heterotrophs on Refactored Media Reveals Diverse Metabolic Adaptations and Lifestyle Strategies

https://doi.org/10.1128/msystems.00070-22
Half of the Earth’s annual primary production is carried out by phytoplankton in the surface ocean. However, this metabolic activity is heavily impacted by heterotrophic bacteria, which dominate the transformation of organic matter released from ...
BacteriologyResearch Article13 June 2022

Cellular RNA Targets of Cold Shock Proteins CspC and CspE and Their Importance for Serum Resistance in Septicemic Escherichia coli

https://doi.org/10.1128/msystems.00086-22
Virulent Escherichia coli strains that cause infections outside the intestinal tract—extraintestinal pathogenic E. coli (ExPEC)—constitute a major clinical problem worldwide. They are involved in several distinct conditions, including urinary tract ...
BacteriologyResearch Article14 June 2022

Nutrient Availability and Phage Exposure Alter the Quorum-Sensing and CRISPR-Cas-Controlled Population Dynamics of Pseudomonas aeruginosa

https://doi.org/10.1128/msystems.00092-22
The increase in antimicrobial resistance has created the need for alternative interventions such as phage therapy. However, as previously observed with antimicrobial resistance, phage therapy will not be effective if bacteria evolve resistance and persist ...
Open Peer ReviewEnvironmental MicrobiologyResearch Article15 June 2022

Implementation of Practical Surface SARS-CoV-2 Surveillance in School Settings

https://doi.org/10.1128/msystems.00103-22
The ongoing COVID-19 pandemic has claimed the lives of over 5 million people worldwide. Due to high density occupancy of indoor spaces for prolonged periods of time, schools are often of concern for transmission, leading to widespread school closings to ...
Environmental MicrobiologyResearch Article28 June 2022

Guts of the Urban Ecosystem: Microbial Ecology of Sewer Infrastructure

https://doi.org/10.1128/msystems.00118-22
Sewer infrastructure is a relatively new habitat comprised of thousands of kilometers of pipes beneath cities. These wastewater conveyance systems contain large reservoirs of microbial biomass with a wide range of metabolic potential and are significant ...
Host-Microbial InteractionsResearch Article18 July 2022

Relationships between Sphaerulina musiva Infection and the Populus Microbiome and Metabolome

https://doi.org/10.1128/msystems.00120-22
Poplar (Populus spp.) trees are ecologically and economically important trees throughout North America. However, many western North American poplar plantations are at risk due to the introduction of the nonnative fungal pathogen Sphaerulina musiva, which ...
Public HealthResearch Article27 July 2022Special Series: Diversity, Equity, and Inclusivity

Closing the GAP in Antimicrobial Resistance Policy in Benin and Burkina Faso

https://doi.org/10.1128/msystems.00150-22
The burden of antimicrobial resistance (AMR) is unequally distributed across the globe. Low-income countries face a more severe AMR situation and have fewer means to solve the problem.
Environmental MicrobiologyResearch Article01 August 2022

Modeling-Guided Amendments Lead to Enhanced Biodegradation in Soil

https://doi.org/10.1128/msystems.00169-22
Providing the food requirements of a growing population comes at the cost of intensive use of agrochemicals, including pesticides. Native microbial soil communities are considered key players in the degradation of such exogenous substances.
BacteriologyResearch Article19 July 2022

Fusobacterium nucleatum Metabolically Integrates Commensals and Pathogens in Oral Biofilms

https://doi.org/10.1128/msystems.00170-22
Periodontitis is caused by a pathogenic shift in subgingival biofilm ecosystems, which is accompanied by alterations in microbiome composition and function, including changes in the metabolic activity of the biofilm, which comprises multiple commensals ...
Open Peer ReviewComputational BiologyResearch Article13 June 2022

Rhythm of the Night (and Day): Predictive Metabolic Modeling of Diurnal Growth in Chlamydomonas

https://doi.org/10.1128/msystems.00176-22
We have developed the first transient metabolic model for diurnal growth of algae based on experimental data and capable of predicting phenotype from genotype. This model enables us to evaluate the impact of genetic and environmental changes on the growth,...
Human MicrobiomeResearch Article21 June 2022

Loss of Novel Diversity in Human Gut Microbiota Associated with Ongoing Urbanization in China

https://doi.org/10.1128/msystems.00200-22
Previous studies have reported the differences in human gut microbiota across populations of different urbanization levels, but most of the studies focused on populations across different geographic regions. In this study, we analyzed the impact of ...
Structural BiologyResearch Article23 June 2022

Differential Binding of Carbapenems with the AdeABC Efflux Pump and Modulation of the Expression of AdeB Linked to Novel Mutations within Two-Component System AdeRS in Carbapenem-Resistant Acinetobacter baumannii

https://doi.org/10.1128/msystems.00217-22
AdeABC is an important efflux pump in A. baumannii that plays a role in resistance toward different antibiotics including the “last resort” antibiotic, carbapenem. This pump is regulated by a two-component system, AdeRS.
EcologyResearch Article20 July 2022

Predictable Changes in Eelgrass Microbiomes with Increasing Wasting Disease Prevalence across 23° Latitude in the Northeastern Pacific

https://doi.org/10.1128/msystems.00224-22
The roles of marine microbiomes in disease remain poorly understood due, in part, to the challenging nature of sampling at appropriate spatiotemporal scales and across natural gradients of disease throughout host ranges. This is especially true for marine ...
Environmental MicrobiologyResearch Article01 August 2022

(Meta)Genomic Analysis Reveals Diverse Energy Conservation Strategies Employed by Globally Distributed Gemmatimonadota

https://doi.org/10.1128/msystems.00228-22
The phylum Gemmatimonadota is widely distributed in various environments. However, their physiology, ecology and evolutionary history remain unknown, primary due to the limited cultured isolates and available genomes.
EcologyResearch Article28 June 2022

A Drying-Rewetting Cycle Imposes More Important Shifts on Soil Microbial Communities than Does Reduced Precipitation

https://doi.org/10.1128/msystems.00247-22
Climate change will have a profound effect on the precipitation patterns of global terrestrial ecosystems. Seasonal and interannual uneven distributions of precipitation will lead to increasing frequencies and intensities of extreme drought and rainfall ...
Antimicrobial ChemotherapyResearch Article21 July 2022

Dynamics of Antimicrobial Resistance and Genomic Epidemiology of Multidrug-Resistant Salmonella enterica Serovar Indiana ST17 from 2006 to 2017 in China

https://doi.org/10.1128/msystems.00253-22
The emergence and worldwide spread of AMR Salmonella constitute great public health concerns. S. enterica serovar Indiana is a typical MDR serovar characterized by sporadic reports. However, comprehensive population genomics studies have not been ...
EvolutionResearch Article03 August 2022

The Sixth Element: a 102-kb RepABC Plasmid of Xenologous Origin Modulates Chromosomal Gene Expression in Dinoroseobacter shibae

https://doi.org/10.1128/msystems.00264-22
Plasmids are small DNA molecules that replicate independently of the bacterial chromosome. The common view of the role of plasmids is dominated by the accumulation of resistance genes, which is responsible for the antibiotic crisis in health care and ...
Open Peer ReviewHost-Microbial InteractionsResearch Article14 June 2022

Dysbiosis of Gut Microbiota and Intestinal Barrier Dysfunction in Pigs with Pulmonary Inflammation Induced by Mycoplasma hyorhinis Infection

https://doi.org/10.1128/msystems.00282-22
Cumulative evidence suggests that bacterial pneumonia may contribute to the dysbiosis of the gut microbiota and other gastrointestinal symptoms. Our experiment has demonstrated that lung inflammation induced by M. hyorhinis infection was associated with ...
Open Peer ReviewMicrobial EcologyResearch Article04 August 2022

A Salvaging Strategy Enables Stable Metabolite Provisioning among Free-Living Bacteria

https://doi.org/10.1128/msystems.00288-22
Recycling gives new life to old things. Bacteria have the ability to recycle and reuse complex molecules they encounter in their environment to fulfill their basic metabolic needs in a resource-efficient way.
Open Peer ReviewEnvironmental MicrobiologyResearch Article26 July 2022

Artificial Soils Reveal Individual Factor Controls on Microbial Processes

https://doi.org/10.1128/msystems.00301-22
Understanding environmental controls on soil microbes is difficult because many abiotic parameters vary simultaneously and uncontrollably when different natural soils are compared, preventing mechanistic determination of any individual soil parameter’s ...
Editor's PickEnvironmental MicrobiologyResearch Article22 June 2022

Protist Diversity and Metabolic Strategy in Freshwater Lakes Are Shaped by Trophic State and Watershed Land Use on a Continental Scale

https://doi.org/10.1128/msystems.00316-22
Freshwater lakes are experiencing rapid changes under accelerated anthropogenic stress and a warming climate. Microorganisms underpin aquatic food webs, yet little is known about how freshwater microbial communities are responding to human impact.
MycologyResearch Article11 July 2022

FluG and FluG-like FlrA Coregulate Manifold Gene Sets Vital for Fungal Insect-Pathogenic Lifestyle but Not Involved in Asexual Development

https://doi.org/10.1128/msystems.00318-22
FluG is a core regulator upstream of central developmental pathway (CDP) in Aspergillus nidulans but multiple FluG-like regulators (FLRs) remain functionally uncharacterized in ascomycetes. Our previous study revealed no role for FluG in the CDP ...
Environmental MicrobiologyResearch Article08 August 2022

Metabolism Interactions Promote the Overall Functioning of the Episymbiotic Chemosynthetic Community of Shinkaia crosnieri of Cold Seeps

https://doi.org/10.1128/msystems.00320-22
Symbioses between chemosynthetic bacteria and marine invertebrates are common in deep-sea chemosynthetic ecosystems and are considered critical foundations for deep-sea colonization. Episymbiotic microorganisms tend to form condensed biofilms that may ...
Open Peer ReviewComputational BiologyResearch Article26 July 2022

Mining of Thousands of Prokaryotic Genomes Reveals High Abundance of Prophages with a Strictly Narrow Host Range

https://doi.org/10.1128/msystems.00326-22
Phages and prophages play an essential role in controlling their host populations either by modulating the host abundance or providing them with genes that benefit the host. The constant growth in next-generation sequencing technology has caused the ...
Host-Microbial InteractionsResearch Article13 June 2022

Cultured Bacteria Provide Insight into the Functional Potential of the Coral-Associated Microbiome

https://doi.org/10.1128/msystems.00327-22
Microbes underpin the health of corals which are the building blocks of diverse and productive reef ecosystems. Studying the culturable fraction of coral-associated bacteria has received less attention in recent times than using culture-independent ...
Open Peer ReviewEnvironmental MicrobiologyResearch Article01 August 2022

Comparative Metagenomics Highlight a Widespread Pathway Involved in Catabolism of Phosphonates in Marine and Terrestrial Serpentinizing Ecosystems

https://doi.org/10.1128/msystems.00328-22
This first comparative metagenomic study of serpentinite-hosted environments provides an objective framework to understand the functioning of these peculiar ecosystems. We showed a taxonomic similarity between the PBHF and other terrestrial serpentinite-...
Environmental MicrobiologyResearch Article12 July 2022

Compositional and Metabolic Responses of Autotrophic Microbial Community to Salinity in Lacustrine Environments

https://doi.org/10.1128/msystems.00335-22
The Qinghai-Tibetan lakes are experiencing water increase and salinity decrease due to climate warming. However, little is known about how the salinity decrease will affect the composition of autotrophic microbial populations and their carbon fixation ...
Host-Microbial InteractionsResearch Article07 July 2022

Long-Term Effects of Developmental Exposure to Oxycodone on Gut Microbiota and Relationship to Adult Behaviors and Metabolism

https://doi.org/10.1128/msystems.00336-22
This is the first work to show in a rodent model that in utero exposure to an opioid drug can lead to longstanding effects on the gut microbiota when examined at adulthood. Further, such bacterial changes are associated with metabolic host responses. ...
Applied and Industrial MicrobiologyResearch Article12 July 2022

Gene Coexpression Connectivity Predicts Gene Targets Underlying High Ionic-Liquid Tolerance in Yarrowia lipolytica

https://doi.org/10.1128/msystems.00348-22
Cellular robustness to cope with stressors is an important phenotype. Y. lipolytica is an industrial robust oleaginous yeast that has recently been discovered to tolerate record high concentrations of ILs, beneficial for novel biotransformation in organic ...
Environmental MicrobiologyResearch Article26 July 2022

Deciphering the Mechanisms Shaping the Plastisphere Microbiota in Soil

https://doi.org/10.1128/msystems.00352-22
The increasing pervasive microplastic pollution is creating a new environmental compartment, termed plastisphere. Even though there was conclusive information characterizing the plastisphere, the underlying mechanisms shaping the bacterial communities in ...
Host-Microbial InteractionsResearch Article22 June 2022

Spatial Metabolomics Reveals Localized Impact of Influenza Virus Infection on the Lung Tissue Metabolome

https://doi.org/10.1128/msystems.00353-22
The influenza virus is a major health concern. Over 1 billion people become infected annually despite the wide distribution of vaccines, and antiviral agents are insufficient to address current clinical needs.
Computational BiologyResearch Article18 July 2022

Comparative Metagenomic Analysis of Biosynthetic Diversity across Sponge Microbiomes Highlights Metabolic Novelty, Conservation, and Diversification

https://doi.org/10.1128/msystems.00357-22
Marine sponges and their microbial symbiotic communities are a rich source of diverse natural products (NPs). However, little is known about the sponge NP global distribution landscape and the symbionts that produce them.
Environmental MicrobiologyResearch Article15 June 2022

Microbiome Restructuring: Dominant Coral Bacterium Endozoicomonas Species Respond Differentially to Environmental Changes

https://doi.org/10.1128/msystems.00359-22
The coral microbiome has been known to play a crucial role in host health. In recent years, we have known that the coral microbiome changes in response to external stressors and that coral hosts structure their microbiome in a host-specific manner.
Environmental MicrobiologyResearch Article09 August 2022

Host Plant Selection Imprints Structure and Assembly of Fungal Community along the Soil-Root Continuum

https://doi.org/10.1128/msystems.00361-22
Fungal community assembly along the soil-root continuum is shaped largely by the host plant rather than the soil type. This finding facilitates the implementations of fungi-associated biocontrol and growth-promoting for specific plants in agriculture ...
Open Peer ReviewMicrobial PathogenesisResearch Article05 July 2022

Forecasting Staphylococcus aureus Infections Using Genome-Wide Association Studies, Machine Learning, and Transcriptomic Approaches

https://doi.org/10.1128/msystems.00378-22
Predicting the outcome of bacterial colonization and infections, based on extensive genomic and transcriptomic data from a given pathogen, would be of substantial help for clinicians in treating and curing patients. In this report, genome-wide association ...
Editor's PickBiotechnologyResearch Article19 July 2022

Staphylococcus aureus Infection Initiates Hypoxia-Mediated Transforming Growth Factor-β1 Upregulation to Trigger Osteomyelitis

https://doi.org/10.1128/msystems.00380-22
The pathogenesis of osteomyelitis induced by Staphylococcus aureus remains unclear. To develop therapeutic approaches for osteomyelitis, it is important to understand the molecular mechanisms of its pathogenesis. Our results suggests that hypoxia/HIF-1α/...
Systems BiologyResearch Article01 August 2022

Vascular Proteome Responses Precede Organ Dysfunction in a Murine Model of Staphylococcus aureus Bacteremia

https://doi.org/10.1128/msystems.00395-22
Sepsis is a life-threatening response to infection that results in immune dysregulation, vascular dysfunction, and organ failure. New methods are needed for the identification of diagnostic and therapeutic targets.
Open Peer ReviewApplied and Industrial MicrobiologyResearch Article05 July 2022

Fungal Interactions Strengthen the Diversity-Functioning Relationship of Solid-State Fermentation Systems

https://doi.org/10.1128/msystems.00401-22
Biodiversity and network interactions act simultaneously on the microbial community structure in the Baijiu fermentation process, thereby rendering the microbiome dynamics challenging to manage and predict. Understanding the complex fermentation community ...
Open Peer ReviewSystems BiologyResearch Article11 August 2022

A Computational Toolbox to Investigate the Metabolic Potential and Resource Allocation in Fission Yeast

https://doi.org/10.1128/msystems.00423-22
Our understanding of microbial metabolism relies mostly on the knowledge we have obtained from a limited number of model organisms, and the diversity of metabolism beyond the handful of model species thus remains largely unexplored in mechanistic terms. ...
VirologyResearch Article14 July 2022

Comprehensive Evaluation of RNA and DNA Viromic Methods Based on Species Richness and Abundance Analyses Using Marmot Rectal Samples

https://doi.org/10.1128/msystems.00430-22
Viral metagenomics can be roughly divided into species richness-based studies and species abundance-based analyses. Viromic methods with different principles have been developed, but rational selection of these techniques according to different purposes ...
Microbial EcologyResearch Article08 August 2022

Long-Read-Resolved, Ecosystem-Wide Exploration of Nucleotide and Structural Microdiversity of Lake Bacterioplankton Genomes

https://doi.org/10.1128/msystems.00433-22
Identifying intraspecies genomic diversity (microdiversity) is crucial to understanding microbial ecology and evolution. However, microdiversity among environmental assemblages is not well investigated, because most microbes are difficult to culture.
Applied and Industrial MicrobiologyResearch Article04 August 2022

Exploiting Violet-Blue Light to Kill Campylobacter jejuni: Analysis of Global Responses, Modeling of Transcription Factor Activities, and Identification of Protein Targets

https://doi.org/10.1128/msystems.00454-22
Campylobacteriosis caused by C. jejuni is one of the most widespread zoonotic enteric diseases worldwide and represents an enormous human health and economic burden, compounded by the emergence of antibiotic-resistant strains. New interventions are ...
Environmental MicrobiologyResearch Article23 June 2022

Identification and Characterization of Major Bile Acid 7α-Dehydroxylating Bacteria in the Human Gut

https://doi.org/10.1128/msystems.00455-22
In this study, we identified a key 7α-dehydroxylating bacterial group predicted to be largely responsible for converting primary bile acids (BAs) to secondary BAs in the human gut through sequence similarity network, genome neighborhood network, and gene ...
Open Peer ReviewHuman MicrobiomeResearch Article25 July 2022

Hair Microbiome Diversity within and across Primate Species

https://doi.org/10.1128/msystems.00478-22
We created the most comprehensive primate hair and skin data set to date, including data from 12 nonhuman primate species sampled from 8 body regions each. We find that the nonhuman primate hair microbiome is distinct from the human hair and skin ...
Host-Microbial InteractionsResearch Article08 August 2022

Phylogenomic Diversity Elucidates Mechanistic Insights into Lyme Borreliae-Host Association

https://doi.org/10.1128/msystems.00488-22
Host association is the phenotype that is commonly found in many pathogens that preferential survive in particular hosts. The Lyme disease (LD)-causing agent, B. burgdorferi (Bb), is an ideal model to study host association, as Bb is mainly maintained in ...
Open Peer ReviewEnvironmental MicrobiologyResearch Article21 July 2022

Genome-Resolved Metaproteomics Decodes the Microbial and Viral Contributions to Coupled Carbon and Nitrogen Cycling in River Sediments

https://doi.org/10.1128/msystems.00516-22
Here we created HUM-V (hyporheic uncultured microbial and viral), an annotated microbial and viral MAG catalog that captures strain and functional diversity encoded in these Columbia River sediment samples. Demonstrating its utility, this genomic ...
Microbial EcologyResearch Article08 August 2022

Alteration of Manure Antibiotic Resistance Genes via Soil Fauna Is Associated with the Intestinal Microbiome

https://doi.org/10.1128/msystems.00529-22
Saprophagous fauna like the oriental edible beetle (P. brevitarsis) plays a fundamental role in converting organic wastes into biofertilizer. Accumulating evidence has shown that soil fauna can reduce the abundance of ARGs, although the underlying ...
Open Peer ReviewComputational BiologyResearch Article11 July 2022

N2 Fixation in Trichodesmium Does Not Require Spatial Segregation from Photosynthesis

https://doi.org/10.1128/msystems.00538-22
The filamentous Trichodesmium is a globally prominent marine nitrogen fixer. A long-standing paradox is that the nitrogen-fixing enzyme nitrogenase is sensitive to oxygen, but Trichodesmium conducts both nitrogen fixation and oxygen-evolving ...
Systems BiologyResearch Article11 August 2022

Reconstruction and Analysis of Thermodynamically Constrained Models Reveal Metabolic Responses of a Deep-Sea Bacterium to Temperature Perturbations

https://doi.org/10.1128/msystems.00588-22
Metabolic flexibility is a central component of any organism’s ability to survive and adapt to changes in environmental conditions. This study represents the first application of thermodynamically constrained genome-scale models in simulating the ...
Environmental MicrobiologyResearch Article19 July 2022

Adaptation to Environmental Extremes Structures Functional Traits in Biological Soil Crust and Hypolithic Microbial Communities

https://doi.org/10.1128/msystems.01419-21
Biocrusts serve as a keystone element of desert and dryland ecosystems, stabilizing soils, retaining moisture, and serving as a carbon and nitrogen source in oligotrophic environments. Biocrusts cover approximately 12% of the Earth’s terrestrial surface ...
Microbial EcologyResearch Article27 June 2022

Convergent and Divergent Age Patterning of Gut Microbiota Diversity in Humans and Nonhuman Primates

https://doi.org/10.1128/msystems.01512-21
This study provides the first comprehensive investigation of age patterning of gut microbiota of four human populations and three nonhuman primates and found that Prevotellamassilia, Prevotella, Gemmiger, Coprococcus, Faecalibacterium, and Roseburia may ...

Erratum

Antimicrobial ChemotherapyCorrection23 June 2022

Erratum for Ye et al., “Reduced Virulence and Enhanced Host Adaption during Antibiotics Therapy: a Story of a Within-Host Carbapenem-Resistant Klebsiella pneumoniae Sequence Type 11 Evolution in a Patient with a Serious Scrotal Abscess”

https://doi.org/10.1128/msystems.00545-22
Volume 7, no. 2, 2022, e01342-21, https://journals.asm.org/doi/10.1128/msystems.01342-21. Page 1: The gray box incorrectly lists Jianping Jiang’s email address as [email protected]. It should be [email protected]. In addition, this paper was originally posted on 23 February 2022, not 1 March 2022.
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Featured image: Accessing the coral-associated microbial dark matter. Created with BioRender.com. [See related article: Schultz et al., mSystems 7(4):e00367-22, 2022.] © 2022 Schultz et al. This content is distributed under the terms of the Creative Commons Attribution 4.0 International license.

Featured image: Accessing the coral-associated microbial dark matter. Created with BioRender.com. [See related article: Schultz et al., mSystems 7(4):e00367-22, 2022.] © 2022 Schultz et al. This content is distributed under the terms of the Creative Commons Attribution 4.0 International license.

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