Frontiers in Microbiology | Systems Microbiology

Mini Review

Published on 29 May 2018

Recent Advances and Ongoing Challenges in the Diagnosis of Microbial Infections by MALDI-TOF Mass Spectrometry

in Systems Microbiology

Walter Florio
Arianna Tavanti
Simona Barnini
Emilia Ghelardi
Antonella Lupetti

Frontiers in Microbiology

doi 10.3389/fmicb.2018.01097

16,298 views
111 citations

Original Research

Published on 25 May 2018

The Staphylococcus aureus Two-Component System AgrAC Displays Four Distinct Genomic Arrangements That Delineate Genomic Virulence Factor Signatures

in Systems Microbiology

Kumari S. Choudhary
Nathan Mih
Jonathan Monk
Erol Kavvas
James T. Yurkovich
George Sakoulas
Bernhard O. Palsson

Frontiers in Microbiology

doi 10.3389/fmicb.2018.01082

11,522 views
34 citations

Original Research

Published on 25 May 2018

CowPI: A Rumen Microbiome Focussed Version of the PICRUSt Functional Inference Software

in Systems Microbiology

Toby J. Wilkinson
Sharon A. Huws
Joan E. Edwards
Alison H. Kingston-Smith
Karen Siu-Ting
Martin Hughes
Francesco Rubino
Maximillian Friedersdorff
Christopher J. Creevey

Frontiers in Microbiology

doi 10.3389/fmicb.2018.01095

19,204 views
137 citations

Original Research

Published on 22 May 2018

On the Use of Diversity Measures in Longitudinal Sequencing Studies of Microbial Communities

in Systems Microbiology

Brandie D. Wagner
Gary K. Grunwald
Gary O. Zerbe
Susan K. Mikulich-Gilbertson
Charles E. Robertson
Edith T. Zemanick
J. Kirk Harris

Frontiers in Microbiology

doi 10.3389/fmicb.2018.01037

38,156 views
175 citations

Original Research

Published on 18 May 2018

Development of a Custom MALDI-TOF MS Database for Species-Level Identification of Bacterial Isolates Collected From Spacecraft and Associated Surfaces

in Systems Microbiology

Arman Seuylemezian
Heidi S. Aronson
James Tan
Mandy Lin
Wayne Schubert
Parag Vaishampayan

Frontiers in Microbiology

doi 10.3389/fmicb.2018.00780

12,099 views
52 citations

Original Research

Published on 16 May 2018

Different Sex-Based Responses of Gut Microbiota During the Development of Hepatocellular Carcinoma in Liver-Specific Tsc1-Knockout Mice

in Systems Microbiology

Rong Huang
Ting Li
Jiajia Ni
Xiaochun Bai
Yi Gao
Yang Li
Peng Zhang
Yan Gong

Frontiers in Microbiology

doi 10.3389/fmicb.2018.01008

6,187 views
49 citations

Original Research

Published on 15 May 2018

Effect of Limit-Fed Diets With Different Forage to Concentrate Ratios on Fecal Bacterial and Archaeal Community Composition in Holstein Heifers

in Systems Microbiology

Jun Zhang
Haitao Shi
Yajing Wang
Zhijun Cao
Hongjian Yang
Shengli Li

Frontiers in Microbiology

doi 10.3389/fmicb.2018.00976

6,463 views
49 citations

Original Research

Published on 15 May 2018

Identification and Characterization of a Cis Antisense RNA of the rpoH Gene of Salmonella enterica Serovar Typhi

in Systems Microbiology

Changyan Xiong
Xuejiao Li
Juanli Liu
Xin Zhao
Shungao Xu
Xinxiang Huang

Frontiers in Microbiology

doi 10.3389/fmicb.2018.00978

3,144 views
3 citations

Methods

Published on 15 May 2018

A Novel Strategy for Detecting Recent Horizontal Gene Transfer and Its Application to Rhizobium Strains

in Systems Microbiology

Xiangchen Li
Wenjun Tong
Lina Wang
Siddiq Ur. Rahman
Gehong Wei
Shiheng Tao

Frontiers in Microbiology

doi 10.3389/fmicb.2018.00973

15,031 views
21 citations

Original Research

Published on 14 May 2018

Identifying RNA N6-Methyladenosine Sites in Escherichia coli Genome

in Systems Microbiology

Jidong Zhang
Pengmian Feng
Hao Lin
Wei Chen

Frontiers in Microbiology

doi 10.3389/fmicb.2018.00955

4,388 views
26 citations

Original Research

Published on 04 May 2018

Highly Promiscuous Oxidases Discovered in the Bovine Rumen Microbiome

in Systems Microbiology

Lisa Ufarté
Gabrielle Potocki-Veronese
Davide Cecchini
Alexandra S. Tauzin
Angeline Rizzo
Diego P. Morgavi
Bernard Cathala
Céline Moreau
Megane Cleret
Patrick Robe

Frontiers in Microbiology

doi 10.3389/fmicb.2018.00861

7,382 views
14 citations

Original Research

Published on 03 May 2018

Oral Microbiota Community Dynamics Associated With Oral Squamous Cell Carcinoma Staging

in Systems Microbiology

Chia-Yu Yang
Yuan-Ming Yeh
Hai-Ying Yu
Chia-Yin Chin
Chia-Wei Hsu
Hsuan Liu
Po-Jung Huang
Song-Nian Hu
Chun-Ta Liao
Kai-Ping Chang

Frontiers in Microbiology

doi 10.3389/fmicb.2018.00862

24,161 views
337 citations

Methods

Published on 03 May 2018

Identifying Group-Specific Sequences for Microbial Communities Using Long k-mer Sequence Signatures

in Systems Microbiology

Ying Wang
Lei Fu
Jie Ren
Zhaoxia Yu
Ting Chen
Fengzhu Sun

Frontiers in Microbiology

doi 10.3389/fmicb.2018.00872

9,021 views
21 citations

Original Research

Published on 27 Apr 2018

Coral Bacterial-Core Abundance and Network Complexity as Proxies for Anthropogenic Pollution

in Systems Microbiology

Deborah C. A. Leite
Joana F. Salles
Emiliano N. Calderon
Clovis B. Castro
Adalto Bianchini
Joseane A. Marques
Jan Dirk van Elsas
Raquel S. Peixoto

Frontiers in Microbiology

doi 10.3389/fmicb.2018.00833

10,919 views
72 citations

Original Research

Published on 25 Apr 2018

Dietary Deoxynivalenol Contamination and Oral Lipopolysaccharide Challenge Alters the Cecal Microbiota of Broiler Chickens

in Systems Microbiology

Annegret Lucke
Josef Böhm
Qendrim Zebeli
Barbara U. Metzler-Zebeli

Frontiers in Microbiology

doi 10.3389/fmicb.2018.00804

7,316 views
67 citations

Technology Report

Published on 23 Apr 2018

SplinectomeR Enables Group Comparisons in Longitudinal Microbiome Studies

in Systems Microbiology

Robin R. Shields-Cutler
Gabe A. Al-Ghalith
Moran Yassour
Dan Knights

Frontiers in Microbiology

doi 10.3389/fmicb.2018.00785

13,278 views
65 citations

Original Research

Published on 13 Apr 2018

Circadian Disruption Changes Gut Microbiome Taxa and Functional Gene Composition

in Systems Microbiology

Jessica A. Deaver
Sung Y. Eum
Michal Toborek

Frontiers in Microbiology

doi 10.3389/fmicb.2018.00737

25,732 views
198 citations

Original Research

Published on 12 Apr 2018

Aerobic Growth of Rhodococcus aetherivorans BCP1 Using Selected Naphthenic Acids as the Sole Carbon and Energy Sources

in Systems Microbiology

Alessandro Presentato
Martina Cappelletti
Anna Sansone
Carla Ferreri
Elena Piacenza
Marc A. Demeter
Silvia Crognale
Maurizio Petruccioli
Giorgio Milazzo
Stefano Fedi

Frontiers in Microbiology

doi 10.3389/fmicb.2018.00672

8,730 views
43 citations

Original Research

Published on 11 Apr 2018

Functional Resistance to Recurrent Spatially Heterogeneous Disturbances Is Facilitated by Increased Activity of Surviving Bacteria in a Virtual Ecosystem

in Systems Microbiology

Sara König
Anja Worrich
Thomas Banitz
Hauke Harms
Matthias Kästner
Anja Miltner
Lukas Y. Wick
Karin Frank
Martin Thullner
Florian Centler

Frontiers in Microbiology

doi 10.3389/fmicb.2018.00734

5,473 views
13 citations

Original Research

Published on 10 Apr 2018

Microbiome of Total Versus Live Bacteria in the Gut of Rex Rabbits

in Systems Microbiology

Xiangchao Fu
Bo Zeng
Ping Wang
Lihuan Wang
Bin Wen
Ying Li
Hanzhong Liu
Shiqie Bai
Gang Jia

Frontiers in Microbiology

doi 10.3389/fmicb.2018.00733

8,696 views
34 citations

Original Research

Published on 06 Apr 2018

Gut Microbiota Profiling and Gut–Brain Crosstalk in Children Affected by Pediatric Acute-Onset Neuropsychiatric Syndrome and Pediatric Autoimmune Neuropsychiatric Disorders Associated With Streptococcal Infections

in Systems Microbiology

Andrea Quagliariello
Federica Del Chierico
Alessandra Russo
Sofia Reddel
Giulia Conte
Loris R. Lopetuso
Gianluca Ianiro
Bruno Dallapiccola
Francesco Cardona
Antonio Gasbarrini

Frontiers in Microbiology

doi 10.3389/fmicb.2018.00675

66,784 views
113 citations

Original Research

Published on 06 Apr 2018

Metabolic and Evolutionary Insights in the Transformation of Diphenylamine by a Pseudomonas putida Strain Unravelled by Genomic, Proteomic, and Transcription Analysis

in Systems Microbiology

Evangelia S. Papadopoulou
Chiara Perruchon
Sotirios Vasileiadis
Constantina Rousidou
Georgia Tanou
Martina Samiotaki
Athanassios Molassiotis
Dimitrios G. Karpouzas

Frontiers in Microbiology

doi 10.3389/fmicb.2018.00676

4,892 views
8 citations

Original Research

Published on 03 Apr 2018

Deletion of a Gene Encoding a Putative Peptidoglycan-Associated Lipoprotein Prevents Degradation of the Crystalline Region of Cellulose in Cytophaga hutchinsonii

in Systems Microbiology

Xifeng Wang
Zhiquan Wang
Xinfeng Bai
Yue Zhao
Weican Zhang
Xuemei Lu

Frontiers in Microbiology

doi 10.3389/fmicb.2018.00632

3,281 views
11 citations

Original Research

Published on 29 Mar 2018

Collective Vortex-Like Movement of Bacillus subtilis Facilitates the Generation of Floating Biofilms

in Systems Microbiology

Nitai Steinberg
Gili Rosenberg
Alona Keren-Paz
Ilana Kolodkin-Gal

Frontiers in Microbiology

doi 10.3389/fmicb.2018.00590

7,226 views
12 citations

1,793 articles

articles

Recent Advances and Ongoing Challenges in the Diagnosis of Microbial Infections by MALDI-TOF Mass Spectrometry

The Staphylococcus aureus Two-Component System AgrAC Displays Four Distinct Genomic Arrangements That Delineate Genomic Virulence Factor Signatures

CowPI: A Rumen Microbiome Focussed Version of the PICRUSt Functional Inference Software

On the Use of Diversity Measures in Longitudinal Sequencing Studies of Microbial Communities

Development of a Custom MALDI-TOF MS Database for Species-Level Identification of Bacterial Isolates Collected From Spacecraft and Associated Surfaces

Different Sex-Based Responses of Gut Microbiota During the Development of Hepatocellular Carcinoma in Liver-Specific Tsc1-Knockout Mice

Effect of Limit-Fed Diets With Different Forage to Concentrate Ratios on Fecal Bacterial and Archaeal Community Composition in Holstein Heifers

Identification and Characterization of a Cis Antisense RNA of the rpoH Gene of Salmonella enterica Serovar Typhi

A Novel Strategy for Detecting Recent Horizontal Gene Transfer and Its Application to Rhizobium Strains

Identifying RNA N6-Methyladenosine Sites in Escherichia coli Genome

Highly Promiscuous Oxidases Discovered in the Bovine Rumen Microbiome

Oral Microbiota Community Dynamics Associated With Oral Squamous Cell Carcinoma Staging

Identifying Group-Specific Sequences for Microbial Communities Using Long k-mer Sequence Signatures

Coral Bacterial-Core Abundance and Network Complexity as Proxies for Anthropogenic Pollution

Dietary Deoxynivalenol Contamination and Oral Lipopolysaccharide Challenge Alters the Cecal Microbiota of Broiler Chickens

SplinectomeR Enables Group Comparisons in Longitudinal Microbiome Studies

Circadian Disruption Changes Gut Microbiome Taxa and Functional Gene Composition

Aerobic Growth of Rhodococcus aetherivorans BCP1 Using Selected Naphthenic Acids as the Sole Carbon and Energy Sources

Functional Resistance to Recurrent Spatially Heterogeneous Disturbances Is Facilitated by Increased Activity of Surviving Bacteria in a Virtual Ecosystem

Microbiome of Total Versus Live Bacteria in the Gut of Rex Rabbits

Gut Microbiota Profiling and Gut–Brain Crosstalk in Children Affected by Pediatric Acute-Onset Neuropsychiatric Syndrome and Pediatric Autoimmune Neuropsychiatric Disorders Associated With Streptococcal Infections

Metabolic and Evolutionary Insights in the Transformation of Diphenylamine by a Pseudomonas putida Strain Unravelled by Genomic, Proteomic, and Transcription Analysis

Deletion of a Gene Encoding a Putative Peptidoglycan-Associated Lipoprotein Prevents Degradation of the Crystalline Region of Cellulose in Cytophaga hutchinsonii

Collective Vortex-Like Movement of Bacillus subtilis Facilitates the Generation of Floating Biofilms