Frontiers in Microbiology | Systems Microbiology

Editorial

Published on 13 Oct 2021

Editorial: Research Topic Tools, Techniques, and Strategies for Teaching in a Real-World Context With Microbiology

in Systems Microbiology

Claire L. Gordy
Melissa V. Ramirez
Micah Vandegrift
Carlos C. Goller

Frontiers in Microbiology

doi 10.3389/fmicb.2021.755500

7,054 views
2 citations

Original Research

Published on 13 Oct 2021

Characterization of Basal Transcriptomes Identifies Potential Metabolic and Virulence-Associated Adaptations Among Diverse Nontyphoidal Salmonella enterica Serovars

in Systems Microbiology

Alexa R. Cohn
Renato H. Orsi
Laura M. Carroll
Ruixi Chen
Martin Wiedmann
Rachel A. Cheng

Frontiers in Microbiology

doi 10.3389/fmicb.2021.730411

4,082 views
6 citations

Original Research

Published on 13 Oct 2021

Alfalfa Silage Treated With Sucrose Has an Improved Feed Quality and More Beneficial Bacterial Communities

in Systems Microbiology

Jinhe Kang
Shaoxun Tang
Rongzhen Zhong
Zhiliang Tan
Duanqin Wu

Frontiers in Microbiology

doi 10.3389/fmicb.2021.670165

4,971 views
15 citations

Original Research

Published on 11 Oct 2021

Development of the in vitro Cecal Chicken ALIMEntary tRact mOdel-2 to Study Microbiota Composition and Function

in Systems Microbiology

Miriam J. Oost
Francisca C. Velkers
Aletta D. Kraneveld
Koen Venema

Frontiers in Microbiology

doi 10.3389/fmicb.2021.726447

6,764 views
14 citations

Methods

Published on 11 Oct 2021

Compositional Data Analysis of Microbiome and Any-Omics Datasets: A Validation of the Additive Logratio Transformation

in Systems Microbiology

Michael Greenacre
Marina Martínez-Álvaro
Agustín Blasco

Frontiers in Microbiology

doi 10.3389/fmicb.2021.727398

24,010 views
106 citations

Original Research

Published on 11 Oct 2021

Contribution of Maternal and Paternal Transmission to Bacterial Colonization in Nematostella vectensis

in Systems Microbiology

Laura Baldassarre
Shani Levy
Rinat Bar-Shalom
Laura Steindler
Tamar Lotan
Sebastian Fraune

Frontiers in Microbiology

doi 10.3389/fmicb.2021.726795

5,693 views
21 citations

Original Research

Published on 08 Oct 2021

Long-Term Mootral Application Impacts Methane Production and the Microbial Community in the Rumen Simulation Technique System

in Systems Microbiology

Johanna Brede
Manuela Peukert
Björn Egert
Gerhard Breves
Melanie Brede

Frontiers in Microbiology

doi 10.3389/fmicb.2021.691502

6,428 views
8 citations

Original Research

Published on 08 Oct 2021

Quantifying the Importance of Abiotic and Biotic Factors Governing the Succession of Gut Microbiota Over Shrimp Ontogeny

in Systems Microbiology

Wenqian Zhang
Zidong Zhu
Jiong Chen
Qiongfen Qiu
Jinbo Xiong

Frontiers in Microbiology

doi 10.3389/fmicb.2021.752750

4,779 views
13 citations

Original Research

Published on 07 Oct 2021

Fecal Microbiota Transplantation Modulates the Gut Flora Favoring Patients With Functional Constipation

in Systems Microbiology

Xueying Zhang
Ning Li
Qiyi Chen
Huanlong Qin

Frontiers in Microbiology

doi 10.3389/fmicb.2021.700718

10,454 views
54 citations

Original Research

Published on 07 Oct 2021

A Bayesian Negative Binomial Hierarchical Model for Identifying Diet–Gut Microbiome Associations

in Systems Microbiology

Alma Revers
Xiang Zhang
Aeilko H. Zwinderman

Frontiers in Microbiology

doi 10.3389/fmicb.2021.711861

3,503 views

Technology and Code

Published on 06 Oct 2021

Graph-Based Approaches Significantly Improve the Recovery of Antibiotic Resistance Genes From Complex Metagenomic Datasets

in Systems Microbiology

Daria Shafranskaya
Alexander Chori
Anton Korobeynikov

Frontiers in Microbiology

doi 10.3389/fmicb.2021.714836

3,880 views
10 citations

Review

Published on 06 Oct 2021

Inter-Kingdom Signaling of Stress Hormones: Sensing, Transport and Modulation of Bacterial Physiology

in Systems Microbiology

Amine Mohamed Boukerb
Melyssa Cambronel
Sophie Rodrigues
Ouiza Mesguida
Rikki Knowlton
Marc G. J. Feuilloley
Mohamed Zommiti
Nathalie Connil

Frontiers in Microbiology

doi 10.3389/fmicb.2021.690942

11,477 views
33 citations

Original Research

Published on 04 Oct 2021

Energy Availability Determines Strategy of Microbial Amino Acid Synthesis in Volatile Fatty Acid–Fed Anaerobic Methanogenic Chemostats

in Systems Microbiology

Jian Yao
Yan Zeng
Miaoxiao Wang
Yue-Qin Tang

Frontiers in Microbiology

doi 10.3389/fmicb.2021.744834

3,730 views
6 citations

Original Research

Published on 01 Oct 2021

Effect of Enterococcus faecium as a Water and/or Feed Additive on the Gut Microbiota, Hematologic and Immunological Parameters, and Resistance Against Francisellosis and Streptococcosis in Nile Tilapia (Oreochromis niloticus)

in Systems Microbiology

Suelen Aparecida Suphoronski
Felipe Pinheiro de Souza
Roberta Torres Chideroli
Leonardo Mantovani Favero
Natália Amoroso Ferrari
Henrique Momo Ziemniczak
Daniela Dib Gonçalves
Nelson Mauricio Lopera Barrero
Ulisses de Padua Pereira

Frontiers in Microbiology

doi 10.3389/fmicb.2021.743957

6,647 views
21 citations

Original Research

Published on 01 Oct 2021

Deep (Meta)genomics and (Meta)transcriptome Analyses of Fungal and Bacteria Consortia From Aircraft Tanks and Kerosene Identify Key Genes in Fuel and Tank Corrosion

in Systems Microbiology

Ines Krohn
Lutgardis Bergmann
Minyue Qi
Daniela Indenbirken
Yuchen Han
Pablo Perez-Garcia
Elena Katzowitsch
Birgit Hägele
Tim Lübcke
Christian Siry

Frontiers in Microbiology

doi 10.3389/fmicb.2021.722259

14,405 views
14 citations

Original Research

Published on 01 Oct 2021

The Microbial Composition of Lower Genital Tract May Affect the Outcome of in vitro Fertilization-Embryo Transfer

in Systems Microbiology

Ruiying Wang
Guojun Zhou
Lukanxuan Wu
Xin Huang
Yujing Li
Bin Luo
Huili Zhu
Wei Huang

Frontiers in Microbiology

doi 10.3389/fmicb.2021.729744

5,940 views
21 citations

Original Research

Published on 28 Sep 2021

Tumor-Associated Microbiota in Proximal and Distal Colorectal Cancer and Their Relationships With Clinical Outcomes

in Systems Microbiology

Min Jin
Fumei Shang
Jingjing Wu
Qilin Fan
Chen Chen
Jun Fan
Li Liu
Xiu Nie
Tao Zhang
Kailin Cai

Frontiers in Microbiology

doi 10.3389/fmicb.2021.727937

8,605 views
44 citations

Original Research

Published on 28 Sep 2021

Cross-Sectional Study on the Gut Microbiome of Parkinson’s Disease Patients in Central China

in Systems Microbiology

Liangwei Mao
Yu Zhang
Jing Tian
Ming Sang
Guimin Zhang
Yuling Zhou
Puqing Wang

Frontiers in Microbiology

doi 10.3389/fmicb.2021.728479

12,198 views
37 citations

Original Research

Published on 27 Sep 2021

Artificial Intelligence Systems for Diagnosis and Clinical Classification of COVID-19

in Systems Microbiology

Lan Yu
Xiaoli Shi
Xiaoling Liu
Wen Jin
Xiaoqing Jia
Shuxue Xi
Ailan Wang
Tianbao Li
Xiao Zhang
Geng Tian

Frontiers in Microbiology

doi 10.3389/fmicb.2021.729455

4,069 views
5 citations

Original Research

Published on 24 Sep 2021

Application of Machine Learning Techniques to an Agent-Based Model of Pantoea

in Systems Microbiology

Serena H. Chen
Pablo Londoño-Larrea
Andrew Stephen McGough
Amber N. Bible
Chathika Gunaratne
Pablo A. Araujo-Granda
Jennifer L. Morrell-Falvey
Debsindhu Bhowmik
Miguel Fuentes-Cabrera

Frontiers in Microbiology

doi 10.3389/fmicb.2021.726409

16,343 views
14 citations

Correction

Published on 24 Sep 2021

Corrigendum: Dietary Energy Level Promotes Rumen Microbial Protein Synthesis by Improving the Energy Productivity of the Ruminal Microbiome

in Systems Microbiology

Zhongyan Lu
Zhihui Xu
Zanming Shen
Yuanchun Tian
Hong Shen

Frontiers in Microbiology

doi 10.3389/fmicb.2021.770056

1,913 views
3 citations

Original Research

Published on 22 Sep 2021

Impacts of Ser/Thr Protein Kinase Stk1 on the Proteome, Twitching Motility, and Competitive Advantage in Pseudomonas aeruginosa

in Systems Microbiology

Xuan Zhu
Chao Feng
Lantian Zhou
Zhenzhen Li
Yue Zhang
Jianyi Pan

Frontiers in Microbiology

doi 10.3389/fmicb.2021.738690

3,991 views
4 citations

Original Research

Published on 20 Sep 2021

Age-Related Changes in the Ruminal Microbiota and Their Relationship With Rumen Fermentation in Lambs

in Systems Microbiology

Xuejiao Yin
Shoukun Ji
Chunhui Duan
Peizhi Tian
Sisi Ju
Hui Yan
Yingjie Zhang
Yueqin Liu

Frontiers in Microbiology

doi 10.3389/fmicb.2021.679135

6,951 views
56 citations

Original Research

Published on 20 Sep 2021

Metagenomics Reveals That Proper Placement After Long-Distance Transportation Significantly Affects Calf Nasopharyngeal Microbiota and Is Critical for the Prevention of Respiratory Diseases

in Systems Microbiology

Yaocheng Cui
Jiancheng Qi
Dongjie Cai
Jing Fang
Yue Xie
Hongrui Guo
Shiyi Chen
Xiaoping Ma
Liping Gou
Hengmin Cui

Frontiers in Microbiology

doi 10.3389/fmicb.2021.700704

5,044 views
9 citations

1,789 articles

articles

Editorial: Research Topic Tools, Techniques, and Strategies for Teaching in a Real-World Context With Microbiology

Characterization of Basal Transcriptomes Identifies Potential Metabolic and Virulence-Associated Adaptations Among Diverse Nontyphoidal Salmonella enterica Serovars

Alfalfa Silage Treated With Sucrose Has an Improved Feed Quality and More Beneficial Bacterial Communities

Development of the in vitro Cecal Chicken ALIMEntary tRact mOdel-2 to Study Microbiota Composition and Function

Compositional Data Analysis of Microbiome and Any-Omics Datasets: A Validation of the Additive Logratio Transformation

Contribution of Maternal and Paternal Transmission to Bacterial Colonization in Nematostella vectensis

Long-Term Mootral Application Impacts Methane Production and the Microbial Community in the Rumen Simulation Technique System

Quantifying the Importance of Abiotic and Biotic Factors Governing the Succession of Gut Microbiota Over Shrimp Ontogeny

Fecal Microbiota Transplantation Modulates the Gut Flora Favoring Patients With Functional Constipation

A Bayesian Negative Binomial Hierarchical Model for Identifying Diet–Gut Microbiome Associations

Graph-Based Approaches Significantly Improve the Recovery of Antibiotic Resistance Genes From Complex Metagenomic Datasets

Inter-Kingdom Signaling of Stress Hormones: Sensing, Transport and Modulation of Bacterial Physiology

Energy Availability Determines Strategy of Microbial Amino Acid Synthesis in Volatile Fatty Acid–Fed Anaerobic Methanogenic Chemostats

Effect of Enterococcus faecium as a Water and/or Feed Additive on the Gut Microbiota, Hematologic and Immunological Parameters, and Resistance Against Francisellosis and Streptococcosis in Nile Tilapia (Oreochromis niloticus)

Deep (Meta)genomics and (Meta)transcriptome Analyses of Fungal and Bacteria Consortia From Aircraft Tanks and Kerosene Identify Key Genes in Fuel and Tank Corrosion

The Microbial Composition of Lower Genital Tract May Affect the Outcome of in vitro Fertilization-Embryo Transfer

Tumor-Associated Microbiota in Proximal and Distal Colorectal Cancer and Their Relationships With Clinical Outcomes

Cross-Sectional Study on the Gut Microbiome of Parkinson’s Disease Patients in Central China

Artificial Intelligence Systems for Diagnosis and Clinical Classification of COVID-19

Application of Machine Learning Techniques to an Agent-Based Model of Pantoea

Corrigendum: Dietary Energy Level Promotes Rumen Microbial Protein Synthesis by Improving the Energy Productivity of the Ruminal Microbiome

Impacts of Ser/Thr Protein Kinase Stk1 on the Proteome, Twitching Motility, and Competitive Advantage in Pseudomonas aeruginosa

Age-Related Changes in the Ruminal Microbiota and Their Relationship With Rumen Fermentation in Lambs

Metagenomics Reveals That Proper Placement After Long-Distance Transportation Significantly Affects Calf Nasopharyngeal Microbiota and Is Critical for the Prevention of Respiratory Diseases