Frontiers in Microbiology | Systems Microbiology

Original Research

Published on 05 Mar 2024

Metagenomic evidence for antibiotic-associated actinomycetes in the Karamay Gobi region

in Systems Microbiology

Shuai Yang
Wei Zhang
Bo Yang
Xin Feng
Yiyang Li
Xiaolin Li
Qin Liu

Frontiers in Microbiology

doi 10.3389/fmicb.2024.1330880

4,473 views
11 citations

Original Research

Published on 01 Mar 2024

An optimized culturomics strategy for isolation of human milk microbiota

in Systems Microbiology

Fan Wang
Lingmin Yu
Yuting Ren
Qianwen Zhang
Shanshan He
Minlei Zhao
Zhili He
Qi Gao
Jianguo Chen

Frontiers in Microbiology

doi 10.3389/fmicb.2024.1272062

5,642 views
15 citations

Methods

Published on 27 Feb 2024

A simple protocol for cultivating the bacterivorous soil nematode Caenorhabditis elegans in its natural ecology in the laboratory

in Systems Microbiology

Rocel Amor Indong
Jong Min Park
Jin-Kyung Hong
Eun Sun Lyou
Taeman Han
Jong Kwang Hong
Tae Kwon Lee
Jin I. Lee

Frontiers in Microbiology

doi 10.3389/fmicb.2024.1347797

5,913 views
2 citations

Original Research

Published on 21 Feb 2024

The bacterial and archaeal communities of flies, manure, lagoons, and troughs at a working dairy

in Systems Microbiology

Tawni L. Crippen
Dongmin Kim
Toni L. Poole
Sonja L. Swiger
Robin C. Anderson

Frontiers in Microbiology

doi 10.3389/fmicb.2023.1327841

5,578 views
5 citations

Original Research

Published on 20 Feb 2024

High-throughput screening of the effects of 90 xenobiotics on the simplified human gut microbiota model (SIHUMIx): a metaproteomic and metabolomic study

in Systems Microbiology

Victor Castañeda-Monsalve
Laura-Fabienne Fröhlich
Sven-Bastiaan Haange
Masun Nabhan Homsi
Ulrike Rolle-Kampczyk
Qiuguo Fu
Martin von Bergen
Nico Jehmlich

Frontiers in Microbiology

doi 10.3389/fmicb.2024.1349367

8,385 views
10 citations

Original Research

Published on 15 Feb 2024

Explainable artificial intelligence for microbiome data analysis in colorectal cancer biomarker identification

in Systems Microbiology

Pierfrancesco Novielli
Donato Romano
Michele Magarelli
Pierpaolo Di Bitonto
Domenico Diacono
Annalisa Chiatante
Giuseppe Lopalco
Daniele Sabella
Vincenzo Venerito
Pasquale Filannino

Frontiers in Microbiology

doi 10.3389/fmicb.2024.1348974

12,481 views
55 citations

Original Research

Published on 15 Feb 2024

Investigating causal associations among gut microbiota, metabolites, and psoriatic arthritis: a Mendelian randomization study

in Systems Microbiology

Xiao Xu
Lin-yun Wu
Shu-yun Wang
Min Yan
Yuan-Hong Wang
Li Li
Zhi-ling Sun
Ji-Xiang Zhao

Frontiers in Microbiology

doi 10.3389/fmicb.2024.1287637

7,563 views
8 citations

Original Research

Published on 14 Feb 2024

Discovery of novel replication proteins for large plasmids in cyanobacteria and their potential applications in genetic engineering

in Systems Microbiology

Kazuma Ohdate
Minori Sakata
Kaisei Maeda
Yutaka Sakamaki
Kaori Nimura-Matsune
Ryudo Ohbayashi
Wolfgang R. Hess
Satoru Watanabe

Frontiers in Microbiology

doi 10.3389/fmicb.2024.1311290

6,046 views
5 citations

Methods

Published on 12 Feb 2024

Unraveling the microbiome-metabolome nexus: a comprehensive study protocol for personalized management of Behçet’s disease using explainable artificial intelligence

in Systems Microbiology

Sabina Tangaro
Giuseppe Lopalco
Daniele Sabella
Vincenzo Venerito
Pierfrancesco Novielli
Donato Romano
Alessia Di Gilio
Jolanda Palmisani
Gianluigi de Gennaro
Pasquale Filannino

Frontiers in Microbiology

doi 10.3389/fmicb.2024.1341152

3,320 views
6 citations

Original Research

Published on 09 Feb 2024

Effects of type of substrate and dilution rate on fermentation in serial rumen mixed cultures

in Systems Microbiology

Emilio M. Ungerfeld
Nathaly Cancino-Padilla
Nelson Vera-Aguilera
M. Carolina Scorcione
Marcelo Saldivia
Lorena Lagos-Pailla
Milena Vera
Cristián Cerda
Camila Muñoz
Natalie Urrutia

Frontiers in Microbiology

doi 10.3389/fmicb.2024.1356966

4,519 views
5 citations

Editorial

Published on 09 Feb 2024

Editorial: Risk assessment of mycotoxins on metabolism, immunity, and intestinal health

in Systems Microbiology

Einar Ringø
Xiaoyum He
Xiao Li Shen
Jing Jin
Fuguo Xing

Frontiers in Microbiology

doi 10.3389/fmicb.2024.1367261

2,094 views
1 citation

Original Research

Published on 08 Feb 2024

Assessing probiotic viability in mixed species yogurt using a novel propidium monoazide (PMAxx)-quantitative PCR method

in Systems Microbiology

Tlaleo A. Marole
Thulani Sibanda
Elna M. Buys

Frontiers in Microbiology

doi 10.3389/fmicb.2024.1325268

5,249 views
12 citations

Original Research

Published on 08 Feb 2024

Whole genome sequencing and characterization of Pantoea agglomerans DBM 3797, endophyte, isolated from fresh hop (Humulus lupulus L.)

in Systems Microbiology

Petra Patakova
Maryna Vasylkivska
Karel Sedlar
Katerina Jureckova
Matej Bezdicek
Petra Lovecka
Barbora Branska
Petr Kastanek
Karel Krofta

Frontiers in Microbiology

doi 10.3389/fmicb.2024.1305338

7,769 views
6 citations

Original Research

Published on 08 Feb 2024

Genetically supported causality between gut microbiota, immune cells and morphine tolerance: a two-sample Mendelian randomization study

in Systems Microbiology

Shuai Han
Jiapei Gao
Zi Wang
Yinggang Xiao
Yali Ge
Yongxin Liang
Ju Gao

Frontiers in Microbiology

doi 10.3389/fmicb.2024.1343763

4,385 views
6 citations

Original Research

Published on 07 Feb 2024

Oral_voting_transfer: classification of oral microorganisms’ function proteins with voting transfer model

in Systems Microbiology

Wenzheng Bao
Yujun Liu
Baitong Chen

Frontiers in Microbiology

doi 10.3389/fmicb.2023.1277121

3,971 views
47 citations

Original Research

Published on 02 Feb 2024

Mendelian randomization analysis reveals an independent causal relationship between four gut microbes and acne vulgaris

in Systems Microbiology

Yujia Wu
Xiaoyun Wang
Wenjuan Wu
Jiankang Yang

Frontiers in Microbiology

doi 10.3389/fmicb.2024.1326339

6,074 views
12 citations

Review

Published on 02 Feb 2024

Bifidobacterium species viability in dairy-based probiotic foods: challenges and innovative approaches for accurate viability determination and monitoring of probiotic functionality

in Systems Microbiology

Thulani Sibanda
Tlaleo Azael Marole
Ursula Louise Thomashoff
Mapitsi S. Thantsha
Elna M. Buys

Frontiers in Microbiology

doi 10.3389/fmicb.2024.1327010

18,280 views
40 citations

Original Research

Published on 02 Feb 2024

MLFLHMDA: predicting human microbe-disease association based on multi-view latent feature learning

in Systems Microbiology

Ziwei Chen
Liangzhe Zhang
Jingyi Li
Mingyang Fu

Frontiers in Microbiology

doi 10.3389/fmicb.2024.1353278

2,420 views
6 citations

Technology and Code

Published on 31 Jan 2024

CyanoCyc cyanobacterial web portal

in Systems Microbiology

Lisa R. Moore
Ron Caspi
Douglas A. Campbell
John R. Casey
Sophie Crevecoeur
David J. Lea-Smith
Bin Long
Naaman M. Omar
Suzanne M. Paley
Nicolas M. Schmelling

Frontiers in Microbiology

doi 10.3389/fmicb.2024.1340413

11,624 views
13 citations

Editorial

Published on 30 Jan 2024

Editorial: The role of commensal microbiota in drug metabolism: friend or foe?

in Systems Microbiology

Jing-Hua Wang
Dong-Woo Lim
Mukesh Kumar Yadav
Xiao Zheng

Frontiers in Microbiology

doi 10.3389/fmicb.2024.1364747

2,373 views

Original Research

Published on 29 Jan 2024

Causal relationship between gut microbiota and hidradenitis suppurativa: a two-sample Mendelian randomization study

in Systems Microbiology

Chengling Liu
Xingchen Liu
Xin Li

Frontiers in Microbiology

doi 10.3389/fmicb.2024.1302822

6,533 views
15 citations

Review

Published on 29 Jan 2024

Linkages between rumen microbiome, host, and environment in yaks, and their implications for understanding animal production and management

in Systems Microbiology

Weiwei Wang
Yuntao Dong
Wei Guo
Xiao Zhang
A. Allan Degen
Sisi Bi
Luming Ding
Xiang Chen
Ruijun Long

Frontiers in Microbiology

doi 10.3389/fmicb.2024.1301258

8,788 views
22 citations

Original Research

Published on 25 Jan 2024

Gut microbiota, circulating metabolites, and gallstone disease: a Mendelian randomization study

in Systems Microbiology

Xutao Hu
Qiu Binxu
Guang-zhao Shao
Yu Huang
Wei Qiu

Frontiers in Microbiology

doi 10.3389/fmicb.2024.1336673

8,458 views
14 citations

Original Research

Published on 22 Jan 2024

Exploring the interplay between running exercises, microbial diversity, and tryptophan metabolism along the microbiota-gut-brain axis

in Systems Microbiology

Alejandra Vazquez-Medina
Nicole Rodriguez-Trujillo
Kiara Ayuso-Rodriguez
Fabiana Marini-Martinez
Roberto Angeli-Morales
Gerardo Caussade-Silvestrini
Filipa Godoy-Vitorino
Nataliya Chorna

Frontiers in Microbiology

doi 10.3389/fmicb.2024.1326584

6,362 views
16 citations

1,793 articles

articles

Metagenomic evidence for antibiotic-associated actinomycetes in the Karamay Gobi region

An optimized culturomics strategy for isolation of human milk microbiota

A simple protocol for cultivating the bacterivorous soil nematode Caenorhabditis elegans in its natural ecology in the laboratory

The bacterial and archaeal communities of flies, manure, lagoons, and troughs at a working dairy

High-throughput screening of the effects of 90 xenobiotics on the simplified human gut microbiota model (SIHUMIx): a metaproteomic and metabolomic study

Explainable artificial intelligence for microbiome data analysis in colorectal cancer biomarker identification

Investigating causal associations among gut microbiota, metabolites, and psoriatic arthritis: a Mendelian randomization study

Discovery of novel replication proteins for large plasmids in cyanobacteria and their potential applications in genetic engineering

Unraveling the microbiome-metabolome nexus: a comprehensive study protocol for personalized management of Behçet’s disease using explainable artificial intelligence

Effects of type of substrate and dilution rate on fermentation in serial rumen mixed cultures

Editorial: Risk assessment of mycotoxins on metabolism, immunity, and intestinal health

Assessing probiotic viability in mixed species yogurt using a novel propidium monoazide (PMAxx)-quantitative PCR method

Whole genome sequencing and characterization of Pantoea agglomerans DBM 3797, endophyte, isolated from fresh hop (Humulus lupulus L.)

Genetically supported causality between gut microbiota, immune cells and morphine tolerance: a two-sample Mendelian randomization study

Oral_voting_transfer: classification of oral microorganisms’ function proteins with voting transfer model

Mendelian randomization analysis reveals an independent causal relationship between four gut microbes and acne vulgaris

Bifidobacterium species viability in dairy-based probiotic foods: challenges and innovative approaches for accurate viability determination and monitoring of probiotic functionality

MLFLHMDA: predicting human microbe-disease association based on multi-view latent feature learning

CyanoCyc cyanobacterial web portal

Editorial: The role of commensal microbiota in drug metabolism: friend or foe?

Causal relationship between gut microbiota and hidradenitis suppurativa: a two-sample Mendelian randomization study

Linkages between rumen microbiome, host, and environment in yaks, and their implications for understanding animal production and management

Gut microbiota, circulating metabolites, and gallstone disease: a Mendelian randomization study

Exploring the interplay between running exercises, microbial diversity, and tryptophan metabolism along the microbiota-gut-brain axis