Ecological and evolutionary microbiology

Section edited by Jizhong Zhou

This section aims to publish studies looking at all aspects of ecological and evolutionary microbiology, including microbial ecology, ecosystems, biodiversity, evolution, population genetics, phylogenetics, microbial communities and biofilms, marine and freshwater microbiology.

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  1. Research article

    Relationship between nasopharyngeal and bronchoalveolar microbial communities in clinically healthy feedlot cattle

    The importance of upper airway structure in the susceptibility of the lower respiratory tract to colonization with potential pathogens is well established. With the advent of rapid, high throughput, next gener...

    Mohamed M. Zeineldin, James F. Lowe, Elsbeth D. Grimmer, Maria R. C. de Godoy, Mohamed M. Ghanem, Yassein M. Abd El-Raof and Brian M. Aldridge

    BMC Microbiology 2017 17:138

    Published on: 23 June 2017

  2. Research article

    Isolation, characterization and transcriptome analysis of a novel Antarctic Aspergillus sydowii strain MS-19 as a potential lignocellulosic enzyme source

    With the growing demand for fossil fuels and the severe energy crisis, lignocellulose is widely regarded as a promising cost-effective renewable resource for ethanol production, and the use of lignocellulose r...

    Bailin Cong, Nengfei Wang, Shenghao Liu, Feng Liu, Xiaofei Yin and Jihong Shen

    BMC Microbiology 2017 17:129

    Published on: 30 May 2017

  3. Research article

    When more is less: Emergent suppressive interactions in three-drug combinations

    In drug-drug interactions, there are surprising cases in which the growth inhibition of bacteria by a single antibiotic decreases when a second antibiotic is added. These interactions are termed suppressive an...

    Casey Beppler, Elif Tekin, Cynthia White, Zhiyuan Mao, Jeffrey H. Miller, Robert Damoiseaux, Van M. Savage and Pamela J. Yeh

    BMC Microbiology 2017 17:107

    Published on: 6 May 2017

  4. Research article

    In vitro transfer of methicillin resistance determinants mecA from methicillin resistant Staphylococcus aureus (MRSA) to methicillin susceptible Staphylococcus aureus (MSSA)

    Staphylococcus aureus more than any other human pathogen is a better model for the study of the adaptive evolution of bacterial resistance to antibiotics, as it has demonstrated a rema...

    Asinamai Athliamai Bitrus, Zakaria Zunita, Siti Khairani Bejo, Sarah Othman and Nur Adilah Ahmad Nadzir

    BMC Microbiology 2017 17:83

    Published on: 4 April 2017

  5. Research article

    Application of hierarchical oligonucleotide primer extension (HOPE) to assess relative abundances of ammonia- and nitrite-oxidizing bacteria

    Establishing an optimal proportion of nitrifying microbial populations, including ammonia-oxidizing bacteria (AOB), nitrite-oxidizing bacteria (NOB), complete nitrite oxidizers (comammox) and ammonia-oxidizing...

    Giantommaso Scarascia, Hong Cheng, Moustapha Harb and Pei-Ying Hong

    BMC Microbiology 2017 17:85

    Published on: 4 April 2017

  6. Research article

    Initial nitrogen enrichment conditions determines variations in nitrogen substrate utilization by heterotrophic bacterial isolates

    The nitrogen (N) cycle consists of complex microbe-mediated transformations driven by a variety of factors, including diversity and concentrations of N compounds. In this study, we examined taxonomic diversity...

    Suchismita Ghosh, Paul A. Ayayee, Oscar J. Valverde-Barrantes, Christopher B. Blackwood, Todd V. Royer and Laura G. Leff

    BMC Microbiology 2017 17:87

    Published on: 4 April 2017

  7. Research article

    The nasopharyngeal microbiota of beef cattle before and after transport to a feedlot

    The nasopharyngeal (NP) microbiota plays an important role in bovine health, comprising a rich and diverse microbial community. The nasopharynx is also the niche for potentially pathogenic agents which are ass...

    Devin B. Holman, Edouard Timsit, Samat Amat, D. Wade Abbott, Andre G. Buret and Trevor W. Alexander

    BMC Microbiology 2017 17:70

    Published on: 22 March 2017

    The Erratum to this article has been published in BMC Microbiology 2017 17:95

  8. Research article

    Costs and benefits of natural transformation in Acinetobacter baylyi

    Natural transformation enables acquisition of adaptive traits and drives genome evolution in prokaryotes. Yet, the selective forces responsible for the evolution and maintenance of natural transformation remai...

    Nils Hülter, Vidar Sørum, Kristina Borch-Pedersen, Mikkel M. Liljegren, Ane L. G. Utnes, Raul Primicerio, Klaus Harms and Pål J. Johnsen

    BMC Microbiology 2017 17:34

    Published on: 15 February 2017

  9. Researc article

    Do biofilm communities respond to the chemical signatures of fracking? A test involving streams in North-central Arkansas

    Unconventional natural gas (UNG) extraction (fracking) is ongoing in 29 North American shale basins (20 states), with ~6000 wells found within the Fayetteville shale (north-central Arkansas). If the chemical s...

    Wilson H. Johnson, Marlis R. Douglas, Jeffrey A. Lewis, Tara N. Stuecker, Franck G. Carbonero, Bradley J. Austin, Michelle A. Evans-White, Sally A. Entrekin and Michael E. Douglas

    BMC Microbiology 2017 17:29

    Published on: 3 February 2017

  10. Research article

    Competition assays and physiological experiments of soil and phyllosphere yeasts identify Candida subhashii as a novel antagonist of filamentous fungi

    While recent advances in next generation sequencing technologies have enabled researchers to readily identify countless microbial species in soil, rhizosphere, and phyllosphere microbiomes, the biological func...

    Maja Hilber-Bodmer, Michael Schmid, Christian H. Ahrens and Florian M. Freimoser

    BMC Microbiology 2017 17:4

    Published on: 5 January 2017

  11. Methodology article

    Evaluation of PacBio sequencing for full-length bacterial 16S rRNA gene classification

    Currently, bacterial 16S rRNA gene analyses are based on sequencing of individual variable regions of the 16S rRNA gene (Kozich, et al Appl Environ Microbiol 79:5112–5120, 2013).This short read approach can intro...

    Josef Wagner, Paul Coupland, Hilary P. Browne, Trevor D. Lawley, Suzanna C. Francis and Julian Parkhill

    BMC Microbiology 2016 16:274

    Published on: 14 November 2016

  12. Research article

    Occurrence, diversity and community structure of culturable atrazine degraders in industrial and agricultural soils exposed to the herbicide in Shandong Province, P.R. China

    Soil populations of bacteria rapidly degrading atrazine are critical to the environmental fate of the herbicide. An enrichment bias from the routine isolation procedure prevents studying the diversity of atraz...

    Dmitry P. Bazhanov, Chengyun Li, Hongmei Li, Jishun Li, Xinjian Zhang, Xiangfeng Chen and Hetong Yang

    BMC Microbiology 2016 16:265

    Published on: 8 November 2016

  13. Research article

    Spontaneous mutations in the flhD operon generate motility heterogeneity in Escherichia coli biofilm

    Heterogeneity and niche adaptation in bacterial biofilm involve changes to the genetic makeup of the bacteria and gene expression control. We hypothesized that i) spontaneous mutations in the flhD operon can eith...

    Shelley M. Horne, Joseph Sayler, Nicholas Scarberry, Meredith Schroeder, Ty Lynnes and Birgit M. Prüß

    BMC Microbiology 2016 16:262

    Published on: 8 November 2016

  14. Research article

    Comparison of antibiotic resistant Escherichia coli obtained from drinking water sources in northern Tanzania: a cross-sectional study

    Antimicrobial resistance (AMR) is a growing and significant threat to public health on a global scale. Escherichia coli comprises Gram-negative, fecal-borne pathogenic and commensal bacteria that are frequently a...

    Beatus Lyimo, Joram Buza, Murugan Subbiah, Woutrina Smith and Douglas R. Call

    BMC Microbiology 2016 16:254

    Published on: 3 November 2016

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