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Ecological and evolutionary microbiology

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. 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...

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

    Citation: BMC Microbiology 2017 17:4

    Content type: Research article

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  2. During chronic lung infections of cystic fibrosis patients Pseudomonas aeruginosa populations undergo extensive evolutionary diversification. However, the selective drivers of this evolutionary process are poorly...

    Authors: Emily V. Davies, Chloe E. James, Michael A. Brockhurst and Craig Winstanley

    Citation: BMC Microbiology 2017 17:3

    Content type: Research article

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  3. Previous studies on the bacteria associated with the bryophytes showed that there were abundant bacteria inhabited in/on these hosts. However, the type of bacteria and whether these discriminate between differ...

    Authors: Jing Yan Tang, Jing Ma, Xue Dong Li and Yan Hong Li

    Citation: BMC Microbiology 2016 16:276

    Content type: Research article

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  4. 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...

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

    Citation: BMC Microbiology 2016 16:274

    Content type: Methodology article

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  5. 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...

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

    Citation: BMC Microbiology 2016 16:265

    Content type: Research article

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  6. 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...

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

    Citation: BMC Microbiology 2016 16:262

    Content type: Research article

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  7. 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...

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

    Citation: BMC Microbiology 2016 16:254

    Content type: Research article

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  8. The microbiota plays an essential role in host health, particularly through competition with opportunistic pathogens. Changes in total bacterial load and microbiota structure can indicate early stages of disea...

    Authors: Andrea M. Tarnecki, William F. Patterson III and Covadonga R. Arias

    Citation: BMC Microbiology 2016 16:245

    Content type: Research article

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  9. The interaction mechanism between crop and soil microbial communities is a key issue in both agriculture and soil ecology. However, how soil microbial communities respond to crop planting and ultimately affect...

    Authors: Jiaojiao Niu, Zhongwen Rang, Chao Zhang, Wu Chen, Feng Tian, Huaqun Yin and Linjian Dai

    Citation: BMC Microbiology 2016 16:233

    Content type: Research article

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  10. Filamentous tropical marine cyanobacteria such as Moorea producens strain JHB possess a rich community of heterotrophic bacteria on their polysaccharide sheaths; however, these bacterial communities have not y...

    Authors: Susie L. Cummings, Debby Barbé, Tiago Ferreira Leao, Anton Korobeynikov, Niclas Engene, Evgenia Glukhov, William H. Gerwick and Lena Gerwick

    Citation: BMC Microbiology 2016 16:198

    Content type: Research article

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  11. Ophiocordyceps sinensis (DongChong XiaCao (DCXC) in Chinese), a fungal parasite of caterpillars, is a traditional Chinese medicine. Bioactive components isolated from natural DCXC poss...

    Authors: Fei Xia, Yan Liu, Meng-Yuan Guo, Guang-Rong Shen, Juan Lin and Xuan-Wei Zhou

    Citation: BMC Microbiology 2016 16:196

    Content type: Research article

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  12. Although semi-selective growth media have been developed for the isolation of Burkholderia cepacia complex bacteria from the environment, thus far Burkholderia multivorans has rarely been isolated from such sampl...

    Authors: Charlotte Peeters, Stijn Daenekindt and Peter Vandamme

    Citation: BMC Microbiology 2016 16:184

    Content type: Research article

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  13. Xiangjiang River (Hunan, China) has been contaminated with heavy metal for several decades by surrounding factories. However, little is known about the influence of a gradient of heavy metal contamination on t...

    Authors: Shiqi Jie, Mingming Li, Min Gan, Jianyu Zhu, Huaqun Yin and Xueduan Liu

    Citation: BMC Microbiology 2016 16:179

    Content type: Research article

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  14. Mycobacterium tuberculosis, the tuberculosis (TB) pathogen, despite a low level of genetic diversity, has revealed a high variety of biological and epidemiological characteristics link...

    Authors: Van Anh Thi Nguyen, Anne-Laure Bañuls, Thanh Hoa Thi Tran, Kim Lien Thi Pham, Thai Son Nguyen, Hung Van Nguyen, Ngoc Lan Thi Nguyen, Nam Lien Thi Nguyen, Duc Anh Dang, Guy B. Marks and Marc Choisy

    Citation: BMC Microbiology 2016 16:167

    Content type: Research article

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  15. Biogenic sulfuric acid (BSA) corrosion damages sewerage and wastewater treatment facilities but is not well investigated in sludge digesters. Sulfur/sulfide oxidizing bacteria (SOB) oxidize sulfur compounds to...

    Authors: Bettina Huber, Bastian Herzog, Jörg E. Drewes, Konrad Koch and Elisabeth Müller

    Citation: BMC Microbiology 2016 16:153

    Content type: Research article

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  16. Multiple types of solid waste in developing countries is disposed of together in dumpsites where there is interaction between humans, animals and the bacteria in the waste. To study the bacteria at the dumpsit...

    Authors: Kilaza Samson Mwaikono, Solomon Maina, Aswathy Sebastian, Megan Schilling, Vivek Kapur and Paul Gwakisa

    Citation: BMC Microbiology 2016 16:145

    Content type: Research article

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  17. Actinobacillus pleuropneumoniae is the etiologic agent of porcine contagious pleuropneumonia, which causes important worldwide economic losses in the swine industry. Several respirator...

    Authors: Abraham Loera-Muro, Mario Jacques, Francisco J. Avelar-González, Josée Labrie, Yannick D. N. Tremblay, Ricardo Oropeza-Navarro and Alma L. Guerrero-Barrera

    Citation: BMC Microbiology 2016 16:128

    Content type: Research article

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  18. Xyloglucan is an important component in plant cell walls that herbivores cannot digest without microbial symbionts. Leaf-cutting ants are major insect herbivores in the Neo-Tropics that rely on fungus-garden e...

    Authors: Pepijn W. Kooij, Jeroen W. M. Pullens, Jacobus J. Boomsma and Morten Schiøtt

    Citation: BMC Microbiology 2016 16:81

    Content type: Research article

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  19. Up to now, fecal–oral and oral–oral are the most commonly known routes for transmission of H. pylori, therefore, contaminated water can play an important role in transmission of H. pylori to humans. Genotyping us...

    Authors: Reza Ranjbar, Faham Khamesipour, Nematollah Jonaidi-Jafari and Ebrahim Rahimi

    Citation: BMC Microbiology 2016 16:40

    Content type: Research article

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  20. Agricultural activities inevitably result in anthropogenic interference with natural habitats. The diet and the gut microbiota of farmland wildlife can be altered due to the changes in food webs within agricul...

    Authors: Chun-Wen Chang, Bing-Hong Huang, Si-Min Lin, Chia-Lung Huang and Pei-Chun Liao

    Citation: BMC Microbiology 2016 16:33

    Content type: Research article

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  21. Arbuscular mycorrhizal fungi (AMF) are members of the phylum Glomeromycota, an early divergent fungal lineage that forms symbiotic associations with the large majority of land plants. These organisms are asexu...

    Authors: Laurence Daubois, Denis Beaudet, Mohamed Hijri and Ivan de la Providencia

    Citation: BMC Microbiology 2016 16:11

    Content type: Research article

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  22. Knowledge of the natural occurrence and community structure of entomopathogenic fungi is important to understand their ecological role. Species of the genus Metarhizium are widespread in soils and have recently b...

    Authors: Chad A. Keyser, Henrik H. De Fine Licht, Bernhardt M. Steinwender and Nicolai V. Meyling

    Citation: BMC Microbiology 2015 15:249

    Content type: Research article

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  23. Columnaris disease caused by Flavobacterium columnare is a serious problem in aquaculture, annually causing large economic losses around the world. Despite considerable research, the molecular epidemiology of F. ...

    Authors: Roghaieh Ashrafi, Katja Pulkkinen, Lotta-Riina Sundberg, Nina Pekkala and Tarmo Ketola

    Citation: BMC Microbiology 2015 15:243

    Content type: Research article

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  24. Lactobacillus plantarum is a lactic acid bacterium (LAB) of considerable industrial interest since it has an important role in the production of fermented food. In the present study, t...

    Authors: Haiyan Xu, Wenjun Liu, Wenyi Zhang, Jie Yu, Yuqin Song, Bilige Menhe, Heping Zhang and Zhihong Sun

    Citation: BMC Microbiology 2015 15:241

    Content type: Research article

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  25. Streptococcus thermophilus is a major dairy starter used for manufacturing of dairy products. In the present study, we developed a multilocus sequence typing (MLST) scheme for this imp...

    Authors: Jie Yu, Zhihong Sun, Wenjun Liu, Xiaoxia Xi, Yuqin Song, Haiyan Xu, Qiang Lv, Qiuhua Bao, Bilige Menghe and Tiansong Sun

    Citation: BMC Microbiology 2015 15:236

    Content type: Research article

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  26. Treated wastewater effluent has been found to contain high levels of contaminants, including disease-causing bacteria such as Listeria and Aeromonas species. The aim of this study was to evaluate the antimicrobia...

    Authors: Ademola O. Olaniran, Sphephile B T Nzimande and Ndumiso G. Mkize

    Citation: BMC Microbiology 2015 15:234

    Content type: Research article

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  27. Few studies have reported the species composition of bacterial communities in marine biofilms formed on natural or on man-made existing structures. In particular, the roles and surface specificities of primary...

    Authors: Ibtissem Doghri, Sophie Rodrigues, Alexis Bazire, Alain Dufour, David Akbar, Valérie Sopena, Sophie Sablé and Isabelle Lanneluc

    Citation: BMC Microbiology 2015 15:231

    Content type: Research article

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  28. Terpenes represent one of the largest and most diversified families of natural compounds and are used in numerous industrial applications. Terpene synthase (TPS) genes originated in bacteria as diterpene synth...

    Authors: Marc JC Fischer, Camille Rustenhloz, Véronique Leh-Louis and Guy Perrière

    Citation: BMC Microbiology 2015 15:221

    Content type: Research article

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  29. The fungal genus Phlebia consists of a number of species that are significant in wood decay. Biotechnological potential of a few species for enzyme production and degradation of lignin and pollutants has been pre...

    Authors: Jaana Kuuskeri, Miia R. Mäkelä, Jarkko Isotalo, Ilona Oksanen and Taina Lundell

    Citation: BMC Microbiology 2015 15:217

    Content type: Research article

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  30. The diversity of lichen fungal components and their photosynthetic partners reflects both ecological and evolutionary factors. In present study, molecular investigations of the internal transcribed spacer of t...

    Authors: Shunan Cao, Fang Zhang, Chuanpeng Liu, Zhihua Hao, Yuan Tian, Lingxiang Zhu and Qiming Zhou

    Citation: BMC Microbiology 2015 15:212

    Content type: Research article

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  31. Tropical rainforests cover over 50 % of all known plant and animal species and provide a variety of key resources and ecosystem services to humans, largely mediated by metabolic activities of soil microbial co...

    Authors: Jing Cong, Xueduan Liu, Hui Lu, Han Xu, Yide Li, Ye Deng, Diqiang Li and Yuguang Zhang

    Citation: BMC Microbiology 2015 15:167

    Content type: Research article

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  32. Evidence suggests that early life infections, presence of older siblings and furred pets in the household affect the risk of developing allergic diseases through altered microbial exposure. Recently, low gut m...

    Authors: Martin Frederik Laursen, Gitte Zachariassen, Martin Iain Bahl, Anders Bergström, Arne Høst, Kim F. Michaelsen and Tine Rask Licht

    Citation: BMC Microbiology 2015 15:154

    Content type: Research article

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  33. A TaqMan real-time PCR assay targeting the Anaplasma citrate synthase gene, gltA, was developed and used for detection of Anaplasma phagocytophilum in 765 Ixodes ricinus ticks collected from dogs and cats in nort...

    Authors: Anna J. Henningsson, Dag Hvidsten, Bjørn-Erik Kristiansen, Andreas Matussek, Snorre Stuen and Andrew Jenkins

    Citation: BMC Microbiology 2015 15:153

    Content type: Research article

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  34. This study investigated the prevalence, serotypes and antimicrobial sensitivity patterns of Salmonella enterica in environment in Ouagadougou, Burkina Faso. A total of 476 samples, consisting of 36 samples of tap...

    Authors: Oumar Traoré, Outi Nyholm, Anja Siitonen, Isidore Juste O Bonkoungou, Alfred S Traoré, Nicolas Barro and Kaisa Haukka

    Citation: BMC Microbiology 2015 15:151

    Content type: Research article

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  35. Trichoderma is one of the most common fungi in soil. However, little information is available concerning the diversity of Trichoderma in soil with no previous history of cultivation. T...

    Authors: Abdullah M. Al-Sadi, Fatma A. Al-Oweisi, Simon G. Edwards, Hamed Al-Nadabi and Ahmed M. Al-Fahdi

    Citation: BMC Microbiology 2015 15:147

    Content type: Research article

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  36. The native microflora associated with mosquitoes have important roles in mosquito development and vector competence. Sequencing of bacterial V3 region from 16S rRNA genes across the developmental stages of Culex ...

    Authors: Dagne Duguma, Michael W. Hall, Paul Rugman-Jones, Richard Stouthamer, Olle Terenius, Josh D. Neufeld and William E. Walton

    Citation: BMC Microbiology 2015 15:140

    Content type: Research article

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  37. Enterococci have emerged as an important opportunistic pathogen causing life-threatening infections in hospitals. The emergence of this pathogen is associated with a remarkable capacity to accumulate resistanc...

    Authors: Benson C Iweriebor, Larry C Obi and Anthony I Okoh

    Citation: BMC Microbiology 2015 15:136

    Content type: Research article

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  38. Despite all the benefits assigned to the genetically modified plants, there are still no sufficient data available in literature concerning the possible effects on the microbial communities associated with the...

    Authors: Débora Alves Ferreira da Silva, Simone Raposo Cotta, Renata Estebanez Vollú, Diogo de Azevedo Jurelevicius, Joana Montezano Marques, Ivanildo Evódio Marriel and Lucy Seldin

    Citation: BMC Microbiology 2014 14:332

    Content type: Research article

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  40. Although the importance of the human oral microbiome for health and disease is increasingly recognized, variation in the composition of the oral microbiome across different climates and geographic regions is l...

    Authors: Jing Li, Dominique Quinque, Hans-Peter Horz, Mingkun Li, Margarita Rzhetskaya, Jennifer A Raff, M Geoffrey Hayes and Mark Stoneking

    Citation: BMC Microbiology 2014 14:316

    Content type: Research article

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  41. Since the landmark Santa Rosalia paper by Hutchinson, niche theory addresses the determinants of biodiversity in terms of both environmental and biological aspects. Disentangling the role of habitat filtering ...

    Authors: Alberto Pascual-García, Javier Tamames and Ugo Bastolla

    Citation: BMC Microbiology 2014 14:284

    Content type: Research Article

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  42. Deleterious phenomena of protein oxidation affect every aerobic organism and methionine residues are their elective targets. The reduction of methionine sulfoxides back to methionines is catalyzed by methionin...

    Authors: Nicoleta Dobri, Annalisa Candelori, Francesca Ricci, Pierangelo Luporini and Adriana Vallesi

    Citation: BMC Microbiology 2014 14:288

    Content type: Research article

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  43. A main export market for chicken meat from industrialized countries is sub-Saharan Africa. We hypothesized that antibiotic resistant bacteria could be exported to developing countries through chicken meat trad...

    Authors: Frieder Schaumburg, Abraham S Alabi, Lisa Frielinghaus, Martin P Grobusch, Robin Köck, Karsten Becker, Saadou Issifou, Peter G Kremsner, Georg Peters and Alexander Mellmann

    Citation: BMC Microbiology 2014 14:286

    Content type: Research article

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  44. Infant microbiota is influenced by numerous factors, such as delivery mode, environment, prematurity and diet (breast milk or formula) and last but not least, the diet composition. In the diet composition, pro...

    Authors: Wenguang Fan, Yaru Tang, Yi Qu, Fengbo Cao and Guicheng Huo

    Citation: BMC Microbiology 2014 14:279

    Content type: Research article

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  45. Today there are more than 2 billion alcohol users and about 1.3 billion tobacco users worldwide. The chronic and heavy use of these two substances is at the heart of numerous diseases and may wreak havoc on th...

    Authors: Andrew Maltez Thomas, Frederico Omar Gleber-Netto, Gustavo Ribeiro Fernandes, Maria Amorim, Luisa Fernanda Barbosa, Ana Luisa Noronha Francisco, Arthur Guerra de Andrade, João Carlos Setubal, Luiz Paulo Kowalski, Diana Noronha Nunes and Emmanuel Dias-Neto

    Citation: BMC Microbiology 2014 14:250

    Content type: Research article

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  47. Synthetic microplastics (≤5-mm fragments) are emerging environmental contaminants that have been found to accumulate within coastal marine sediments worldwide. The ecological impacts and fate of microplastic d...

    Authors: Jesse P Harrison, Michaela Schratzberger, Melanie Sapp and A Mark Osborn

    Citation: BMC Microbiology 2014 14:232

    Content type: Research article

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  48. The IncU conjugative transfer module represents highly efficient promiscuous system widespread among conjugative plasmids of different incompatibility groups. Despite its frequent occurrence the mechanisms of ...

    Authors: Jolanta Godziszewska, Anna Kulińska and Grażyna Jagura-Burdzy

    Citation: BMC Microbiology 2014 14:235

    Content type: Research article

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  49. ‘Candidatus Streptomyces philanthi’ is a monophyletic clade of formerly uncultured bacterial symbionts in solitary digger wasps of the genera Philanthus, Philanthinus and Trachypus (Hymenoptera, Crabronidae). The...

    Authors: Taras Y Nechitaylo, Martin Westermann and Martin Kaltenpoth

    Citation: BMC Microbiology 2014 14:202

    Content type: Research article

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  50. Adhesiveness to intestinal epithelium, beneficial immunomodulating effects and the production of pathogen-inhibitory compounds are generally considered as beneficial characteristics of probiotic organisms. We ...

    Authors: Ulla Hynönen, Ravi Kant, Tanja Lähteinen, Taija E Pietilä, Jasna Beganović, Hauke Smidt, Ksenija Uroić, Silja Åvall-Jääskeläinen and Airi Palva

    Citation: BMC Microbiology 2014 14:199

    Content type: Research article

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