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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. Huanglongbing (HLB) is a worldwide devastating disease of citrus. There are no effective control measures for this newly emerging but century-old disease. Previously, we reported a combination of Penicillin G ...

    Authors: Muqing Zhang, Charles A Powell, Ying Guo, Lesley Benyon and Yongping Duan

    Citation: BMC Microbiology 2013 13:112

    Content type: Research article

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  2. Nontuberculous mycobacteria (NTM) are normal inhabitants of a variety of environmental reservoirs including natural and municipal water. The aim of this study was to document the variety of species of NTM in p...

    Authors: Rachel M Thomson, Robyn Carter, Carla Tolson, Chris Coulter, Flavia Huygens and Megan Hargreaves

    Citation: BMC Microbiology 2013 13:89

    Content type: Research article

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  3. The prevalence of drug-resistant bacteria has encouraged the search for novel antimicrobial compounds. Food-associated microorganisms, as a source of new antibiotics, have recently received considerable attent...

    Authors: Zhaohui Huang, Yu Hu, Linfei Shou and Mingxu Song

    Citation: BMC Microbiology 2013 13:87

    Content type: Research article

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  4. Human activities have greatly increased nitrogen (N) levels in natural habitats through atmospheric N deposition and nutrient leaching, which can have large effects on N cycling and other ecosystem processes. ...

    Authors: Sarah R Carrino-Kyker, Kurt A Smemo and David J Burke

    Citation: BMC Microbiology 2013 13:78

    Content type: Research article

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  5. GeoChip 3.0, a microbial functional gene array, containing ~28,000 oligonucleotide probes and targeting ~57,000 sequences from 292 functional gene families, provided a powerful tool for researching microbial c...

    Authors: Yuguang Zhang, Zhenmei Lu, Shanshan Liu, Yunfeng Yang, Zhili He, Zuohua Ren, Jizhong Zhou and Diqiang Li

    Citation: BMC Microbiology 2013 13:72

    Content type: Research article

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  6. Endophytic fungi represent underexplored resource of novel lead compounds and have a capacity to produce diverse class of plant secondary metabolites. Here we investigated endophytic fungi diversity and screen...

    Authors: Zhi-Qiang Xiong, Ying-Ying Yang, Na Zhao and Yong Wang

    Citation: BMC Microbiology 2013 13:71

    Content type: Research article

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  7. The microbiota has been shown to play an important role in the biology of insects. In recent decades, significant efforts have been made to better understand the diversity of symbiotic bacteria associated with...

    Authors: Claire Valiente Moro, Florence Hélène Tran, Fara Nantenaina Raharimalala, Pierre Ravelonandro and Patrick Mavingui

    Citation: BMC Microbiology 2013 13:70

    Content type: Research article

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  8. Tularemia is a zoonotic disease caused by Francisella tularensis that has been found in many different vertebrates. In Germany most human infections are caused by contact with infected European brown hares (Lepus...

    Authors: Wolfgang Müller, Helmut Hotzel, Peter Otto, Axel Karger, Barbara Bettin, Herbert Bocklisch, Silke Braune, Ulrich Eskens, Stefan Hörmansdorfer, Regina Konrad, Anne Nesseler, Martin Peters, Martin Runge, Gernot Schmoock, Bernd-Andreas Schwarz, Reinhard Sting…

    Citation: BMC Microbiology 2013 13:61

    Content type: Research article

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  9. Halomonas sp. ZM3 was isolated from Zelazny Most post-flotation mineral waste repository (Poland), which is highly contaminated with heavy metals and various organic compounds. Mobile DNA of the strain (i.e. plas...

    Authors: Lukasz Dziewit, Adam Pyzik, Renata Matlakowska, Jadwiga Baj, Magdalena Szuplewska and Dariusz Bartosik

    Citation: BMC Microbiology 2013 13:59

    Content type: Research article

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  10. Water-deficiency adversely affects crop growth by generating reactive oxygen species (ROS) at cellular level. To mitigate such stressful events, it was aimed to investigate the co-synergism of exogenous salicy...

    Authors: Abdul Latif Khan, Muhammad Waqas, Muhammad Hamayun, Ahmed Al-Harrasi, Ahmed Al-Rawahi and In-Jung Lee

    Citation: BMC Microbiology 2013 13:51

    Content type: Research article

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  11. The efficiency of recovery and the detection limit of Legionella after co-culture with Acanthamoeba polyphaga are not known and so far no investigations have been carried out to determine the efficiency of the re...

    Authors: Lisa Conza, Simona Casati and Valeria Gaia

    Citation: BMC Microbiology 2013 13:49

    Content type: Research article

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  12. In humans, Streptococcus agalactiae or group B streptococcus (GBS) is a frequent coloniser of the rectovaginal tract, a major cause of neonatal infectious disease and an emerging cause of disease in non-pregnant ...

    Authors: Christian MJ Delannoy, Margaret Crumlish, Michael C Fontaine, Jolinda Pollock, Geoff Foster, Mark P Dagleish, James F Turnbull and Ruth N Zadoks

    Citation: BMC Microbiology 2013 13:41

    Content type: Research article

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  13. Ciliates of the family Sonderiidae are common members of the eukaryotic communities in various anoxic environments. They host both ecto- and endosymbiotic prokaryotes (the latter associated with hydrogenosomes...

    Authors: Letizia Modeo, Sergei I Fokin, Vittorio Boscaro, Ilaria Andreoli, Filippo Ferrantini, Giovanna Rosati, Franco Verni and Giulio Petroni

    Citation: BMC Microbiology 2013 13:40

    Content type: Research article

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  14. The insertion element IS630 found in Aeromonas salmonicida belongs to the IS630-Tc1-mariner superfamily of transposons. It is present in multiple copies and represents approximately half of the IS present in the ...

    Authors: Nicole Studer, Joachim Frey and Philippe Vanden Bergh

    Citation: BMC Microbiology 2013 13:36

    Content type: Research article

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  15. Obesity induced by a high-caloric diet has previously been associated with changes in the gut microbiota in mice and in humans. In this study, pigs were cloned to minimize genetic and biological variation amon...

    Authors: Rebecca Pedersen, Anders Daniel Andersen, Lars Mølbak, Jan Stagsted and Mette Boye

    Citation: BMC Microbiology 2013 13:30

    Content type: Research article

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  16. Lippia sidoides Cham., also known as pepper-rosmarin, produces an essential oil in its leaves that is currently used by the pharmaceutical, perfumery and cosmetic industries for its antimicrobial and aromatic pro...

    Authors: Thais Freitas da Silva, Renata Estebanez Vollú, Diogo Jurelevicius, Daniela Sales Alviano, Celuta Sales Alviano, Arie Fitzgerald Blank and Lucy Seldin

    Citation: BMC Microbiology 2013 13:29

    Content type: Research article

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  17. Bacterial persistence describes a phenomenon wherein a small subpopulation of cells is able to survive a challenge with high doses of an antibiotic (or other stressor) better than the majority of the populatio...

    Authors: Niels Hofsteenge, Erik van Nimwegen and Olin K Silander

    Citation: BMC Microbiology 2013 13:25

    Content type: Research article

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  18. The oral spirochete bacterium Treponema denticola is associated with both the incidence and severity of periodontal disease. Although the biological or phenotypic properties of a significant number of T. denticol...

    Authors: Sisu Mo, Meng You, Yvonne CF Su, Donnabella C Lacap-Bugler, Yong-biao Huo, Gavin JD Smith, W Keung Leung and Rory M Watt

    Citation: BMC Microbiology 2013 13:24

    Content type: Research article

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  19. Uterine infections in dairy cows lower profitability of dairy operations. Infections of the reproductive tract are related to the overgrowth of pathogenic bacteria during the first three weeks after parturitio...

    Authors: Yvonne Wang, Burim N Ametaj, Divakar J Ambrose and Michael G Gänzle

    Citation: BMC Microbiology 2013 13:19

    Content type: Research article

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  20. Several cases of legionellosis have been diagnosed in the same French thermal spa in 1986, 1994 and 1997. L. pneumophila serogroup 1 (Lp1) strains have been isolated from several patients, but the source of conta...

    Authors: Zineddine Chaabna, Françoise Forey, Monique Reyrolle, Sophie Jarraud, Danièle Atlan, Dominique Fontvieille and Christophe Gilbert

    Citation: BMC Microbiology 2013 13:17

    Content type: Research article

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  21. Deviations in composition and diversity of intestinal microbiota in infancy have been associated with both the development and recurrence of atopic eczema. Thus, we decided to use a deep and global microarray-...

    Authors: Lotta Nylund, Reetta Satokari, Janne Nikkilä, Mirjana Rajilić-Stojanović, Marko Kalliomäki, Erika Isolauri, Seppo Salminen and Willem M de Vos

    Citation: BMC Microbiology 2013 13:12

    Content type: Research article

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  22. Mycobacterium abscessus group includes antibiotic-resistant, opportunistic mycobacteria that are responsible for sporadic cases and outbreaks of cutaneous, pulmonary and disseminated infections. However, because ...

    Authors: Mohamed Sassi, Imen Ben Kahla and Michel Drancourt

    Citation: BMC Microbiology 2013 13:3

    Content type: Research article

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  23. Plant endophytic bacteria play an important role benefiting plant growth or being pathogenic to plants or organisms that consume those plants. Multiple species of bacteria have been found co-inhabiting plants,...

    Authors: Tao Ding, Michael W Palmer and Ulrich Melcher

    Citation: BMC Microbiology 2013 13:1

    Content type: Research article

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  24. In molecular microbial ecology, massive sequencing is gradually replacing classical fingerprinting techniques such as terminal-restriction fragment length polymorphism (T-RFLP) combined with cloning-sequencing...

    Authors: David G Weissbrodt, Noam Shani, Lucas Sinclair, Grégory Lefebvre, Pierre Rossi, Julien Maillard, Jacques Rougemont and Christof Holliger

    Citation: BMC Microbiology 2012 12:306

    Content type: Methodology article

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  25. The identification of new virus strains is important for the study of infectious disease, but current (or existing) molecular biology methods are limited since the target sequence must be known to design genom...

    Authors: Tingsong Hu, Ying Zheng, Yan Zhang, Gangshan Li, Wei Qiu, Jing Yu, Qinghua Cui, Yiyin Wang, Chaoxiong Zhang, Xiaofang Zhou, Ziliang Feng, Weiguo Zhou, Quanshui Fan and Fuqiang Zhang

    Citation: BMC Microbiology 2012 12:305

    Content type: Research article

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  26. Currently, food regulatory authorities consider all Listeria monocytogenes isolates as equally virulent. However, an increasing number of studies demonstrate extensive variations in virulence and pathogenicity of...

    Authors: Sylvie M Roche, Olivier Grépinet, Annaëlle Kerouanton, Marie Ragon, Alexandre Leclercq, Stéphanie Témoin, Brigitte Schaeffer, Gilbert Skorski, Laurent Mereghetti, Alban Le Monnier and Philippe Velge

    Citation: BMC Microbiology 2012 12:304

    Content type: Research article

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  27. Microbial taxonomy remains a conservative discipline, relying on phenotypic information derived from growth in pure culture and techniques that are time-consuming and difficult to standardize, particularly whe...

    Authors: Jacqueline Z-M Chan, Mihail R Halachev, Nicholas J Loman, Chrystala Constantinidou and Mark J Pallen

    Citation: BMC Microbiology 2012 12:302

    Content type: Research article

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  28. Bats (Chiroptera) are one of the most diverse groups of mammals which carry out important ecological and agricultural functions that are beneficial to humans. However, they are increasingly recognized as natural ...

    Authors: Babatunji Akobi, Oladipo Aboderin, Takashi Sasaki and Adebayo Shittu

    Citation: BMC Microbiology 2012 12:279

    Content type: Research article

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  29. Protist communities inhabiting oxygen depleted waters have so far been characterized through both microscopical observations and sequence based techniques. However, the lack of cultures for abundant taxa sever...

    Authors: Claudia Wylezich, Sergey A Karpov, Alexander P Mylnikov, Ruth Anderson and Klaus Jürgens

    Citation: BMC Microbiology 2012 12:271

    Content type: Research article

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  30. The evolution of mycoplasmas from a common ancestor with Firmicutes has been characterized not only by genome down-sizing but also by horizontal gene transfer between mycoplasma species sharing a common host. The...

    Authors: Marc Breton, Florence Tardy, Emilie Dordet-Frisoni, Eveline Sagne, Virginie Mick, Joël Renaudin, Pascal Sirand-Pugnet, Christine Citti and Alain Blanchard

    Citation: BMC Microbiology 2012 12:257

    Content type: Research article

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  31. Fungal load quantification is a critical component of fungal community analyses. Limitation of current approaches for quantifying the fungal component in the human microbiome suggests the need for new broad-co...

    Authors: Cindy M Liu, Sergey Kachur, Michael G Dwan, Alison G Abraham, Maliha Aziz, Po-Ren Hsueh, Yu-Tsung Huang, Joseph D Busch, Louis J Lamit, Catherine A Gehring, Paul Keim and Lance B Price

    Citation: BMC Microbiology 2012 12:255

    Content type: Methodology article

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  32. Antarctica has been successfully colonized by microorganisms despite presenting adverse conditions for life such as low temperatures, high solar radiation, low nutrient availability and dryness. Although these...

    Authors: Mario Carrasco, Juan Manuel Rozas, Salvador Barahona, Jennifer Alcaíno, Víctor Cifuentes and Marcelo Baeza

    Citation: BMC Microbiology 2012 12:251

    Content type: Research article

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  33. Different systems contributing to copper homeostasis in bacteria have been described in recent years involving periplasmic and transport proteins that provide resistance via metal efflux to the extracellular m...

    Authors: Georgina Hernández-Montes, José M Argüello and Brenda Valderrama

    Citation: BMC Microbiology 2012 12:249

    Content type: Research article

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  34. Clostridium botulinum strains that produce botulinum neurotoxin type E (BoNT/E) are most commonly isolated from botulism cases, marine environments, and animals in regions of high latitude in the Northern hemisph...

    Authors: Brian H Raphael, Matthew Lautenschlager, Suzanne R Kalb, Laura I T de Jong, Michael Frace, Carolina Lúquez, John R Barr, Rafael A Fernández and Susan E Maslanka

    Citation: BMC Microbiology 2012 12:245

    Content type: Research article

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  35. Methane emissions by methanogen from livestock ruminants have significantly contributed to the agricultural greenhouse gas effect. It is worthwhile to compare methanogen from “energy-saving” animal (yak) and n...

    Authors: Xiao Dan Huang, Hui Yin Tan, Ruijun Long, Juan Boo Liang and André-Denis G Wright

    Citation: BMC Microbiology 2012 12:237

    Content type: Research article

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  36. Recent advances in sequencing technologies offer promising tools for generating large numbers of genomes, larger typing databases and improved mapping of environmental bacterial diversity. However, DNA-based m...

    Authors: Jon Ahlinder, Caroline Öhrman, Kerstin Svensson, Petter Lindgren, Anders Johansson, Mats Forsman, Pär Larsson and Andreas Sjödin

    Citation: BMC Microbiology 2012 12:220

    Content type: Research article

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  37. Pseudomonas aeruginosa is the most common bacterial pathogen infecting the lungs of patients with cystic fibrosis (CF). The Liverpool Epidemic Strain (LES) is transmissible, capable of superseding other P. aerugi...

    Authors: Chloe E James, Joanne L Fothergill, Hannah Kalwij, Amanda J Hall, Jennifer Cottell, Michael A Brockhurst and Craig Winstanley

    Citation: BMC Microbiology 2012 12:216

    Content type: Research article

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  38. In the past decade, researchers have proposed that the pldA gene for outer membrane phospholipase A (OMPLA) is important for bacterial colonization of the human gastric ventricle. Several conserved Helicobacter p...

    Authors: Hilde S Vollan, Tone Tannæs, Yoshio Yamaoka and Geir Bukholm

    Citation: BMC Microbiology 2012 12:206

    Content type: Research article

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  39. Small size eukaryotes play a fundamental role in the functioning of coastal ecosystems, however, the way in which these micro-organisms respond to combined effects of water temperature, UVB radiations (UVBR) a...

    Authors: Isabelle Domaizon, Cécile Lepère, Didier Debroas, Marc Bouvy, Jean Francois Ghiglione, Stephan Jacquet, Yvan Bettarel, Corinne Bouvier, Jean Pascal Torréton, Francesca Vidussi, Behzad Mostajir, Amy Kirkham, Emilie LeFloc’h, Eric Fouilland, Helene Montanié and Thierry Bouvier

    Citation: BMC Microbiology 2012 12:202

    Content type: Research article

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  40. Copper mining has led to Cu pollution in agricultural soils. In this report, the effects of Cu pollution on bacterial communities of agricultural soils from Valparaiso region, central Chile, were studied. Dena...

    Authors: Fabiola Altimira, Carolina Yáñez, Guillermo Bravo, Myriam González, Luis A Rojas and Michael Seeger

    Citation: BMC Microbiology 2012 12:193

    Content type: Research article

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  41. Mangrove forests are coastal wetlands that provide vital ecosystem services and serve as barriers against natural disasters like tsunamis, hurricanes and tropical storms. Mangroves harbour a large diversity of...

    Authors: Luiza L Andrade, Deborah CA Leite, Edir M Ferreira, Lívia Q Ferreira, Geraldo R Paula, Michael J Maguire, Casey RJ Hubert, Raquel S Peixoto, Regina MCP Domingues and Alexandre S Rosado

    Citation: BMC Microbiology 2012 12:186

    Content type: Research article

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  42. Bacteria grown on semi-solid media can build two types of multicellular structures, depending on the circumstances. Bodies (colonies) arise when a single clone is grown axenically (germ-free), whereas multispe...

    Authors: Irena Pátková, Jaroslav J Čepl, Tomáš Rieger, Anna Blahůšková, Zdeněk Neubauer and Anton Markoš

    Citation: BMC Microbiology 2012 12:178

    Content type: Research article

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  43. Aeromonas spp. are versatile bacteria that exhibit a wide variety of lifestyles. In an attempt to improve the understanding of human aeromonosis, we investigated whether clinical isolates displayed specific chara...

    Authors: Frédéric Roger, Hélène Marchandin, Estelle Jumas-Bilak, Angeli Kodjo and Brigitte Lamy

    Citation: BMC Microbiology 2012 12:62

    Content type: Research article

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  44. The high demand for ethanol in the U.S. has generated large stocks of wet distillers grains (DG), a byproduct from the manufacture of ethanol from corn and sorghum grains. Little is known, however, about the p...

    Authors: William C Rice, Michael L Galyean, Stephen B Cox, Scot E Dowd and N Andy Cole

    Citation: BMC Microbiology 2012 12:25

    Content type: Research article

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  45. Pseudofactin II is a recently identified biosurfactant secreted by Pseudomonas fluorescens BD5, the strain obtained from freshwater from the Arctic Archipelago of Svalbard. Pseudofactin II is a novel compound ide...

    Authors: Tomasz Janek, Marcin Łukaszewicz and Anna Krasowska

    Citation: BMC Microbiology 2012 12:24

    Content type: Research article

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