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  1. Working toward a general framework to understand the role of microbiota in animal biology requires the characterisation of animal-associated microbial communities and identification of the evolutionary and eco...

    Authors: H. Pieter J. van Veelen, Joana Falcao Salles and B. Irene Tieleman
    Citation: Microbiome 2017 5:156
  2. Excesses of antibiotic resistance genes (ARGs), which are regarded as emerging environmental pollutants, have been observed in various environments. The incidence of ARGs in drinking water causes potential ris...

    Authors: Liping Ma, Bing Li, Xiao-Tao Jiang, Yu-Lin Wang, Yu Xia, An-Dong Li and Tong Zhang
    Citation: Microbiome 2017 5:154
  3. Most studies describing the human gut microbiome in healthy and diseased states have emphasized the bacterial component, but the fungal microbiome (i.e., the mycobiome) is beginning to gain recognition as a fu...

    Authors: Andrea K. Nash, Thomas A. Auchtung, Matthew C. Wong, Daniel P. Smith, Jonathan R. Gesell, Matthew C. Ross, Christopher J. Stewart, Ginger A. Metcalf, Donna M. Muzny, Richard A. Gibbs, Nadim J. Ajami and Joseph F. Petrosino
    Citation: Microbiome 2017 5:153
  4. The microbiota of the bovine upper respiratory tract has been recently characterized, but no data for the lower respiratory tract are available. A major health problem in bovine medicine is infectious bronchop...

    Authors: Isabella Nicola, Francesco Cerutti, Elena Grego, Iride Bertone, Paola Gianella, Antonio D’Angelo, Simone Peletto and Claudio Bellino
    Citation: Microbiome 2017 5:152
  5. Colorectal cancer is a worldwide health problem. Despite growing evidence that members of the gut microbiota can drive tumorigenesis, little is known about what happens to it after treatment for an adenoma or ...

    Authors: Marc A. Sze, Nielson T. Baxter, Mack T. Ruffin IV, Mary A. M. Rogers and Patrick D. Schloss
    Citation: Microbiome 2017 5:150
  6. Following publication of the original article [1], the authors pointed out that the figure shown as figure S1 is actually figure S2 and vice versa. Figure S1 should show the barcharts, and figure S2 should sho...

    Authors: Frederik Schulz, Emiley A. Eloe-Fadrosh, Robert M. Bowers, Jessica Jarett, Torben Nielsen, Natalia N. Ivanova, Nikos C. Kyrpides and Tanja Woyke
    Citation: Microbiome 2017 5:149

    The original article was published in Microbiome 2017 5:140

  7. Colonization by the pathogen Clostridium difficile often occurs in the background of a disrupted microbial community. Identifying specific organisms conferring resistance to invasion by C. difficile is desirable ...

    Authors: Sepideh Pakpour, Amit Bhanvadia, Roger Zhu, Abhimanyu Amarnani, Sean M. Gibbons, Thomas Gurry, Eric J. Alm and Laura A. Martello
    Citation: Microbiome 2017 5:148
  8. It is clear that specific intestinal bacteria are involved in the development of different premalignant conditions along the gastrointestinal tract. An analysis of the microbial constituents in the context of ...

    Authors: Shan Li, Gwenny M. Fuhler, Nahush BN, Tony Jose, Marco J. Bruno, Maikel P. Peppelenbosch and Sergey R. Konstantinov
    Citation: Microbiome 2017 5:147
  9. The microbiome provides multiple benefits to animal hosts that can profoundly impact health and behavior. Microbiomes are well-characterized in humans and other animals in controlled settings, yet assessments ...

    Authors: Douglas S. Pearce, Brian A. Hoover, Sarah Jennings, Gabrielle A. Nevitt and Kathryn M. Docherty
    Citation: Microbiome 2017 5:146
  10. Recently, the importance of the lung microbiota during health and disease has been examined in humans and in small animal models. Whilst sheep have been proposed as an appropriate large animal model for studyi...

    Authors: Laura Glendinning, David Collie, Steven Wright, Kenny M. D. Rutherford and Gerry McLachlan
    Citation: Microbiome 2017 5:145
  11. The possible impact of changes in diet composition on the intestinal microbiome is mostly studied after some days of adaptation to the diet of interest. The question arises if a few days are enough to reflect ...

    Authors: Bruno Tilocca, Katharina Burbach, Charlotte M. E. Heyer, Ludwig E. Hoelzle, Rainer Mosenthin, Volker Stefanski, Amélia Camarinha-Silva and Jana Seifert
    Citation: Microbiome 2017 5:144
  12. The ExoMars 2016 mission, consisting of the Trace Gas Orbiter and the Schiaparelli lander, was launched on March 14 2016 from Baikonur, Kazakhstan and reached its destination in October 2016. The Schiaparelli ...

    Authors: Kaisa Koskinen, Petra Rettberg, Rüdiger Pukall, Anna Auerbach, Lisa Wink, Simon Barczyk, Alexandra Perras, Alexander Mahnert, Diana Margheritis, Gerhard Kminek and Christine Moissl-Eichinger
    Citation: Microbiome 2017 5:143
  13. Shotgun metagenomic sequencing is increasingly utilized as a tool to evaluate ecological-level dynamics of antimicrobial resistance and virulence, in conjunction with microbiome analysis. Interest in use of th...

    Authors: Noelle R. Noyes, Maggie E. Weinroth, Jennifer K. Parker, Chris J. Dean, Steven M. Lakin, Robert A. Raymond, Pablo Rovira, Enrique Doster, Zaid Abdo, Jennifer N. Martin, Kenneth L. Jones, Jaime Ruiz, Christina A. Boucher, Keith E. Belk and Paul S. Morley
    Citation: Microbiome 2017 5:142
  14. Alcohol abuse has deleterious effects on human health by disrupting the functions of many organs and systems. Gut microbiota has been implicated in the pathogenesis of alcohol-related liver diseases, with its ...

    Authors: Veronika B. Dubinkina, Alexander V. Tyakht, Vera Y. Odintsova, Konstantin S. Yarygin, Boris A. Kovarsky, Alexander V. Pavlenko, Dmitry S. Ischenko, Anna S. Popenko, Dmitry G. Alexeev, Anastasiya Y. Taraskina, Regina F. Nasyrova, Evgeny M. Krupitsky, Nino V. Shalikiani, Igor G. Bakulin, Petr L. Shcherbakov, Lyubov O. Skorodumova…
    Citation: Microbiome 2017 5:141
  15. The bacterial tree of life has recently undergone significant expansion, chiefly from candidate phyla retrieved through genome-resolved metagenomics. Bypassing the need for genome availability, we present a sn...

    Authors: Frederik Schulz, Emiley A. Eloe-Fadrosh, Robert M. Bowers, Jessica Jarett, Torben Nielsen, Natalia N. Ivanova, Nikos C. Kyrpides and Tanja Woyke
    Citation: Microbiome 2017 5:140

    The Correction to this article has been published in Microbiome 2017 5:149

  16. The individual, together with its environment, has been reported as the main force driving composition and structure of skin microbiota in healthy dogs. Therefore, one of the major concerns when analyzing cani...

    Authors: Anna Cuscó, Janelle M. Belanger, Liza Gershony, Alma Islas-Trejo, Kerinne Levy, Juan F. Medrano, Armand Sánchez, Anita M. Oberbauer and Olga Francino
    Citation: Microbiome 2017 5:139
  17. The limited understanding of microbial characteristics in moisture-damaged buildings impedes efforts to clarify which adverse health effects in the occupants are associated with the damage and to develop effec...

    Authors: Balamuralikrishna Jayaprakash, Rachel I. Adams, Pirkka Kirjavainen, Anne Karvonen, Asko Vepsäläinen, Maria Valkonen, Kati Järvi, Michael Sulyok, Juha Pekkanen, Anne Hyvärinen and Martin Täubel
    Citation: Microbiome 2017 5:138
  18. Following publication of the original article [1], the authors were alerted by a colleague of a column duplication in Table 1. Since the summary row was correct, though, the interpretation and the conclusion of t...

    Authors: Dagmara W. Lewandowska, Osvaldo Zagordi, Fabienne-Desirée Geissberger, Verena Kufner, Stefan Schmutz, Jürg Böni, Karin J. Metzner, Alexandra Trkola and Michael Huber
    Citation: Microbiome 2017 5:137

    The original article was published in Microbiome 2017 5:94

  19. Metallo-β-lactamases are bacterial enzymes that provide resistance to carbapenems, the most potent class of antibiotics. These enzymes are commonly encoded on mobile genetic elements, which, together with thei...

    Authors: Fanny Berglund, Nachiket P. Marathe, Tobias Österlund, Johan Bengtsson-Palme, Stathis Kotsakis, Carl-Fredrik Flach, D G Joakim Larsson and Erik Kristiansson
    Citation: Microbiome 2017 5:134
  20. Authors: Antonios Michas, Gisle Vestergaard, Kathleen Trautwein, Pavlos Avramidis, Dimitris G. Hatzinikolaou, Constantinos E. Vorgias, Heinz Wilkes, Ralf Rabus, Michael Schloter and Anne Schöler
    Citation: Microbiome 2017 5:136

    The original article was published in Microbiome 2017 5:118

  21. Prebiotics are non-digestible food ingredients that enhance the growth of certain microbes within the gut microbiota. Prebiotic consumption generates immune-modulatory effects that are traditionally thought to...

    Authors: Richard Y. Wu, Pekka Määttänen, Scott Napper, Erin Scruten, Bo Li, Yuhki Koike, Kathene C. Johnson-Henry, Agostino Pierro, Laura Rossi, Steven R. Botts, Michael G. Surette and Philip M. Sherman
    Citation: Microbiome 2017 5:135
  22. Nearly a quarter of emerging infectious diseases identified in the last century are arthropod-borne. Although ticks and insects can carry pathogenic microorganisms, non-pathogenic microbes make up the majority...

    Authors: Cory A. Gall, Glen A. Scoles, Krisztian Magori, Kathleen L. Mason and Kelly A. Brayton
    Citation: Microbiome 2017 5:133
  23. The public commonly associates microorganisms with pathogens. This suspicion of microorganisms is understandable, as historically microorganisms have killed more humans than any other agent while remaining lar...

    Authors: Daria Shamarina, Iana Stoyantcheva, Christopher E. Mason, Kyle Bibby and Eran Elhaik
    Citation: Microbiome 2017 5:132
  24. Several biotic and abiotic factors have been reported to influence the proliferation of microbes, including Legionella pneumophila, in hot water premise plumbing systems, but their combined effects have not been ...

    Authors: Caitlin R. Proctor, Dongjuan Dai, Marc A. Edwards and Amy Pruden
    Citation: Microbiome 2017 5:130
  25. The Mars500 project was conceived as the first full duration simulation of a crewed return flight to Mars. For 520 days, six crew members lived confined in a specifically designed spacecraft mock-up. The herei...

    Authors: Petra Schwendner, Alexander Mahnert, Kaisa Koskinen, Christine Moissl-Eichinger, Simon Barczyk, Reinhard Wirth, Gabriele Berg and Petra Rettberg
    Citation: Microbiome 2017 5:129
  26. Microorganisms influence the chemical milieu of their environment, and chemical metabolites can affect ecological processes. In built environments, where people spend the majority of their time, very little is...

    Authors: Rachel I. Adams, Despoina S. Lymperopoulou, Pawel K. Misztal, Rita De Cassia Pessotti, Scott W. Behie, Yilin Tian, Allen H. Goldstein, Steven E. Lindow, William W. Nazaroff, John W. Taylor, Matt F. Traxler and Thomas D. Bruns
    Citation: Microbiome 2017 5:128
  27. Non-carbonated natural mineral waters contain microorganisms that regularly grow after bottling despite low concentrations of dissolved organic matter (DOM). Yet, the compositions of bottled water microbiota a...

    Authors: Celine C. Lesaulnier, Craig W. Herbold, Claus Pelikan, David Berry, Cédric Gérard, Xavier Le Coz, Sophie Gagnot, Jutta Niggemann, Thorsten Dittmar, Gabriel A. Singer and Alexander Loy
    Citation: Microbiome 2017 5:126
  28. Microbial communities in our built environments have great influence on human health and disease. A variety of built environments have been characterized using a metagenomics-based approach, including some hea...

    Authors: Niamh B. O’Hara, Harry J. Reed, Ebrahim Afshinnekoo, Donell Harvin, Nora Caplan, Gail Rosen, Brook Frye, Stephen Woloszynek, Rachid Ounit, Shawn Levy, Erin Butler and Christopher E. Mason
    Citation: Microbiome 2017 5:125
  29. Diet-derived short-chain fatty acids (SCFAs) in the rumen have broad effects on the health and growth of ruminants. The microbe-G-protein-coupled receptor (GPR) and microbe-histone deacetylase (HDAC) axes migh...

    Authors: Hong Shen, Zhongyan Lu, Zhihui Xu, Zhan Chen and Zanming Shen
    Citation: Microbiome 2017 5:123
  30. Evergreen coniferous forests contain high stocks of organic matter. Significant carbon transformations occur in litter and soil of these ecosystems, making them important for the global carbon cycle. Due to se...

    Authors: Lucia Žifčáková, Tomáš Větrovský, Vincent Lombard, Bernard Henrissat, Adina Howe and Petr Baldrian
    Citation: Microbiome 2017 5:122
  31. Urbanization is associated with an increased risk for a number of diseases, including obesity, diabetes, and cancer, which all also show associations with the microbiome. While microbial community composition ...

    Authors: Kathryn Winglee, Annie Green Howard, Wei Sha, Raad Z. Gharaibeh, Jiawu Liu, Donghui Jin, Anthony A. Fodor and Penny Gordon-Larsen
    Citation: Microbiome 2017 5:121
  32. Understanding the associations among corals, their photosynthetic zooxanthella symbionts (Symbiodinium), and coral-associated prokaryotic microbiomes is critical for predicting the fidelity and strength of coral ...

    Authors: Koty H. Sharp, Zoe A. Pratte, Allison H. Kerwin, Randi D. Rotjan and Frank J. Stewart
    Citation: Microbiome 2017 5:120
  33. Bacterial vaginosis (BV) is the most common vaginal syndrome among women in their reproductive years. It is associated with an increased risk of acquiring sexually transmitted infections and complications like...

    Authors: Cornelia Gottschick, Zhi-Luo Deng, Marius Vital, Clarissa Masur, Christoph Abels, Dietmar H. Pieper, Manfred Rohde, Werner Mendling and Irene Wagner-Döbler
    Citation: Microbiome 2017 5:119
  34. Natural oil seeps offer the opportunity to study the adaptation of ecosystems and the associated microbiota to long-term oil exposure. In the current study, we investigated a land-to-sea transition ecosystem c...

    Authors: Antonios Michas, Gisle Vestergaard, Kathleen Trautwein, Pavlos Avramidis, Dimitris G. Hatzinikolaou, Constantinos E. Vorgias, Heinz Wilkes, Ralf Rabus, Michael Schloter and Anne Schöler
    Citation: Microbiome 2017 5:118

    The Correction to this article has been published in Microbiome 2017 5:136

  35. Intestinal microbiota are critical determinants of obesity and metabolic disease risk. In previous work, we showed that deletion of the cytoplasmic lipid droplet (CLD) protein perilipin-2 (Plin2) modulates gut...

    Authors: Xuejian Xiong, Elise S. Bales, Diana Ir, Charles E. Robertson, James L. McManaman, Daniel N. Frank and John Parkinson
    Citation: Microbiome 2017 5:117
  36. Infectious diseases of wildlife are increasing worldwide with implications for conservation and human public health. The microbiota (i.e. microbial community living on or in a host) could influence wildlife di...

    Authors: Virginie Lemieux-Labonté, Anouk Simard, Craig K. R. Willis and François-Joseph Lapointe
    Citation: Microbiome 2017 5:115
  37. Effective methods are needed to collect fecal samples from children for large-scale microbiota studies. Stool collected on fecal occult blood test (FOBT) cards that can be mailed provides an effective solution...

    Authors: Wendy S.W. Wong, Nicole Clemency, Elisabeth Klein, Marina Provenzano, Ramaswamy Iyer, John E. Niederhuber and Suchitra K. Hourigan
    Citation: Microbiome 2017 5:114
  38. Recent evidence supports that the maternal gut microbiota impacts the initial infant gut microbiota. Since the gut microbiota may play a causal role in the development of obesity, it is important to understand...

    Authors: Maggie A. Stanislawski, Dana Dabelea, Brandie D. Wagner, Marci K. Sontag, Catherine A. Lozupone and Merete Eggesbø
    Citation: Microbiome 2017 5:113
  39. The Candidate Phyla Radiation (CPR) is a recently described expansion of the tree of life that represents more than 15% of all bacterial diversity and potentially contains over 70 different phyla. Despite this...

    Authors: R. E. Danczak, M. D. Johnston, C. Kenah, M. Slattery, K. C. Wrighton and M. J. Wilkins
    Citation: Microbiome 2017 5:112
  40. Although the plant microbiome is crucial for plant health, little is known about the significance of the seed microbiome. Here, we studied indigenous bacterial communities associated with the seeds in differen...

    Authors: Daria Rybakova, Riccardo Mancinelli, Mariann Wikström, Ann-Sofie Birch-Jensen, Joeke Postma, Ralf-Udo Ehlers, Simon Goertz and Gabriele Berg
    Citation: Microbiome 2017 5:104
  41. Metritis is an inflammatory disease of the uterus caused by bacterial infection, particularly Bacteroides, Porphyromonas, and Fusobacterium. Bacteria from the environment, feces, or vagina are believed to be the ...

    Authors: Soo Jin Jeon, Federico Cunha, Achilles Vieira-Neto, Rodrigo C. Bicalho, Svetlana Lima, Marcela L. Bicalho and Klibs N. Galvão
    Citation: Microbiome 2017 5:109
  42. Increasing evidence shows the importance of the commensal microbe Oxalobacter formigenes in regulating host oxalate homeostasis, with effects against calcium oxalate kidney stone formation, and other oxalate-asso...

    Authors: Menghan Liu, Hyunwook Koh, Zachary D. Kurtz, Thomas Battaglia, Amanda PeBenito, Huilin Li, Lama Nazzal and Martin J. Blaser
    Citation: Microbiome 2017 5:108

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