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  1. Content type: Research

    The dietary methylamines choline, carnitine, and phosphatidylcholine are used by the gut microbiota to produce a range of metabolites, including trimethylamine (TMA). However, little is known about the use of ...

    Authors: Lesley Hoyles, Maria L. Jiménez-Pranteda, Julien Chilloux, Francois Brial, Antonis Myridakis, Thomas Aranias, Christophe Magnan, Glenn R. Gibson, Jeremy D. Sanderson, Jeremy K. Nicholson, Dominique Gauguier, Anne L. McCartney and Marc-Emmanuel Dumas

    Citation: Microbiome 2018 6:73

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  2. Content type: Research

    Gut microbes influence their hosts in many ways, in particular by modulating the impact of diet. These effects have been studied most extensively in humans and mice. In this work, we used whole genome metageno...

    Authors: Luis Pedro Coelho, Jens Roat Kultima, Paul Igor Costea, Coralie Fournier, Yuanlong Pan, Gail Czarnecki-Maulden, Matthew Robert Hayward, Sofia K. Forslund, Thomas Sebastian Benedikt Schmidt, Patrick Descombes, Janet R. Jackson, Qinghong Li and Peer Bork

    Citation: Microbiome 2018 6:72

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  3. Content type: Research

    A majority of indoor residential microbes originate from humans, pets, and outdoor air and are not adapted to the built environment (BE). Consequently, a large portion of the microbes identified by DNA-based m...

    Authors: Cinta Gomez-Silvan, Marcus H. Y. Leung, Katherine A. Grue, Randeep Kaur, Xinzhao Tong, Patrick K. H. Lee and Gary L. Andersen

    Citation: Microbiome 2018 6:71

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  4. Content type: Research

    Alterations of gut microbiota are associated with colorectal cancer (CRC) in different populations and several bacterial species were found to contribute to the tumorigenesis. The potential use of gut microbes...

    Authors: Zhenwei Dai, Olabisi Oluwabukola Coker, Geicho Nakatsu, William K. K. Wu, Liuyang Zhao, Zigui Chen, Francis K. L. Chan, Karsten Kristiansen, Joseph J. Y. Sung, Sunny Hei Wong and Jun Yu

    Citation: Microbiome 2018 6:70

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  5. Content type: Research

     The present study aimed to identify patterns and processes in acquisition of oral bacteria and to characterize the microbiota of different dentition states and habitats. Mucosal, salivary, supragingival, and ...

    Authors: Matthew R. Mason, Stephanie Chambers, Shareef M. Dabdoub, Sarat Thikkurissy and Purnima S. Kumar

    Citation: Microbiome 2018 6:67

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  6. Content type: Research

    Tetrapods do not express hydrolases for cellulose and hemicellulose assimilation, and hence, the independent acquisition of herbivory required the establishment of new endosymbiotic relationships between tetra...

    Authors: Patricia Campos, Miriam Guivernau, Francesc X. Prenafeta-Boldú and Luis Cardona

    Citation: Microbiome 2018 6:69

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  7. Content type: Research

    Recent studies have demonstrated that the human gut is populated by complex, highly individual and stable communities of viruses, the majority of which are bacteriophages. While disease-specific alterations in...

    Authors: Andrey N. Shkoporov, Feargal J. Ryan, Lorraine A. Draper, Amanda Forde, Stephen R. Stockdale, Karen M. Daly, Siobhan A. McDonnell, James A. Nolan, Thomas D.S. Sutton, Marion Dalmasso, Angela McCann, R. Paul Ross and Colin Hill

    Citation: Microbiome 2018 6:68

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  8. Content type: Research

    Viral metagenomic studies have suggested a role for bacteriophages in intestinal dysbiosis associated with several human diseases. However, interpretation of viral metagenomic studies is limited by the lack of...

    Authors: Jeffrey K. Cornuault, Marie-Agnès Petit, Mahendra Mariadassou, Leandro Benevides, Elisabeth Moncaut, Philippe Langella, Harry Sokol and Marianne De Paepe

    Citation: Microbiome 2018 6:65

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  9. Content type: Research

    Post-infarction cardiovascular remodeling and heart failure are the leading cause of myocardial infarction (MI)-driven death during the past decades. Experimental observations have involved intestinal microbio...

    Authors: Xin Zhou, Jing Li, Junli Guo, Bin Geng, Wenjie Ji, Qian Zhao, Jinlong Li, Xinlin Liu, Junxiang Liu, Zhaozeng Guo, Wei Cai, Yongqiang Ma, Dong Ren, Jun Miao, Shaobo Chen, Zhuoli Zhang…

    Citation: Microbiome 2018 6:66

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  10. Content type: Research

    Amplicon sequencing methods targeting the 16S rRNA gene have been used extensively to investigate microbial community composition and dynamics in anaerobic digestion. These methods successfully characterize am...

    Authors: Jo De Vrieze, Ameet J. Pinto, William T. Sloan and Umer Zeeshan Ijaz

    Citation: Microbiome 2018 6:63

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  11. Content type: Review

    Since the colonization of land by ancestral plant lineages 450 million years ago, plants and their associated microbes have been interacting with each other, forming an assemblage of species that is often refe...

    Authors: M. Amine Hassani, Paloma Durán and Stéphane Hacquard

    Citation: Microbiome 2018 6:58

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  12. Content type: Research

    Holobionts have a digestive microbiota with catabolic abilities allowing the degradation of complex dietary compounds for the host. In terrestrial herbivores, the digestive microbiota is known to degrade compl...

    Authors: Angélique Gobet, Laëtitia Mest, Morgan Perennou, Simon M Dittami, Claire Caralp, Céline Coulombet, Sylvain Huchette, Sabine Roussel, Gurvan Michel and Catherine Leblanc

    Citation: Microbiome 2018 6:60

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  13. Content type: Research

    Understanding the host impact on its symbiotic microbiota is important in redirecting the rumen microbiota and thus improving animal performance. The current study aimed to understand how rumen microbiota were...

    Authors: Mi Zhou, Yong-Jia Peng, Yanhong Chen, Christen M. Klinger, Masahito Oba, Jian-Xin Liu and Le Luo Guan

    Citation: Microbiome 2018 6:62

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  14. Content type: Research

    Changes in hygiene and dietary habits, including increased consumption of foods high in fat, simple sugars, and salt that are known to impact the composition and function of the intestinal microbiota, may expl...

    Authors: Pedro M. Miranda, Giada De Palma, Viktoria Serkis, Jun Lu, Marc P. Louis-Auguste, Justin L. McCarville, Elena F. Verdu, Stephen M. Collins and Premysl Bercik

    Citation: Microbiome 2018 6:57

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  15. Content type: Research

    Gut microbiota composition and function are symbiotically linked with host health and altered in metabolic, inflammatory and neurodegenerative disorders. Three recognised mechanisms exist by which the microbio...

    Authors: Lesley Hoyles, Tom Snelling, Umm-Kulthum Umlai, Jeremy K. Nicholson, Simon R. Carding, Robert C. Glen and Simon McArthur

    Citation: Microbiome 2018 6:55

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  16. Content type: Review

    The plant hormone ethylene is one of the central regulators of plant development and stress resistance. Optimal ethylene signaling is essential for plant fitness and is under strong selection pressure. Plants ...

    Authors: Mohammadhossein Ravanbakhsh, Rashmi Sasidharan, Laurentius A. C. J. Voesenek, George A. Kowalchuk and Alexandre Jousset

    Citation: Microbiome 2018 6:52

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  17. Content type: Research

    Calorie restriction (CR), which has a potent anti-inflammaging effect, has been demonstrated to induce dramatic changes in the gut microbiota. Whether the modulated gut microbiota contributes to the attenuatio...

    Authors: Fengwei Pan, Liying Zhang, Min Li, Yingxin Hu, Benhua Zeng, Huijuan Yuan, Liping Zhao and Chenhong Zhang

    Citation: Microbiome 2018 6:54

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  18. Content type: Research

    One method for rejuvenating land polluted with anthropogenic contaminants is through phytoremediation, the reclamation of land through the cultivation of specific crops. The capacity for phytoremediation crops...

    Authors: E. Gonzalez, F. E. Pitre, A. P. Pagé, J. Marleau, W. Guidi Nissim, M. St-Arnaud, M. Labrecque, S. Joly, E. Yergeau and N. J. B. Brereton

    Citation: Microbiome 2018 6:53

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  19. Content type: Research

    Plants can adapt to edaphic stress, such as nutrient deficiency, toxicity and biotic challenges, by controlled transcriptomic responses, including microbiome interactions. Traditionally studied in model plant ...

    Authors: Ellen Young, Manus Carey, Andrew A. Meharg and Caroline Meharg

    Citation: Microbiome 2018 6:48

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  20. Content type: Review

    The holobiont concept was first developed for coral ecosystems but has been extended to multiple organisms, including plants and other animals. Studies on insect-associated microbial communities have produced ...

    Authors: Morgane Guégan, Karima Zouache, Colin Démichel, Guillaume Minard, Van Tran Van, Patrick Potier, Patrick Mavingui and Claire Valiente Moro

    Citation: Microbiome 2018 6:49

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  21. Content type: Research

    The use of shotgun metagenomics to analyse low-complexity microbial communities in foods has the potential to be of considerable fundamental and applied value. However, there is currently no consensus with res...

    Authors: Aaron M. Walsh, Fiona Crispie, Orla O’Sullivan, Laura Finnegan, Marcus J. Claesson and Paul D. Cotter

    Citation: Microbiome 2018 6:50

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  22. Content type: Correction

    Following publication of the original article [1] it came to the attention of the Production Editor that Figs. 1 and 2 had not been replaced with the newly revised figures supplied by the authors (the original...

    Authors: Jane A. Mullaney, Juliette E. Stephens, Mary-Ellen Costello, Cai Fong, Brooke E. Geeling, Patrick G. Gavin, Casey M. Wright, Timothy D. Spector, Matthew A. Brown and Emma E. Hamilton-Williams

    Citation: Microbiome 2018 6:51

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    The original article was published in Microbiome 2018 6:35

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