Skip to content



Page 3 of 13

  1. Content type: Correction

    Unfortunately, after publication of this article [1], it was noticed that the accession numbers for the study were missing. The correct numbers are PRJNA438554, SRP148953.

    Authors: Jian-Qiang Su, Xin-Li An, Bing Li, Qing-Lin Chen, Michael R. Gillings, Hong Chen, Tong Zhang and Yong-Guan Zhu

    Citation: Microbiome 2018 6:127

    Published on:

    The original article was published in Microbiome 2017 5:84

  2. Content type: Correction

    Following publication of the original article [1], the authors reported an error in the caption of Fig. 4.

    Authors: Xue-Ying Zhang, Gansukh Sukhchuluun, Ting-Bei Bo, Qing-Sheng Chi, Jun-Jie Yang, Bin Chen, Lei Zhang and De-Hua Wang

    Citation: Microbiome 2018 6:126

    Published on:

    The original article was published in Microbiome 2018 6:103

  3. Content type: Research

    Early life microbiota is an important determinant of immune and metabolic development and may have lasting consequences. The maternal gut microbiota during pregnancy or breastfeeding is important for defining ...

    Authors: Donald D. Nyangahu, Katie S. Lennard, Bryan P. Brown, Matthew G. Darby, Jerome M. Wendoh, Enock Havyarimana, Peter Smith, James Butcher, Alain Stintzi, Nicola Mulder, William Horsnell and Heather B. Jaspan

    Citation: Microbiome 2018 6:124

    Published on:

  4. Content type: Research

    The gut microbiome has an important role in infant health and immune development and may be affected by early-life exposures. Maternal diet may influence the infant gut microbiome through vertical transfer of ...

    Authors: Sara N. Lundgren, Juliette C. Madan, Jennifer A. Emond, Hilary G. Morrison, Brock C. Christensen, Margaret R. Karagas and Anne G. Hoen

    Citation: Microbiome 2018 6:109

    Published on:

  5. Content type: Microbiome Announcement

    Glaciers cover ~ 10% of land but are among the least explored environments on Earth. The basal portion of glaciers often harbors unique aquatic microbial ecosystems in the absence of sunlight, and knowledge on...

    Authors: Masood ur Rehman Kayani, Shawn M. Doyle, Naseer Sangwan, Guanqun Wang, Jack A. Gilbert, Brent C. Christner and Ting F. Zhu

    Citation: Microbiome 2018 6:123

    Published on:

  6. Content type: Research

    The transformation of plant photosynthate into soil organic carbon and its recycling to CO2 by soil microorganisms is one of the central components of the terrestrial carbon cycle. There are currently large knowl...

    Authors: Evan P. Starr, Shengjing Shi, Steven J. Blazewicz, Alexander J. Probst, Donald J. Herman, Mary K. Firestone and Jillian F. Banfield

    Citation: Microbiome 2018 6:122

    Published on:

  7. Content type: Research

    One way to improve both the ecological performance and functionality of probiotic bacteria is by combining them with a prebiotic in the form of a synbiotic. However, the degree to which such synbiotic formulat...

    Authors: Janina A. Krumbeck, Heather E. Rasmussen, Robert W. Hutkins, Jennifer Clarke, Krista Shawron, Ali Keshavarzian and Jens Walter

    Citation: Microbiome 2018 6:121

    Published on:

  8. Content type: Methodology

    Viruses are key players regulating microbial ecosystems. Exploration of viral assemblages is now possible thanks to the development of metagenomics, the most powerful tool available for studying viral ecology ...

    Authors: Marcos Parras-Moltó, Ana Rodríguez-Galet, Patricia Suárez-Rodríguez and Alberto López-Bueno

    Citation: Microbiome 2018 6:119

    Published on:

  9. Content type: Research

    Growth rates, interactions between community members, stochasticity, and immigration are important drivers of microbial community dynamics. In sequencing data analysis, such as network construction and communi...

    Authors: Karoline Faust, Franziska Bauchinger, Béatrice Laroche, Sophie de Buyl, Leo Lahti, Alex D. Washburne, Didier Gonze and Stefanie Widder

    Citation: Microbiome 2018 6:120

    Published on:

  10. Content type: Research

    Natural gas contains methane and the gaseous alkanes ethane, propane and butane, which collectively influence atmospheric chemistry and cause global warming. Methane-oxidising bacteria, methanotrophs, are cruc...

    Authors: Muhammad Farhan Ul Haque, Andrew T. Crombie, Scott A. Ensminger, Calin Baciu and J. Colin Murrell

    Citation: Microbiome 2018 6:118

    Published on:

  11. Content type: Research

    The caecal microbiota plays a key role in chicken health and performance, influencing digestion and absorption of nutrients, and contributing to defence against colonisation by invading pathogens. Measures of ...

    Authors: Ramesh J. Pandit, Ankit T. Hinsu, Namrata V. Patel, Prakash G. Koringa, Subhash J. Jakhesara, Jalpa R. Thakkar, Tejas M. Shah, Georgina Limon, Androniki Psifidi, Javier Guitian, David A. Hume, Fiona M. Tomley, Dharamshibhai N. Rank, M. Raman, K. G. Tirumurugaan, Damer P. Blake…

    Citation: Microbiome 2018 6:115

    Published on:

  12. Content type: Research

    Although a number of recent studies have uncovered remarkable diversity of microbes associated with plants, understanding and managing dynamics of plant microbiomes remain major scientific challenges. In this ...

    Authors: Hirokazu Toju, Akifumi S. Tanabe and Hirotoshi Sato

    Citation: Microbiome 2018 6:116

    Published on:

  13. Content type: Research

    The neonatal intensive care unit (NICU) contains a unique cohort of patients with underdeveloped immune systems and nascent microbiome communities. Patients often spend several months in the same room, and it ...

    Authors: Brandon Brooks, Matthew R. Olm, Brian A. Firek, Robyn Baker, David Geller-McGrath, Sophia R. Reimer, Karina R. Soenjoyo, Jennifer S. Yip, Dylan Dahan, Brian C. Thomas, Michael J. Morowitz and Jillian F. Banfield

    Citation: Microbiome 2018 6:112

    Published on:

  14. Content type: Research

    Complex plant-microbe interactions have been established throughout evolutionary time, many of them with beneficial effects on the host in terms of plant growth, nutrition, or health. Some of the corresponding...

    Authors: Marie-Lara Bouffaud, Sébastien Renoud, Audrey Dubost, Yvan Moënne-Loccoz and Daniel Muller

    Citation: Microbiome 2018 6:114

    Published on:

  15. Content type: Research

    The genomes of halophilic archaea (haloarchaea) often comprise multiple replicons. Genomic variation in haloarchaea has been linked to viral infection pressure and, in the case of Antarctic communities, can be...

    Authors: Bernhard Tschitschko, Susanne Erdmann, Matthew Z. DeMaere, Simon Roux, Pratibha Panwar, Michelle A. Allen, Timothy J. Williams, Sarah Brazendale, Alyce M. Hancock, Emiley A. Eloe-Fadrosh and Ricardo Cavicchioli

    Citation: Microbiome 2018 6:113

    Published on:

  16. Content type: Research

    Major risk factors for necrotizing enterocolitis (NEC) include premature birth and formula feeding in the context of microbial colonization of the gastrointestinal tract. We previously showed that feeding form...

    Authors: Lee Call, Barbara Stoll, Berthe Oosterloo, Nadim Ajami, Fariha Sheikh, Anja Wittke, Rosaline Waworuntu, Brian Berg, Joseph Petrosino, Oluyinka Olutoye and Douglas Burrin

    Citation: Microbiome 2018 6:111

    Published on:

  17. Content type: Research

    In social insects, identical genotypes can show extreme lifespan variation providing a unique perspective on age-associated microbial succession. In honey bees, short- and long-lived host phenotypes are polari...

    Authors: Kirk E. Anderson, Vincent A. Ricigliano, Brendon M. Mott, Duan C. Copeland, Amy S. Floyd and Patrick Maes

    Citation: Microbiome 2018 6:108

    Published on:

  18. Content type: Research

    The gut microbiota is closely associated with gastrointestinal (GI) motility disorder, but the mechanism(s) by which bacteria interact with and affect host GI motility remains unclear. In this study, through u...

    Authors: Ling Zhao, Yufen Huang, Lin Lu, Wei Yang, Tao Huang, Zesi Lin, Chengyuan Lin, Hiuyee Kwan, Hoi Leong Xavier Wong, Yang Chen, Silong Sun, Xuefeng Xie, Xiaodong Fang, Huanming Yang, Jian Wang, Lixin Zhu…

    Citation: Microbiome 2018 6:107

    Published on:

  19. Content type: Research

    pH is frequently reported as the main driver for prokaryotic community structure in soils. However, pH changes are also linked to “spillover effects” on other chemical parameters (e.g., availability of Al, Fe,...

    Authors: Daniel R. Lammel, Gabriel Barth, Otso Ovaskainen, Leonardo M. Cruz, Josileia A. Zanatta, Masahiro Ryo, Emanuel M. de Souza and Fábio O. Pedrosa

    Citation: Microbiome 2018 6:106

    Published on:

  20. Content type: Research

    Perturbations to the composition and function of bronchial bacterial communities appear to contribute to the pathophysiology of asthma. Unraveling the nature and mechanisms of these complex associations will r...

    Authors: Juliana Durack, Yvonne J. Huang, Snehal Nariya, Laura S. Christian, K. Mark Ansel, Avraham Beigelman, Mario Castro, Anne-Marie Dyer, Elliot Israel, Monica Kraft, Richard J. Martin, David T. Mauger, Sharon R. Rosenberg, Tonya S. King, Steven R. White, Loren C. Denlinger…

    Citation: Microbiome 2018 6:104

    Published on:

  21. Content type: Research

    Study of meta-transcriptomic datasets involving non-model organisms represents bioinformatic challenges. The production of chimeric sequences and our inability to distinguish the taxonomic origins of the seque...

    Authors: Arnaud Meng, Camille Marchet, Erwan Corre, Pierre Peterlongo, Adriana Alberti, Corinne Da Silva, Patrick Wincker, Eric Pelletier, Ian Probert, Johan Decelle, Stéphane Le Crom, Fabrice Not and Lucie Bittner

    Citation: Microbiome 2018 6:105

    Published on:

  22. Content type: Microbiome Announcement

    In recent years, human microbiota, especially gut microbiota, have emerged as an important yet complex trait influencing human metabolism, immunology, and diseases. Many studies are investigating the forces un...

    Authors: Jun Wang, Alexander Kurilshikov, Djawad Radjabzadeh, Williams Turpin, Kenneth Croitoru, Marc Jan Bonder, Matthew A. Jackson, Carolina Medina-Gomez, Fabian Frost, Georg Homuth, Malte Rühlemann, David Hughes, Han-na Kim, Tim D. Spector, Jordana T. Bell, Claire J. Steves…

    Citation: Microbiome 2018 6:101

    Published on:

  23. Content type: Research

    As a recently discovered member of the DPANN superphylum, Woesearchaeota account for a wide diversity of 16S rRNA gene sequences, but their ecology, evolution, and metabolism remain largely unknown.

    Authors: Xiaobo Liu, Meng Li, Cindy J. Castelle, Alexander J. Probst, Zhichao Zhou, Jie Pan, Yang Liu, Jillian F. Banfield and Ji-Dong Gu

    Citation: Microbiome 2018 6:102

    Published on:

  24. Content type: Research

    Huddling is highly evolved as a cooperative behavioral strategy for social mammals to maximize their fitness in harsh environments. Huddling behavior can change psychological and physiological responses. The c...

    Authors: Xue-Ying Zhang, Gansukh Sukhchuluun, Ting-Bei Bo, Qing-Sheng Chi, Jun-Jie Yang, Bin Chen, Lei Zhang and De-Hua Wang

    Citation: Microbiome 2018 6:103

    Published on:

    The Correction to this article has been published in Microbiome 2018 6:126

  25. Content type: Research

    Microbially mediated oral diseases can signal underlying HIV/AIDS progression in HIV-infected adults. The role of the oral microbiota in HIV-infected youth is not known. The Adolescent Master Protocol of the P...

    Authors: Jacqueline R. Starr, Yanmei Huang, Kyu Ha Lee, C. M. Murphy, Anna-Barbara Moscicki, Caroline H. Shiboski, Mark I. Ryder, Tzy-Jyun Yao, Lina L. Faller, Russell B. Van Dyke and Bruce J. Paster

    Citation: Microbiome 2018 6:100

    Published on:

  26. Content type: Research

    Variation in induced models of autoimmunity has been attributed to the housing environment and its effect on the gut microbiota. In Graves’ disease (GD), autoantibodies to the thyrotropin receptor (TSHR) cause...

    Authors: Giulia Masetti, Sajad Moshkelgosha, Hedda-Luise Köhling, Danila Covelli, Jasvinder Paul Banga, Utta Berchner-Pfannschmidt, Mareike Horstmann, Salvador Diaz-Cano, Gina-Eva Goertz, Sue Plummer, Anja Eckstein, Marian Ludgate, Filippo Biscarini and Julian Roberto Marchesi

    Citation: Microbiome 2018 6:97

    Published on:

  27. Content type: Research

    The early-life gut microbiota plays a critical role in host metabolism in later life. However, little is known about how the fatty acid profile of the maternal diet during gestation and lactation influences th...

    Authors: Ruairi C. Robertson, Kanakaraju Kaliannan, Conall R. Strain, R. Paul Ross, Catherine Stanton and Jing X. Kang

    Citation: Microbiome 2018 6:95

    Published on:

  28. Content type: Review

    After a decade of research and metagenomic analyses, our knowledge of the human microbiota appears to have reached a plateau despite promising results. In many studies, culture has proven to be essential in de...

    Authors: Melhem Bilen, Jean-Charles Dufour, Jean-Christophe Lagier, Fréderic Cadoret, Ziad Daoud, Grégory Dubourg and Didier Raoult

    Citation: Microbiome 2018 6:94

    Published on:

  29. Content type: Methodology

    Convenient, reproducible, and rapid preservation of unique biological specimens is pivotal to their use in microbiome analyses. As an increasing number of human studies incorporate the gut microbiome in their ...

    Authors: Kymberleigh A. Romano, Kimberly A. Dill-McFarland, Kazuyuki Kasahara, Robert L. Kerby, Eugenio I. Vivas, Daniel Amador-Noguez, Pamela Herd and Federico E. Rey

    Citation: Microbiome 2018 6:91

    Published on:

  30. Content type: Research

    Imbalances of gut microbiota composition are linked to a range of metabolic perturbations. In the present study, we examined the gut microbiota of women with gestational diabetes mellitus (GDM) and normoglycae...

    Authors: Mie Korslund Wiinblad Crusell, Tue Haldor Hansen, Trine Nielsen, Kristine Højgaard Allin, Malte C. Rühlemann, Peter Damm, Henrik Vestergaard, Christina Rørbye, Niklas Rye Jørgensen, Ole Bjarne Christiansen, Femke-Anouska Heinsen, Andre Franke, Torben Hansen, Jeannet Lauenborg and Oluf Pedersen

    Citation: Microbiome 2018 6:89

    Published on:

  31. Content type: Research

    Campylobacters are an unwelcome member of the poultry gut microbiota in terms of food safety. The objective of this study was to compare the microbiota, inflammatory responses, and zootechnical parameters of b...

    Authors: Phillippa L. Connerton, Philip J. Richards, Geraldine M. Lafontaine, Peter M. O’Kane, Nacheervan Ghaffar, Nicola J. Cummings, Darren L. Smith, Neville M. Fish and Ian F. Connerton

    Citation: Microbiome 2018 6:88

    Published on:

  32. Content type: Research

    All organisms employ biological clocks to anticipate physical changes in the environment; however, the integration of biological clocks in symbiotic systems has received limited attention. In corals, the inter...

    Authors: Michal Sorek, Yisrael Schnytzer, Hiba Waldman Ben-Asher, Vered Chalifa Caspi, Chii-Shiarng Chen, David J. Miller and Oren Levy

    Citation: Microbiome 2018 6:83

    Published on:

  33. Content type: Research

    The gelada monkey (Theropithecus gelada), endemic to the Ethiopian highlands, is the only graminivorous primate, i.e., it feeds mainly on grasses and sedges. In spite of known dental, manual, and locomotor adapta...

    Authors: Pål Trosvik, Eric J. de Muinck, Eli K. Rueness, Peter J. Fashing, Evan C. Beierschmitt, Kadie R. Callingham, Jacob B. Kraus, Thomas H. Trew, Amera Moges, Addisu Mekonnen, Vivek V. Venkataraman and Nga Nguyen

    Citation: Microbiome 2018 6:84

    Published on:

  34. Content type: Research

    Gut microbiota affects tephritid (Diptera: Tephritidae) fruit fly development, physiology, behavior, and thus the quality of flies mass-reared for the sterile insect technique (SIT), a target-specific, sustainabl...

    Authors: Ania T. Deutscher, Catherine M. Burke, Aaron E. Darling, Markus Riegler, Olivia L. Reynolds and Toni A. Chapman

    Citation: Microbiome 2018 6:85

    Published on:

  35. Content type: Research

    Deciphering the mechanisms governing population genetic divergence and local adaptation across heterogeneous environments is a central theme in marine ecology and conservation. While population divergence and ...

    Authors: Katharina Fietz, Christian Olaf Rye Hintze, Mikkel Skovrind, Tue Kjærgaard Nielsen, Morten T. Limborg, Marcus A. Krag, Per J. Palsbøll, Lars Hestbjerg Hansen, Peter Rask Møller and M. Thomas P. Gilbert

    Citation: Microbiome 2018 6:82

    Published on:

  36. Content type: Commentary

    The human gut microbiota is increasingly recognized for its important or even decisive role in health. As it becomes clear that microbiota and host mutually affect and depend on each other in an intimate relat...

    Authors: Maarten van de Guchte, Hervé M. Blottière and Joël Doré

    Citation: Microbiome 2018 6:81

    Published on:

  37. Content type: Research

    Plants are colonized by a great diversity of microorganisms which form a microbiota and perform additional functions for their host. This microbiota can thus be considered a toolbox enabling plants to buffer l...

    Authors: Nathan Vannier, Cendrine Mony, Anne-Kristel Bittebiere, Sophie Michon-Coudouel, Marine Biget and Philippe Vandenkoornhuyse

    Citation: Microbiome 2018 6:79

    Published on:

  38. Content type: Review

    The holobiont (host with its endocellular and extracellular microbiome) can function as a distinct biological entity, an additional organismal level to the ones previously considered, on which natural selectio...

    Authors: Eugene Rosenberg and Ilana Zilber-Rosenberg

    Citation: Microbiome 2018 6:78

    Published on:


2017 Journal Metrics