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  1. Recent evidence has linked the gut microbiome to host behavior via the gut–brain axis [13]; however, the underlying mechanisms remain unexplored. Here, we determined the links between host genetics, the gut micr...

    Authors: Jian-Hua Mao, Young-Mo Kim, Yan-Xia Zhou, Dehong Hu, Chenhan Zhong, Hang Chang, Colin J. Brislawn, Sarah Fansler, Sasha Langley, Yunshan Wang, B. Y. Loulou Peisl, Susan E. Celniker, David W. Threadgill, Paul Wilmes, Galya Orr, Thomas O. Metz…
    Citation: Microbiome 2020 8:53

    The Correction to this article has been published in Microbiome 2020 8:73

  2. Bacteriophages, the viruses infecting bacteria, are biological entities that can control their host populations. The ecological relevance of phages for microbial systems has been widely explored in aquatic env...

    Authors: Lucas P. P. Braga, Aymé Spor, Witold Kot, Marie-Christine Breuil, Lars H. Hansen, João C. Setubal and Laurent Philippot
    Citation: Microbiome 2020 8:52
  3. The newly defined superphylum Patescibacteria such as Parcubacteria (OD1) and Microgenomates (OP11) has been found to be prevalent in groundwater, sediment, lake, and other aquifer environments. Recently incre...

    Authors: Renmao Tian, Daliang Ning, Zhili He, Ping Zhang, Sarah J. Spencer, Shuhong Gao, Weiling Shi, Linwei Wu, Ya Zhang, Yunfeng Yang, Benjamin G. Adams, Andrea M. Rocha, Brittny L. Detienne, Kenneth A. Lowe, Dominique C. Joyner, Dawn M. Klingeman…
    Citation: Microbiome 2020 8:51
  4. Following publication of the original article [1], the authors reported an error in Fig. 2. The original Fig. 2 has been incorrectly replaced with the Supplementary Fig. 2. The correct Fig. 2 is presented here.

    Authors: Abigail J. S. Armstrong, Michael Shaffer, Nichole M. Nusbacher, Christine Griesmer, Suzanne Fiorillo, Jennifer M. Schneider, C. Preston Neff, Sam X. Li, Andrew P. Fontenot, Thomas Campbell, Brent E. Palmer and Catherine A. Lozupone
    Citation: Microbiome 2020 8:50

    The original article was published in Microbiome 2018 6:198

  5. Myxobacteria are micropredators in the soil ecosystem with the capacity to move and feed cooperatively. Some myxobacterial strains have been used to control soil-borne fungal phytopathogens. However, interacti...

    Authors: Xianfeng Ye, Zhoukun Li, Xue Luo, Wenhui Wang, Yongkai Li, Rui Li, Bo Zhang, Yan Qiao, Jie Zhou, Jiaqin Fan, Hui Wang, Yan Huang, Hui Cao, Zhongli Cui and Ruifu Zhang
    Citation: Microbiome 2020 8:49
  6. The Arctic and Antarctic are the two most geographically distant bioregions on earth. Recent sampling efforts and following metagenomics have shed light on the global ocean microbial diversity and function, ye...

    Authors: Shunan Cao, Weipeng Zhang, Wei Ding, Meng Wang, Shen Fan, Bo Yang, Andrew Mcminn, Min Wang, Bin-bin Xie, Qi-Long Qin, Xiu-Lan Chen, Jianfeng He and Yu-Zhong Zhang
    Citation: Microbiome 2020 8:47

    The Correction to this article has been published in Microbiome 2020 8:77

  7. Chronic infection and concomitant airway inflammation is the leading cause of morbidity and mortality for people living with cystic fibrosis (CF). Although chronic infection in CF is undeniably polymicrobial, ...

    Authors: Leah Cuthbertson, Alan W. Walker, Anna E. Oliver, Geraint B. Rogers, Damian W. Rivett, Thomas H. Hampton, Alix Ashare, J. Stuart Elborn, Anthony De Soyza, Mary P. Carroll, Lucas R. Hoffman, Clare Lanyon, Samuel M. Moskowitz, George A. O’Toole, Julian Parkhill, Paul J. Planet…
    Citation: Microbiome 2020 8:45
  8. The impact of the gut microbiota on host physiology and behavior has been relatively well established. Whether changes in microbial composition affect brain structure and function is largely elusive, however. ...

    Authors: Anouk C. Tengeler, Sarita A. Dam, Maximilian Wiesmann, Jilly Naaijen, Miranda van Bodegom, Clara Belzer, Pieter J. Dederen, Vivienne Verweij, Barbara Franke, Tamas Kozicz, Alejandro Arias Vasquez and Amanda J. Kiliaan
    Citation: Microbiome 2020 8:44
  9. Bathyarchaeota, a newly proposed archaeal phylum, is considered as an important driver of the global carbon cycle. However, due to the great diversity of them, there is limited genomic information that accurat...

    Authors: Jie Pan, Zhichao Zhou, Oded Béjà, Mingwei Cai, Yuchun Yang, Yang Liu, Ji-Dong Gu and Meng Li
    Citation: Microbiome 2020 8:43
  10. Limiting microbial growth during drinking water distribution is achieved either by maintaining a disinfectant residual or through nutrient limitation without using a disinfectant. The impact of these contrasti...

    Authors: Zihan Dai, Maria C. Sevillano-Rivera, Szymon T. Calus, Q. Melina Bautista-de los Santos, A. Murat Eren, Paul W. J. J. van der Wielen, Umer Z. Ijaz and Ameet J. Pinto
    Citation: Microbiome 2020 8:42
  11. New antibiotic resistance determinants are generally discovered too late, long after they have irreversibly emerged in pathogens and spread widely. Early discovery of resistance genes, before or soon after the...

    Authors: Maria-Elisabeth Böhm, Mohammad Razavi, Nachiket P. Marathe, Carl-Fredrik Flach and D. G. Joakim Larsson
    Citation: Microbiome 2020 8:41
  12. Following publication of the original article [1], the authors reported that an affiliation of the first author was missing.

    Authors: Vinicius S. Kavagutti, Adrian-Ştefan Andrei, Maliheh Mehrshad, Michaela M. Salcher and Rohit Ghai
    Citation: Microbiome 2020 8:40

    The original article was published in Microbiome 2019 7:135

  13. The abundance and diversity of antibiotic resistance genes (ARGs) in the human respiratory microbiome remain poorly characterized. In the context of influenza virus infection, interactions between the virus, t...

    Authors: Lingdi Zhang, Christian V. Forst, Aubree Gordon, Gabrielle Gussin, Adam B. Geber, Porfirio J. Fernandez, Tao Ding, Lauren Lashua, Minghui Wang, Angel Balmaseda, Richard Bonneau, Bin Zhang and Elodie Ghedin
    Citation: Microbiome 2020 8:39
  14. Resident soil microbiota play key roles in sustaining the core ecosystem processes of terrestrial Antarctica, often involving unique taxa with novel functional traits. However, the full scope of biodiversity a...

    Authors: Eden Zhang, Loïc M. Thibaut, Aleks Terauds, Mark Raven, Mark M. Tanaka, Josie van Dorst, Sin Yin Wong, Sally Crane and Belinda C. Ferrari
    Citation: Microbiome 2020 8:37
  15. There are a variety of bioinformatic pipelines and downstream analysis methods for analyzing 16S rRNA marker-gene surveys. However, appropriate assessment datasets and metrics are needed as there is limited gu...

    Authors: Nathan D. Olson, M. Senthil Kumar, Shan Li, Domenick J. Braccia, Stephanie Hao, Winston Timp, Marc L. Salit, O. Colin Stine and Hector Corrada Bravo
    Citation: Microbiome 2020 8:35
  16. Apicomplexans are the causative agents of major human diseases such as malaria and toxoplasmosis. A novel group of apicomplexans, recently named corallicolids, have been detected in corals inhabiting tropical ...

    Authors: Samuel A. Vohsen, Kaitlin E. Anderson, Andrea M. Gade, Harald R. Gruber-Vodicka, Richard P. Dannenberg, Eslam O. Osman, Nicole Dubilier, Charles R. Fisher and Iliana B. Baums
    Citation: Microbiome 2020 8:34
  17. Human-targeted drugs may exert off-target effects or can be repurposed to modulate the gut microbiota. However, our understanding of such effects is limited due to a lack of rapid and scalable assay to compreh...

    Authors: Leyuan Li, Zhibin Ning, Xu Zhang, Janice Mayne, Kai Cheng, Alain Stintzi and Daniel Figeys
    Citation: Microbiome 2020 8:33
  18. Recently, increasing evidence supports that some complex diseases are not attributed to a given pathogen, but dysbiosis in the host intestinal microbiota (IM). The full intestinal ecosystem alterations, rather...

    Authors: Zhijian Huang, Shenzheng Zeng, Jinbo Xiong, Dongwei Hou, Renjun Zhou, Chengguang Xing, Dongdong Wei, Xisha Deng, Lingfei Yu, Hao Wang, Zhixuan Deng, Shaoping Weng, Satapornvanit Kriengkrai, Daliang Ning, Jizhong Zhou and Jianguo He
    Citation: Microbiome 2020 8:32
  19. There is an important need for the development of fast and robust methods to quantify the diversity and temporal dynamics of microbial communities in complex environmental samples. Because tandem mass spectrom...

    Authors: Olivier Pible, François Allain, Virginie Jouffret, Karen Culotta, Guylaine Miotello and Jean Armengaud
    Citation: Microbiome 2020 8:30
  20. The gut microbiota has the potential to influence the efficacy of cancer therapy. Here, we investigated the contribution of the intestinal microbiome on treatment outcomes in a heterogeneous cohort that includ...

    Authors: Yoshitaro Heshiki, Ruben Vazquez-Uribe, Jin Li, Yueqiong Ni, Scott Quainoo, Lejla Imamovic, Jun Li, Maria Sørensen, Billy K. C. Chow, Glen J. Weiss, Aimin Xu, Morten O. A. Sommer and Gianni Panagiotou
    Citation: Microbiome 2020 8:28
  21. Plant health is intimately influenced by the rhizosphere microbiome, a complex assembly of organisms that changes markedly across plant growth. However, most rhizosphere microbiome research has focused on frac...

    Authors: Wu Xiong, Yuqi Song, Keming Yang, Yian Gu, Zhong Wei, George A. Kowalchuk, Yangchun Xu, Alexandre Jousset, Qirong Shen and Stefan Geisen
    Citation: Microbiome 2020 8:27
  22. Antibiotic-resistant pathogens pose high risks to human and animal health worldwide. In recent years, the role of gut microbiota as a reservoir of antibiotic resistance genes (ARGs) in humans and animals has b...

    Authors: Jian Cao, Yongfei Hu, Fei Liu, Yanan Wang, Yuhai Bi, Na Lv, Jing Li, Baoli Zhu and George F. Gao
    Citation: Microbiome 2020 8:26
  23. Following publication of the original article [1], the authors reported an error on the legend of of P.damicornis in Fig. 1.

    Authors: Eslam O. Osman, David J. Suggett, Christian R. Voolstra, D. Tye Pettay, Dave R. Clark, Claudia Pogoreutz, Eugenia M. Sampayo, Mark E. Warner and David J. Smith
    Citation: Microbiome 2020 8:24

    The original article was published in Microbiome 2020 8:8

  24. The rumen contains a myriad of microbes whose primary role is to degrade and ferment dietary nutrients, which then provide the host with energy and nutrients. Rumen microbes commonly attach to ingested plant m...

    Authors: Mi-Young Won, Linda B. Oyama, Stephen J. Courtney, Christopher J. Creevey and Sharon A. Huws
    Citation: Microbiome 2020 8:23
  25. Methanogenesis, a biological process mediated by complex microbial communities, has attracted great attention due to its contribution to global warming and potential in biotechnological applications. The curre...

    Authors: Xinyu Zhu, Stefano Campanaro, Laura Treu, Rekha Seshadri, Natalia Ivanova, Panagiotis G. Kougias, Nikos Kyrpides and Irini Angelidaki
    Citation: Microbiome 2020 8:22
  26. Metagenomics and single cell genomics provide a window into the genetic repertoire of yet uncultivated microorganisms, but both methods are usually taxonomically untargeted. The combination of fluorescence in ...

    Authors: Anissa Grieb, Robert M. Bowers, Monike Oggerin, Danielle Goudeau, Janey Lee, Rex R. Malmstrom, Tanja Woyke and Bernhard M. Fuchs
    Citation: Microbiome 2020 8:21
  27. Plant-associated microbiomes, which are shaped by host and environmental factors, support their hosts by providing nutrients and attenuating abiotic and biotic stresses. Although host genetic factors involved ...

    Authors: Hyun Kim, Kiseok Keith Lee, Jongbum Jeon, William Anthony Harris and Yong-Hwan Lee
    Citation: Microbiome 2020 8:20
  28. The upper gastrointestinal tract plays a prominent role in human physiology as the primary site for enzymatic digestion and nutrient absorption, immune sampling, and drug uptake. Alterations to the small intes...

    Authors: Said R. Bogatyrev, Justin C. Rolando and Rustem F. Ismagilov
    Citation: Microbiome 2020 8:19
  29. Cell-free DNA (cfDNA) in blood, urine, and other biofluids provides a unique window into human health. A proportion of cfDNA is derived from bacteria and viruses, creating opportunities for the diagnosis of in...

    Authors: Philip Burnham, Nardhy Gomez-Lopez, Michael Heyang, Alexandre Pellan Cheng, Joan Sesing Lenz, Darshana M. Dadhania, John Richard Lee, Manikkam Suthanthiran, Roberto Romero and Iwijn De Vlaminck
    Citation: Microbiome 2020 8:18
  30. Bacteriophages (phages) are the most numerous biological entities on Earth and play a crucial role in shaping microbial communities. Investigating the bacteriophage community from soil will shed light not only...

    Authors: Pauline C. Göller, Jose M. Haro-Moreno, Francisco Rodriguez-Valera, Martin J. Loessner and Elena Gómez-Sanz
    Citation: Microbiome 2020 8:17
  31. Microorganisms in activated sludge (AS) play key roles in the wastewater treatment processes. However, their ecological behaviors and differences from microorganisms in other environments have mainly been stud...

    Authors: Lin Ye, Ran Mei, Wen-Tso Liu, Hongqiang Ren and Xu-Xiang Zhang
    Citation: Microbiome 2020 8:16
  32. Dietary effects on the gut microbiome play key roles in the pathophysiology of inflammatory disorders, metabolic syndrome, obesity, and behavioral dysregulation. Often overlooked in such studies is the conside...

    Authors: Kathleen E. Morrison, Eldin Jašarević, Christopher D. Howard and Tracy L. Bale
    Citation: Microbiome 2020 8:15
  33. The eco-evolutionary processes ruling post-disturbance microbial assembly remain poorly studied, particularly in host-microbiome systems. The community recovery depends not only on the type, duration, intensit...

    Authors: Bachar Cheaib, Hamza Seghouani, Umer Zeeshan Ijaz and Nicolas Derome
    Citation: Microbiome 2020 8:14
  34. Roux-en-Y gastric bypass (RYGB) surgery is a last-resort treatment to induce substantial and sustained weight loss in cases of severe obesity. This anatomical rearrangement affects the intestinal microbiota, b...

    Authors: Sven-Bastiaan Haange, Nico Jehmlich, Ute Krügel, Constantin Hintschich, Dorothee Wehrmann, Mohammed Hankir, Florian Seyfried, Jean Froment, Thomas Hübschmann, Susann Müller, Dirk K. Wissenbach, Kang Kang, Christian Buettner, Gianni Panagiotou, Matthias Noll, Ulrike Rolle-Kampczyk…
    Citation: Microbiome 2020 8:13
  35. The capacity of reef-building corals to tolerate (or adapt to) heat stress is a key factor determining their resilience to future climate change. Changes in coral microbiome composition (particularly for micro...

    Authors: Eslam O. Osman, David J. Suggett, Christian R. Voolstra, D. Tye Pettay, Dave R. Clark, Claudia Pogoreutz, Eugenia M. Sampayo, Mark E. Warner and David J. Smith
    Citation: Microbiome 2020 8:8

    The Correction to this article has been published in Microbiome 2020 8:24

  36. The role of the gut microbiota in Crohn’s disease (CD) is established and fecal microbiota transplantation (FMT) is an attractive therapeutic strategy. No randomized controlled clinical trial results are avail...

    Authors: Harry Sokol, Cecilia Landman, Philippe Seksik, Laurence Berard, Mélissa Montil, Isabelle Nion-Larmurier, Anne Bourrier, Guillaume Le Gall, Valérie Lalande, Alexis De Rougemont, Julien Kirchgesner, Anne Daguenel, Marine Cachanado, Alexandra Rousseau, Élodie Drouet, Michelle Rosenzwajg…
    Citation: Microbiome 2020 8:12
  37. The complex network of interactions occurring between gastrointestinal (GI) and extra-intestinal (EI) parasitic helminths of humans and animals and the resident gut microbial flora is attracting increasing att...

    Authors: Riccardo Scotti, Stuart Southern, Christine Boinett, Timothy P. Jenkins, Alba Cortés and Cinzia Cantacessi
    Citation: Microbiome 2020 8:10
  38. Verticillium wilt of olive (VWO) is caused by the soilborne fungal pathogen Verticillium dahliae. One of the best VWO management measures is the use of tolerant/resistant olive cultivars. Knowledge on the olive-a...

    Authors: Antonio J. Fernández-González, Martina Cardoni, Carmen Gómez-Lama Cabanás, Antonio Valverde-Corredor, Pablo J. Villadas, Manuel Fernández-López and Jesús Mercado-Blanco
    Citation: Microbiome 2020 8:11
  39. Fish skin microbiomes are rarely studied in inland water systems, in spite of their importance for fish health and ecology. This is mainly because fish species distribution often covaries with other biotic and...

    Authors: Yaron Krotman, Timur M. Yergaliyev, Rivka Alexander Shani, Yosef Avrahami and Amir Szitenberg
    Citation: Microbiome 2020 8:9
  40. Anaerobic ammonium oxidation (anammox) is a biological process employed to remove reactive nitrogen from wastewater. While a substantial body of literature describes the performance of anammox bioreactors unde...

    Authors: Ray Keren, Jennifer E. Lawrence, Weiqin Zhuang, David Jenkins, Jillian F. Banfield, Lisa Alvarez-Cohen, Lijie Zhou and Ke Yu
    Citation: Microbiome 2020 8:7
  41. High-altitude ecosystems are extreme environments that generate specific physiological, morphological, and behavioral adaptations in ectotherms. The shifts in gut microbiota of the ectothermic hosts as an adap...

    Authors: Nina Montoya-Ciriaco, Selene Gómez-Acata, Ligia Catalina Muñoz-Arenas, Luc Dendooven, Arturo Estrada-Torres, Aníbal H. Díaz de la Vega-Pérez and Yendi E. Navarro-Noya
    Citation: Microbiome 2020 8:6
  42. The gut microbiota can have dramatic effects on host metabolism; however, current genomic strategies for uncultured bacteria have several limitations that hinder their ability to identify responders to metabol...

    Authors: Rieka Chijiiwa, Masahito Hosokawa, Masato Kogawa, Yohei Nishikawa, Keigo Ide, Chikako Sakanashi, Kai Takahashi and Haruko Takeyama
    Citation: Microbiome 2020 8:5
  43. Stress-induced hormones are essential for plants to modulate their microbiota and dynamically adjust to the environment. Despite the emphasis of the role of the phytohormone ethylene in the plant physiological...

    Authors: Yan Chen, Michael Bonkowski, Yi Shen, Bryan S. Griffiths, Yuji Jiang, Xiaoyue Wang and Bo Sun
    Citation: Microbiome 2020 8:4
  44. It is well-known that global warming has effects on high-latitude tundra underlain with permafrost. This leads to a severe concern that decomposition of soil organic carbon (SOC) previously stored in this regi...

    Authors: Jiajie Feng, Cong Wang, Jiesi Lei, Yunfeng Yang, Qingyun Yan, Xishu Zhou, Xuanyu Tao, Daliang Ning, Mengting M. Yuan, Yujia Qin, Zhou J. Shi, Xue Guo, Zhili He, Joy D. Van Nostrand, Liyou Wu, Rosvel G. Bracho-Garillo…
    Citation: Microbiome 2020 8:3

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