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  1. The increasing prevalence of resistance against the last-resort antibiotic colistin is a significant threat to global public health. Here, we discovered a novel colistin resistance mechanism via enzymatic inac...

    Authors: Do-Hoon Lee, Ju-Hee Cha, Dae-Wi Kim, Kihyun Lee, Yong-Seok Kim, Hyo-Young Oh, You-Hee Cho and Chang-Jun Cha
    Citation: Microbiome 2022 10:129
  2. As important producers using photosynthesis on Earth, cyanobacteria contribute to the oxygenation of atmosphere and the primary production of biosphere. However, due to the eutrophication of urban waterbodies ...

    Authors: Kang Du, Feng Yang, Jun-Tao Zhang, Rong-Cheng Yu, Ziqing Deng, Wei-Fang Li, Yuxing Chen, Qiong Li and Cong-Zhao Zhou
    Citation: Microbiome 2022 10:128
  3. The emergence of antimicrobial resistance is a major threat to global health and has placed pressure on the livestock industry to eliminate the use of antibiotic growth promotants (AGPs) as feed additives. To ...

    Authors: Angela Zou, Kerry Nadeau, Xuejian Xiong, Pauline W. Wang, Julia K. Copeland, Jee Yeon Lee, James St. Pierre, Maxine Ty, Billy Taj, John H. Brumell, David S. Guttman, Shayan Sharif, Doug Korver and John Parkinson
    Citation: Microbiome 2022 10:127
  4. Microorganisms in the seafloor use a wide range of metabolic processes, which are coupled to the presence of functional genes within their genomes. Aquatic environments are heterogenous and often characterized...

    Authors: Elias Broman, Dandan Izabel-Shen, Alejandro Rodríguez-Gijón, Stefano Bonaglia, Sarahi L. Garcia and Francisco J. A. Nascimento
    Citation: Microbiome 2022 10:126
  5. The viral community has the potential to influence the structure of the microbiome and thus the yield of the anaerobic digestion process. However, the virome composition in anaerobic digestion is still under-i...

    Authors: Alessandro Rossi, Maria Silvia Morlino, Maria Gaspari, Arianna Basile, Panagiotis Kougias, Laura Treu and Stefano Campanaro
    Citation: Microbiome 2022 10:125
  6. Horizontal gene transfer (HGT) plays a critical role in the spread of antibiotic resistance and the evolutionary shaping of bacterial communities. Conjugation is the most well characterized pathway for the spr...

    Authors: Yue Wang, Zhigang Yu, Pengbo Ding, Ji Lu, Uli Klümper, Aimee K. Murray, William H. Gaze and Jianhua Guo
    Citation: Microbiome 2022 10:124
  7. Effective standardisation of the microbiome field is essential to facilitate global translational research and increase the reproducibility of microbiome studies. In this study, we describe the development and...

    Authors: Chrysi Sergaki, Saba Anwar, Martin Fritzsche, Ryan Mate, Robert J. Francis, Kirsty MacLellan-Gibson, Alastair Logan and Gregory C. A. Amos
    Citation: Microbiome 2022 10:123
  8. Hyperglycaemia in pregnancy (HIP) is a common metabolic disorder that not only poses risks to maternal health but also associates with an increased risk of diabetes among offspring. Vertical transmission of mi...

    Authors: Cunxi Xue, Qinyuan Xie, Chenhong Zhang, Yimeng Hu, Xiaoting Song, Yifan Jia, Xiaoyang Shi, Yiqi Chen, Yalei Liu, Lingyun Zhao, Fenglian Huang and Huijuan Yuan
    Citation: Microbiome 2022 10:122
  9. With the rapid accumulation of microbiome-wide association studies, a great amount of microbiome data are available to study the microbiome’s role in human disease and advance the microbiome’s potential use fo...

    Authors: Chan Wang, Leopoldo N. Segal, Jiyuan Hu, Boyan Zhou, Richard B. Hayes, Jiyoung Ahn and Huilin Li
    Citation: Microbiome 2022 10:121
  10. Ixodes ricinus ticks vector pathogens that cause serious health concerns. Like in other arthropods, the microbiome may affect the tick’s biology, with consequences for pathogen transmission. Here, we explored th...

    Authors: Aleksandra I. Krawczyk, Lisa Röttjers, Manoj Fonville, Katshuisa Takumi, Willem Takken, Karoline Faust and Hein Sprong
    Citation: Microbiome 2022 10:120
  11. The cervicovaginal (CV) microbiome is highly associated with vaginal health and disease in both pregnant and nonpregnant individuals. An overabundance of Gardnerella vaginalis (G. vaginalis) in the CV space is co...

    Authors: Lauren Anton, Briana Ferguson, Elliot S. Friedman, Kristin D. Gerson, Amy G. Brown and Michal A. Elovitz
    Citation: Microbiome 2022 10:119
  12. Antimicrobials are used in food-producing animals for purposes of preventing, controlling, and/or treating infections. In swine, a major driver of antimicrobial use is porcine reproductive and respiratory synd...

    Authors: Tara N. Gaire, Carissa Odland, Bingzhou Zhang, Tui Ray, Enrique Doster, Joel Nerem, Scott Dee, Peter Davies and Noelle Noyes
    Citation: Microbiome 2022 10:118
  13. Carbon fixation through biological methanation has emerged as a promising technology to produce renewable energy in the context of the circular economy. The anaerobic digestion microbiome is the fundamental bi...

    Authors: Nicola De Bernardini, Arianna Basile, Guido Zampieri, Adam Kovalovszki, Beatrix De Diego Diaz, Elisabetta Offer, Nantharat Wongfaed, Irini Angelidaki, Panagiotis G. Kougias, Stefano Campanaro and Laura Treu
    Citation: Microbiome 2022 10:117
  14. Disease resistance phenotypes are associated with immune regulatory functions and immune tolerance and have implications for both the livestock industry and human health. Microbiota plays an essential role in ...

    Authors: Xuan Zhao, Lin Jiang, Xiuyu Fang, Zhiqiang Guo, Xiaoxu Wang, Baoming Shi and Qingwei Meng
    Citation: Microbiome 2022 10:115
  15. Short-chain fatty acids (SCFAs) derived from gut bacteria are associated with protective roles in diseases ranging from obesity to colorectal cancers. Intake of microbially accessible dietary fibers (prebiotic...

    Authors: Zachary C. Holmes, Max M. Villa, Heather K. Durand, Sharon Jiang, Eric P. Dallow, Brianna L. Petrone, Justin D. Silverman, Pao-Hwa Lin and Lawrence A. David
    Citation: Microbiome 2022 10:114
  16. Anthropogenic activities have increased the inputs of atmospheric reactive nitrogen (N) into terrestrial ecosystems, affecting soil carbon stability and microbial communities. Previous studies have primarily e...

    Authors: Xingyu Ma, Tengxu Wang, Zhou Shi, Nona R. Chiariello, Kathryn Docherty, Christopher B. Field, Jessica Gutknecht, Qun Gao, Yunfu Gu, Xue Guo, Bruce A. Hungate, Jiesi Lei, Audrey Niboyet, Xavier Le Roux, Mengting Yuan, Tong Yuan…
    Citation: Microbiome 2022 10:112
  17. Antibiotic resistome has been found to strongly interact with the core microbiota in the human gut, yet little is known about how antibiotic resistance genes (ARGs) correlate with certain microbes in large riv...

    Authors: Jiawen Wang, Rui Pan, Peiyan Dong, Shufeng Liu, Qian Chen, Alistair G. L. Borthwick, Liyu Sun, Nan Xu and Jinren Ni
    Citation: Microbiome 2022 10:111
  18. Ubiquitous and diverse marine microorganisms utilise the abundant organosulfur molecule dimethylsulfoniopropionate (DMSP), the main precursor of the climate-active gas dimethylsulfide (DMS), as a source of car...

    Authors: Jingli Liu, Chun-Xu Xue, Jinyan Wang, Andrew T. Crombie, Ornella Carrión, Andrew W. B. Johnston, J. Colin Murrell, Ji Liu, Yanfen Zheng, Xiao-Hua Zhang and Jonathan D. Todd
    Citation: Microbiome 2022 10:110
  19. B and K2 vitamins, essential nutrients in host metabolism, can be synthesized by the rumen microbiome in ruminants and subsequently absorbed by the host. However, the B and K2 vitamin biosynthesis by the whole ga...

    Authors: Qian Jiang, Limei Lin, Fei Xie, Wei Jin, Weiyun Zhu, Min Wang, Qiang Qiu, Zhipeng Li, Junhua Liu and Shengyong Mao
    Citation: Microbiome 2022 10:109
  20. Rhizodeposits regulate rhizosphere interactions, processes, nutrient and energy flow, and plant-microbe communication and thus play a vital role in maintaining soil and plant health. However, it remains unclea...

    Authors: Pengfa Li, Jia Liu, Muhammad Saleem, Guilong Li, Lu Luan, Meng Wu and Zhongpei Li
    Citation: Microbiome 2022 10:108
  21. Intestinal inflammation is prevalent in chicken, which results in decreased growth performance and considerable economic losses. Accumulated findings established the close relationship between gut microbiota a...

    Authors: Xiaolong Zhang, Muhammad Akhtar, Yan Chen, Ziyu Ma, Yuyun Liang, Deshi Shi, Ranran Cheng, Lei Cui, Yafang Hu, Abdallah A. Nafady, Abdur Rahman Ansari, El-Sayed M. Abdel-Kafy and Huazhen Liu
    Citation: Microbiome 2022 10:107

    The Correction to this article has been published in Microbiome 2022 10:116

  22. Growing up with siblings has been linked to numerous health outcomes and is also an important determinant for the developing microbiota. Nonetheless, research into the role of having siblings on the developing...

    Authors: Emil Dalgaard Christensen, Mathis Hjort Hjelmsø, Jonathan Thorsen, Shiraz Shah, Tamsin Redgwell, Christina Egeø Poulsen, Urvish Trivedi, Jakob Russel, Shashank Gupta, Bo L. Chawes, Klaus Bønnelykke, Søren Johannes Sørensen, Morten Arendt Rasmussen, Hans Bisgaard and Jakob Stokholm
    Citation: Microbiome 2022 10:106
  23. Inflammatory bowel diseases (IBDs) including Crohn’s disease (CD) and ulcerative colitis (UC) are characterized by chronic and debilitating gut inflammation. Altered bacterial communities of the intestine are ...

    Authors: Anshul Sinha, Yue Li, Mohammadali Khan Mirzaei, Michael Shamash, Rana Samadfam, Irah L. King and Corinne F. Maurice
    Citation: Microbiome 2022 10:105
  24. The 16S rRNA gene is used extensively in bacterial phylogenetics, in species delineation, and now widely in microbiome studies. However, the gene suffers from intragenomic heterogeneity, and reports of recombi...

    Authors: Hayley B. Hassler, Brett Probert, Carson Moore, Elizabeth Lawson, Richard W. Jackson, Brook T. Russell and Vincent P. Richards
    Citation: Microbiome 2022 10:104
  25. Aberrations in the preterm microbiome following antibiotic therapy have been reported in previous studies. The objective of this study was to probe potential underlying mechanisms between this observation and ...

    Authors: Yanping Xu, Olivia Milburn, Traci Beiersdorfer, Lizhong Du, Henry Akinbi and David B. Haslam
    Citation: Microbiome 2022 10:103
  26. Recent studies have provided insights into the persistence and succession of microbes aboard the International Space Station (ISS), notably the dominance of Klebsiella pneumoniae. However, the interactions betwee...

    Authors: Rachita K. Kumar, Nitin Kumar Singh, Sanjaay Balakrishnan, Ceth W. Parker, Karthik Raman and Kasthuri Venkateswaran
    Citation: Microbiome 2022 10:102
  27. Phosphorus (P) is one of the most essential macronutrients on the planet, and microorganisms (including bacteria and archaea) play a key role in P cycling in all living things and ecosystems. However, our comp...

    Authors: Jiaxiong Zeng, Qichao Tu, Xiaoli Yu, Lu Qian, Cheng Wang, Longfei Shu, Fei Liu, Shengwei Liu, Zhijian Huang, Jianguo He, Qingyun Yan and Zhili He
    Citation: Microbiome 2022 10:101
  28. The International Space Station (ISS) is a unique and complex built environment with the ISS surface microbiome originating from crew and cargo or from life support recirculation in an almost entirely closed s...

    Authors: Camilla Urbaniak, Michael D. Morrison, James B. Thissen, Fathi Karouia, David J. Smith, Satish Mehta, Crystal Jaing and Kasthuri Venkateswaran
    Citation: Microbiome 2022 10:100
  29. Well-balanced interactions between gut microbiota and the immune system are essential to prevent chronic intestinal inflammation, as observed in inflammatory bowel diseases (IBD). Toll-like receptor 4 (TLR4) f...

    Authors: Yaojiang Liu, Min Yang, Li Tang, Fengchao Wang, Shengjie Huang, Shuang Liu, Yuanyuan Lei, Sumin Wang, Zhuo Xie, Wei Wang, Xiaoyan Zhao, Bo Tang and Shiming Yang
    Citation: Microbiome 2022 10:98
  30. Herbivorous insects acquire their gut microbiota from diverse sources, and these microorganisms play significant roles in insect hosts’ tolerance to plant secondary defensive compounds. Camellia weevil (Curculio ...

    Authors: Shouke Zhang, Zikun Li, Jinping Shu, Huaijun Xue, Kai Guo and Xudong Zhou
    Citation: Microbiome 2022 10:97
  31. Bariatric surgery remains the most effective therapy for adiposity reduction and remission of type 2 diabetes. Although different bariatric procedures associate with pronounced shifts in the gut microbiota, th...

    Authors: Julia Münzker, Nadine Haase, Andreas Till, Robert Sucher, Sven-Bastiaan Haange, Linda Nemetschke, Thorsten Gnad, Elisabeth Jäger, Jiesi Chen, Sjaak J. Riede, Rima Chakaroun, Lucas Massier, Peter Kovacs, Mario Ost, Ulrike Rolle-Kampczyk, Nico Jehmlich…
    Citation: Microbiome 2022 10:96
  32. Pronounced heterogeneity of age trajectories has been identified as a hallmark of the gut microbiota in humans and has been explained by marked changes in lifestyle and health condition. Comparatively, age-rel...

    Authors: Baptiste Sadoughi, Dominik Schneider, Rolf Daniel, Oliver Schülke and Julia Ostner
    Citation: Microbiome 2022 10:95
  33. The gut microbiota is reportedly involved in the progression and chemoresistance of various human malignancies. However, the underlying mechanisms behind how it exerts some effect on prostate cancer, as an ext...

    Authors: Weibo Zhong, Kaihui Wu, Zining Long, Xumin Zhou, Chuanfan Zhong, Shuo Wang, Houhua Lai, Yufei Guo, Daojun Lv, Jianming Lu and Xiangming Mao
    Citation: Microbiome 2022 10:94
  34. Pancreatic cancer is a deadly disease with limited diagnostic and treatment options. Not all populations are affected equally, as disparities exist in pancreatic cancer prevalence, treatment and outcomes. Rece...

    Authors: Kelly M. Herremans, Andrea N. Riner, Miles E. Cameron, Kelley L. McKinley, Eric W. Triplett, Steven J. Hughes and Jose G. Trevino
    Citation: Microbiome 2022 10:93
  35. Prokaryote-virus interactions play key roles in driving biogeochemical cycles. However, little is known about the drivers shaping their interaction network structures, especially from the host features. Here, ...

    Authors: Zhenghua Liu, Qingyun Yan, Chengying Jiang, Juan Li, Huahua Jian, Lu Fan, Rui Zhang, Xiang Xiao, Delong Meng, Xueduan Liu, Jianjun Wang and Huaqun Yin
    Citation: Microbiome 2022 10:92
  36. Innate immunity genes have been reported to affect susceptibility to inflammatory bowel diseases (IBDs) and colitis in mice. Dectin-1, a receptor for fungal cell wall β-glucans, has been clearly implicated in ...

    Authors: Yazhou Wang, Madeleine Spatz, Gregory Da Costa, Chloé Michaudel, Alexia Lapiere, Camille Danne, Allison Agus, Marie-Laure Michel, Mihai G. Netea, Philippe Langella, Harry Sokol and Mathias L. Richard
    Citation: Microbiome 2022 10:91
  37. The Scarabaeidae insect Protaetia brevitarsis (PB) has recently gained increasing research interest as a resource insect because its larvae can effectively convert decaying organic matter to plant growth-promotin...

    Authors: Kui Wang, Peiwen Gao, Lili Geng, Chunqin Liu, Jie Zhang and Changlong Shu
    Citation: Microbiome 2022 10:90
  38. Haematopoietic stem cell transplantation is a curative procedure for a variety of conditions. Despite major advances, a plethora of adverse clinical outcomes can develop post-transplantation including graft-ve...

    Authors: Gintare Vaitkute, Gordana Panic, Dagmar G. Alber, Intan Faizura-Yeop, Elaine Cloutman-Green, Jonathan Swann, Paul Veys, Joseph F. Standing, Nigel Klein and Mona Bajaj-Elliott
    Citation: Microbiome 2022 10:89
  39. Clostridioides difficile infection (CDI) is the most common hospital acquired infection in the USA, with recurrence rates > 15%. Although primary CDI has been extensively linked to gut microbial dysbiosis, less i...

    Authors: Jennifer J. Dawkins, Jessica R. Allegretti, Travis E. Gibson, Emma McClure, Mary Delaney, Lynn Bry and Georg K. Gerber
    Citation: Microbiome 2022 10:87
  40. The relationship between host conditions and microbiome profiles, typically characterized by operational taxonomic units (OTUs), contains important information about the microbial role in human health. Traditi...

    Authors: Caizhi Huang, Benjamin J. Callahan, Michael C. Wu, Shannon T. Holloway, Hayden Brochu, Wenbin Lu, Xinxia Peng and Jung-Ying Tzeng
    Citation: Microbiome 2022 10:86
  41. The interaction of organisms with their surrounding microbial communities influences many biological processes, a notable example of which is the shaping of the immune system in early life. In the Pacific oyst...

    Authors: Manon Fallet, Caroline Montagnani, Bruno Petton, Luc Dantan, Julien de Lorgeril, Sébastien Comarmond, Cristian Chaparro, Eve Toulza, Simon Boitard, Jean-Michel Escoubas, Agnès Vergnes, Jacqueline Le Grand, Ingo Bulla, Yannick Gueguen, Jérémie Vidal-Dupiol, Christoph Grunau…
    Citation: Microbiome 2022 10:85
  42. The increased use of metagenomics and single-cell genomics led to the discovery of organisms from phyla with no cultivated representatives and proposed new microbial lineages such as the candidate phyla radiat...

    Authors: Maria-Cecilia Chiriac, Paul-Adrian Bulzu, Adrian-Stefan Andrei, Yusuke Okazaki, Shin-ichi Nakano, Markus Haber, Vinicius Silva Kavagutti, Paul Layoun, Rohit Ghai and Michaela M. Salcher
    Citation: Microbiome 2022 10:84
  43. In modern animal husbandry, breeders pay increasing attention to improving sow nutrition during pregnancy and lactation to favor the health of neonates. Sow milk is a main food source for piglets during their ...

    Authors: Leli Wang, Qihang Liu, Yuwei Chen, Xinlei Zheng, Chuni Wang, Yining Qi, Yachao Dong, Yue Xiao, Cang Chen, Taohong Chen, Qiuyun Huang, Zongzhao Zhai, Cimin Long, Huansheng Yang, Jianzhong Li, Lei Wang…
    Citation: Microbiome 2022 10:83
  44. Gut microbiota plays important roles in health maintenance and diseases. Physical exercise has been demonstrated to be able to modulate gut microbiota. However, the potential role of gut microbiome in exercise...

    Authors: Qiulian Zhou, Jiali Deng, Xue Pan, Danni Meng, Yujiao Zhu, Yuzheng Bai, Chao Shi, Yi Duan, Tianhui Wang, Xinli Li, Joost PG Sluijter and Junjie Xiao
    Citation: Microbiome 2022 10:82

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