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  1. The gut microbiome is closely associated with health status, and any microbiota dysbiosis could considerably impact the host’s health. In addition, many active consortium projects have generated many reference...

    Authors: Jinlin Zhu, Heqiang Xie, Zixin Yang, Jing Chen, Jialin Yin, Peijun Tian, Hongchao Wang, Jianxin Zhao, Hao Zhang, Wenwei Lu and Wei Chen
    Citation: Microbiome 2023 11:184
  2. Some microbiota compositions are associated with negative outcomes, including among others, obesity, allergies, and the failure to respond to treatment. Microbiota manipulation or supplementation can restore a...

    Authors: Oshrit Shtossel, Sondra Turjeman, Alona Riumin, Michael R. Goldberg, Arnon Elizur, Yarin Bekor, Hadar Mor, Omry Koren and Yoram Louzoun
    Citation: Microbiome 2023 11:181
  3. The gut microbiota of the giant panda (Ailuropoda melanoleuca), a global symbol of conservation, are believed to be involved in the host’s dietary switch to a fibrous bamboo diet. However, their exact roles are s...

    Authors: Feilong Deng, Chengdong Wang, Desheng Li, Yunjuan Peng, Linhua Deng, Yunxiang Zhao, Zhihao Zhang, Ming Wei, Kai Wu, Jiangchao Zhao and Ying Li
    Citation: Microbiome 2023 11:180
  4. The fungal component of the human gut microbiome, also known as the mycobiome, plays a vital role in intestinal ecology and human health. However, the overall structure of the gut mycobiome as well as the inte...

    Authors: Senying Lai, Yan Yan, Yanni Pu, Shuchun Lin, Jian-Ge Qiu, Bing-Hua Jiang, Marisa Isabell Keller, Mingyu Wang, Peer Bork, Wei-Hua Chen, Yan Zheng and Xing-Ming Zhao
    Citation: Microbiome 2023 11:179
  5. A growing body of evidence suggests that the gut microbiota is strongly linked to general human health. Microbiome-directed interventions, such as diet and exercise, are acknowledged as a viable and achievable...

    Authors: Jiarui Chen, Sara Leal Siliceo, Yueqiong Ni, Henrik B. Nielsen, Aimin Xu and Gianni Panagiotou
    Citation: Microbiome 2023 11:178
  6. The high diversity and complexity of the microbial community make it a formidable challenge to identify and quantify the large number of proteins expressed in the community. Conventional metaproteomics approac...

    Authors: Chunlin Hao, Joshua E. Elias, Patrick K. H. Lee and Henry Lam
    Citation: Microbiome 2023 11:176
  7. Hadal trenches (>6000 m) are the deepest oceanic regions on Earth and depocenters for organic materials. However, how these enigmatic microbial ecosystems are fueled is largely unknown, particularly the propor...

    Authors: Xiao-Yu Zhu, Yang Li, Chun-Xu Xue, Ian D. E. A. Lidbury, Jonathan D. Todd, David J. Lea-Smith, Jiwei Tian, Xiao-Hua Zhang and Jiwen Liu
    Citation: Microbiome 2023 11:175
  8. Climate change threatens Earth’s ice-based ecosystems which currently offer archives and eco-evolutionary experiments in the extreme. Arctic cryopeg brine (marine-derived, within permafrost) and sea ice brine,...

    Authors: Zhi-Ping Zhong, Dean Vik, Josephine Z. Rapp, Olivier Zablocki, Heather Maughan, Ben Temperton, Jody W. Deming and Matthew B. Sullivan
    Citation: Microbiome 2023 11:174
  9. Authors: M. Barone, Y. Ramayo‑Caldas, J. Estellé, K. Tambosco, S. Chadi, F. Maillard, M. Gallopin, J. Planchais, F. Chain, C. Kropp, D. Rios‑Covian, H. Sokol, P. Brigidi, P. Langella and R. Martín
    Citation: Microbiome 2023 11:173

    The original article was published in Microbiome 2023 11:140

  10. The effects of Arula-7 powder (ASP) on diarrhea and intestinal barrier function associated with its regulation of intestinal microflora in calves infected with pathogenic Escherichia coli O1 (E. coli O1) were stu...

    Authors: Hao Chen, Zhifeng Jia, Meiling He, Aorigele Chen, Xin Zhang, Jin Xu and Chunjie Wang
    Citation: Microbiome 2023 11:172
  11. Treating oral squamous cell carcinoma (OSCC) introduces new ecological environments in the oral cavity. This is expected to cause changes in the oral microbiome. The purpose of this study was to gain new infor...

    Authors: Anna I. Mäkinen, Vincent Y. Pappalardo, Mark J. Buijs, Bernd W. Brandt, Antti A. Mäkitie, Jukka H. Meurman and Egija Zaura
    Citation: Microbiome 2023 11:171
  12. Upper small intestinal dietary lipids activate a gut-brain axis regulating energy homeostasis. The prebiotic, oligofructose (OFS) improves body weight and adiposity during metabolic dysregulation but the exact...

    Authors: Savanna N. Weninger, Chloe Herman, Rachel K. Meyer, Eve T. Beauchemin, Archana Kangath, Adelina I. Lane, Taylor M. Martinez, Tahia Hasneen, Sierra A. Jaramillo, Jason Lindsey, Gayatri Vedantam, Haijiang Cai, Emily K. Cope, J. Gregory Caporaso and Frank A. Duca
    Citation: Microbiome 2023 11:169
  13. Typically, animal models studying gastrointestinal microbiotas compromised in early life have employed either germ-free animals or mice treated with a cocktail of antibiotics. Such studies intend to mimic scen...

    Authors: Emily C. Hoedt, Cara M. Hueston, Nora Cash, Roger S. Bongers, Jonathan M. Keane, Kees van Limpt, Kaouther Ben Amor, Jan Knol, John MacSharry and Douwe van Sinderen
    Citation: Microbiome 2023 11:168
  14. Legionella are parasites of freshwater protozoa, responsible for Legionellosis. Legionella can be found in a variety of aquatic environments, including rivers, lakes, and springs, as well as in engineered water s...

    Authors: Oded Bergman, Yaron Be’eri-Shlevin and Shira Ninio
    Citation: Microbiome 2023 11:167

    The Correction to this article has been published in Microbiome 2023 11:177

  15. The resistome, the collection of antibiotic resistance genes (ARGs) in a microbiome, is increasingly recognised as relevant to the development of clinically relevant antibiotic resistance. Many metagenomic stu...

    Authors: Simen Fredriksen, Stef de Warle, Peter van Baarlen, Jos Boekhorst and Jerry M. Wells
    Citation: Microbiome 2023 11:166
  16. During development, elevated levels of maternal glucocorticoids (GCs) can have detrimental effects on offspring morphology, cognition, and behavior as well as physiology and metabolism. Depending on the timing...

    Authors: Simone Anzà, Dominik Schneider, Rolf Daniel, Michael Heistermann, Somboon Sangmaneedet, Julia Ostner and Oliver Schülke
    Citation: Microbiome 2023 11:165
  17. Emerging evidence suggests the potential mediating role of microbiome in health disparities. However, no analytic framework can be directly used to analyze microbiome as a mediator between health disparity and...

    Authors: Chan Wang, Jiyoung Ahn, Thaddeus Tarpey, Stella S. Yi, Richard B. Hayes and Huilin Li
    Citation: Microbiome 2023 11:164
  18. Antibiotics are widely used for prophylactic therapy and for improving the growth performance of chicken. The problem of bacterial drug resistance caused by antibiotic abuse has previously attracted extensive ...

    Authors: Xianghui Liang, Zhipeng Zhang, Hai Wang, Xingbang Lu, Wen Li, Haoran Lu, Ayan Roy, Xuejuan Shen, David M. Irwin and Yongyi Shen
    Citation: Microbiome 2023 11:163
  19. Darier’s disease (DD) is a genodermatosis caused by mutations of the ATP2A2 gene leading to disrupted keratinocyte adhesion. Recurrent episodes of skin inflammation and infections with a typical malodour in DD in...

    Authors: Yacine Amar, Danielle Rogner, Rafaela L. Silva, Bärbel U. Foesel, Minhaz Ud-Dean, Ilias Lagkouvardos, Susanne A. Steimle-Grauer, Sebastian Niedermeier, Susanne Kublik, Manja Jargosch, Matthias Heinig, Jenny Thomas, Stefanie Eyerich, Jakob D. Wikström, Michael Schloter, Kilian Eyerich…
    Citation: Microbiome 2023 11:162

    The Correction to this article has been published in Microbiome 2023 11:206

  20. Porphyromonas gingivalis (hereafter “Pg”) is an oral pathogen that has been hypothesized to act as a keystone driver of inflammation and periodontal disease. Although Pg is most readily recovered from individuals...

    Authors: Cole B. Matrishin, Elaine M. Haase, Floyd E. Dewhirst, Jessica L. Mark Welch, Fabiola Miranda-Sanchez, Tsute Chen, Donald C. MacFarland and Kathryn M. Kauffman
    Citation: Microbiome 2023 11:161
  21. Ferromanganese nodule-bearing deep-sea sediments cover vast areas of the ocean floor, representing a distinctive habitat in the abyss. These sediments harbor unique conditions characterized by high iron concen...

    Authors: Dechao Zhang, Xudong Li, Yuehong Wu, Xuewei Xu, Yanxia Liu, Benze Shi, Yujie Peng, Dadong Dai, Zhongli Sha and Jinshui Zheng
    Citation: Microbiome 2023 11:160
  22. Cervicovaginal inflammation has been linked to negative reproductive health outcomes including the acquisition of HIV, other sexually transmitted infections, and cervical carcinogenesis. While changes to the v...

    Authors: Christina Farr Zuend, Alana Lamont, Laura Noel-Romas, Samantha Knodel, Kenzie Birse, Kateryna Kratzer, Peter McQueen, Michelle Perner, Hossaena Ayele, Sarah Mutch, Alicia R. Berard, John J. Schellenberg, Faruk Senturk, Stuart McCorrister, Garrett Westmacott, Fran Mulhall…
    Citation: Microbiome 2023 11:159
  23. Bovine respiratory disease (BRD) is one of the most common diseases in intensively managed cattle, often resulting in high morbidity and mortality. Although several pathogens have been isolated and extensively...

    Authors: Barbara P. Brito, Melinda J. Frost, Kay Anantanawat, Frederick Jaya, Tony Batterham, Steven P. Djordjevic, Wei-Shan Chang, Edward C. Holmes, Aaron E. Darling and Peter D. Kirkland
    Citation: Microbiome 2023 11:158
  24. Secondary bacterial infections and pneumonia are major mortality causes of respiratory viruses, and the disruption of the upper respiratory tract (URT) microbiota is a crucial component of this process. Howeve...

    Authors: Hui Li, Xiaorong Wu, Hong Zeng, Bozhen Chang, Ying Cui, Jingxiang Zhang, Ruixia Wang and Tao Ding
    Citation: Microbiome 2023 11:157
  25. Ticks can transmit a broad variety of pathogens of medical importance, including Borrelia afzelii, the causative agent of Lyme borreliosis in Europe. Tick microbiota is an important factor modulating, not only ve...

    Authors: Alejandra Wu-Chuang, Lourdes Mateos-Hernandez, Apolline Maitre, Ryan O. M. Rego, Radek Šíma, Stefania Porcelli, Sabine Rakotobe, Angélique Foucault-Simonin, Sara Moutailler, Vaidas Palinauskas, Justė Aželytė, Ladislav Sǐmo, Dasiel Obregon and Alejandro Cabezas-Cruz
    Citation: Microbiome 2023 11:151
  26. For more than a century, the Koch’s postulates have been the golden rule for determining the causative agents in diseases. However, in cases of multiple pathogens-one disease, in which different pathogens can ...

    Authors: Dongwei Hou, Taixin Lian, Guangyu Guo, Han Gong, Chengcheng Wu, Peiyun Han, Shaoping Weng and Jianguo He
    Citation: Microbiome 2023 11:155
  27. Aberrant tryptophan (Trp)-kynurenine (Kyn) metabolism has been implicated in the pathogenesis of human disease. In particular, populations with long-term western-style diets are characterized by an excess of K...

    Authors: Penghao Sun, Mengli Wang, Yong-Xin Liu, Luqi Li, Xuejun Chai, Wei Zheng, Shulin Chen, Xiaoyan Zhu and Shanting Zhao
    Citation: Microbiome 2023 11:154
  28. Lactobacillus species in gut microbiota shows great promise in alleviation of metabolic diseases. However, little is known about the molecular mechanism of how Lactobacillus interacts with metabolites in circulat...

    Authors: Mengfan Li, Xiaoling Wu, Zewang Guo, Ruichen Gao, Zifu Ni, Hualing Cui, Minhua Zong, Filip Van Bockstaele and Wenyong Lou
    Citation: Microbiome 2023 11:153
  29. Microbes constitute almost the entire biological community in subsurface groundwater and play an important role in ecological evolution and global biogeochemical cycles. Ecological baseline as a fundamental re...

    Authors: Sining Zhong, Shungui Zhou, Shufeng Liu, Jiawen Wang, Chenyuan Dang, Qian Chen, Jinyun Hu, Shanqing Yang, Chunfang Deng, Wenpeng Li, Juan Liu, Alistair G. L. Borthwick and Jinren Ni
    Citation: Microbiome 2023 11:152
  30. Individuals that band together create new ecological opportunities for microorganisms. In vertical transmission, theory predicts a conserved microbiota within lineages, especially social bees. Bees exhibit sol...

    Authors: Jordan G. Kueneman, Ernesto Bonadies, Devin Thomas, David W. Roubik and William T. Wcislo
    Citation: Microbiome 2023 11:150
  31. The human gut microbiota is a complex community comprised of trillions of bacteria and is critical for the digestion and absorption of nutrients. Bacterial communities of the intestinal microbiota influence th...

    Authors: Aravindh Nagarajan, Kristin Scoggin, Jyotsana Gupta, David W. Threadgill and Helene L. Andrews-Polymenis
    Citation: Microbiome 2023 11:149
  32. Gut microbiota have a complex role on the survivability, digestive physiology, production, and growth performance in animals. Recent studies have emphasized the effects of prebiotics therapy on the gut disease...

    Authors: Tingbei Bo, He Liu, Min Liu, Qiyong Liu, Qingduo Li, Yipeng Cong, Yi Luo, Yuqi Wang, Bo Yu, Tianchun Pu, Lu Wang, Zheng Wang and Dehua Wang
    Citation: Microbiome 2023 11:148
  33. Following solid organ transplantation, tacrolimus (TAC) is an essential drug in the immunosuppressive strategy. Its use constitutes a challenge due to its narrow therapeutic index and its high inter- and intra...

    Authors: Alexandra L. Degraeve, Vincent Haufroid, Axelle Loriot, Laurent Gatto, Vanessa Andries, Lars Vereecke, Laure Elens and Laure B. Bindels
    Citation: Microbiome 2023 11:138
  34. Understanding how the host’s microbiome shapes phenotypes and participates in the host response to selection is fundamental for evolutionists and animal and plant breeders. Currently, selection for resilience ...

    Authors: Cristina Casto-Rebollo, María José Argente, María Luz García, Ramona Natacha Pena, Agustín Blasco and Noelia Ibáñez-Escriche
    Citation: Microbiome 2023 11:147
  35. Despite the knowledge that the soil–plant–microbiome nexus is shaped by interactions amongst its members, very little is known about how individual symbioses regulate this shaping. Even less is known about how...

    Authors: Beatriz Lagunas, Luke Richards, Chrysi Sergaki, Jamie Burgess, Alonso Javier Pardal, Rana M. F. Hussain, Bethany L. Richmond, Laura Baxter, Proyash Roy, Anastasia Pakidi, Gina Stovold, Saúl Vázquez, Sascha Ott, Patrick Schäfer and Miriam L. Gifford
    Citation: Microbiome 2023 11:146
  36. Most interactions between the host and its microbiota occur at the gut barrier, and primary colonizers are essential in the gut barrier maturation in the early life. The mother–offspring transmission of microo...

    Authors: M. Barone, Y. Ramayo-Caldas, J. Estellé, K. Tambosco, S. Chadi, F. Maillard, M. Gallopin, J. Planchais, F. Chain, C. Kropp, D. Rios-Covian, H. Sokol, P. Brigidi, P. Langella and R. Martín
    Citation: Microbiome 2023 11:140

    The Correction to this article has been published in Microbiome 2023 11:173

  37. Adolescent depression is becoming one of the major public health concerns, because of its increased prevalence and risk of significant functional impairment and suicidality. Clinical depression commonly emerge...

    Authors: Manfei Zhou, Yichun Fan, Liuting Xu, Zheng Yu, Sizhe Wang, Huaisha Xu, Jiuping Zhang, Linwei Zhang, Wenwei Liu, Linlin Wu, Jing Yu, Honghong Yao, Jun Wang and Rong Gao
    Citation: Microbiome 2023 11:145
  38. Marine prokaryotes are a rich source of novel bioactive secondary metabolites for drug discovery. Recent genome mining studies have revealed their great potential to bio-synthesize novel secondary metabolites....

    Authors: Bin Wei, Gang-Ao Hu, Zhen-Yi Zhou, Wen-Chao Yu, Ao-Qi Du, Cai-Ling Yang, Yan-Lei Yu, Jian-Wei Chen, Hua-Wei Zhang, Qihao Wu, Qi Xuan, Xue-Wei Xu and Hong Wang
    Citation: Microbiome 2023 11:144
  39. Whole microbiome RNASeq (metatranscriptomics) has emerged as a powerful technology to functionally interrogate microbial communities. A key challenge is how best to process, analyze, and interpret these comple...

    Authors: Billy Taj, Mobolaji Adeolu, Xuejian Xiong, Jordan Ang, Nirvana Nursimulu and John Parkinson
    Citation: Microbiome 2023 11:143
  40. Phosphonates are the main components in the global phosphorus redox cycle. Little is known about phosphonate metabolism in freshwater ecosystems, although rapid consumption of phosphonates has been observed fr...

    Authors: Liang Zhao, Li-Zhou Lin, Ying Zeng, Wen-Kai Teng, Meng-Yun Chen, Jerry J. Brand, Ling-Ling Zheng, Nan-Qin Gan, Yong-Hui Gong, Xin-Yi Li, Jin Lv, Ting Chen, Bo-Ping Han, Li-Rong Song and Wen-Sheng Shu
    Citation: Microbiome 2023 11:142
  41. Infants receive their first bacteria from their birthing parent. This newly acquired microbiome plays a pivotal role in developing a robust immune system, the cornerstone of long-term health.

    Authors: Heidi K. Leftwich, Daniela Vargas-Robles, Mayra Rojas-Correa, Yan Rou Yap, Shakti Bhattarai, Doyle V. Ward, Gavin Fujimori, Catherine S. Forconi, Tracy Yeboah, Acara Carter, Alyssa Kastrinakis, Alison M. Asirwatham, Vanni Bucci, Ann M. Moormann and Ana Maldonado-Contreras
    Citation: Microbiome 2023 11:141
  42. Keystone taxa are drivers of microbiome structure and functioning, which may play critical roles in microbiome-level responses to recalcitrant pollution and are a key to bioremediation. However, the characteri...

    Authors: Xiaolan Lin, Baoyi Qiao, Ruirui Chang, Yixin Li, Wei Zheng, Zhili He and Yun Tian
    Citation: Microbiome 2023 11:139
  43. Intestinal inflammation has become a threatening concern in chicken production worldwide and is closely associated with Th17/Treg cell imbalance. Several studies described that gut microbiota is significantly ...

    Authors: Ziyu Ma, Muhammad Akhtar, Hong Pan, Qiyao Liu, Yan Chen, Xinxin Zhou, Yingting You, Deshi Shi and Huazhen Liu
    Citation: Microbiome 2023 11:137
  44. Disruption of the microbial community in the respiratory tract due to infections, like influenza, could impact transmission of bacterial pathogens. Using samples from a household study, we determined whether m...

    Authors: Lingdi Zhang, Jahan Rahman, Matthew Chung, Lauren Lashua, Aubree Gordon, Angel Balmaseda, Guillermina Kuan, Richard Bonneau and Elodie Ghedin
    Citation: Microbiome 2023 11:136
  45. Pathogen infections seriously affect host health, and the use of antibiotics increases the risk of the emergence of drug-resistant bacteria and also increases environmental and health safety risks. Probiotics ...

    Authors: Xiaozhou Qi, Yong Zhang, Yilin Zhang, Fei Luo, Kaige Song, Gaoxue Wang and Fei Ling
    Citation: Microbiome 2023 11:135

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