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Single mutation makes Escherichia coli an insect mutualist Nat. Microbiol. (IF 30.964) Pub Date : 2022-08-04 Ryuichi Koga, Minoru Moriyama, Naoko Onodera-Tanifuji, Yoshiko Ishii, Hiroki Takai, Masaki Mizutani, Kohei Oguchi, Reiko Okura, Shingo Suzuki, Yasuhiro Gotoh, Tetsuya Hayashi, Masahide Seki, Yutaka Suzuki, Yudai Nishide, Takahiro Hosokawa, Yuichi Wakamoto, Chikara Furusawa, Takema Fukatsu
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Antibiotic resistance genes in the gut microbiota of mothers and linked neonates with or without sepsis from low- and middle-income countries Nat. Microbiol. (IF 30.964) Pub Date : 2022-08-04 M. J. Carvalho, K. Sands, K. Thomson, E. Portal, J. Mathias, R. Milton, D. Gillespie, C. Dyer, C. Akpulu, I. Boostrom, P. Hogan, H. Saif, A. Ferreira, M. Nieto, T. Hender, K. Hood, R. Andrews, W. J. Watkins, B. Hassan, G. Chan, D. Bekele, S. Solomon, G. Metaferia, S. Basu, S. Naha, A. Sinha, P. Chakravorty, S. Mukherjee, K. Iregbu, F. Modibbo, S. Uwaezuoke, L. Audu, C. P. Edwin, A. H. Yusuf, A. Adeleye
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Telomere transposon takeover in Cryptococcus Nat. Microbiol. (IF 30.964) Pub Date : 2022-08-02 Manning Y. Huang, Hiten D. Madhani
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Wastewater monitoring comes of age Nat. Microbiol. (IF 30.964) Pub Date : 2022-08-02
Methods for monitoring wastewater for severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) and emerging variants have risen to prominence during the COVID-19 pandemic. Routine monitoring of wastewater should be deployed around the world to mitigate the spread of pathogens, both old and new.
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Origin of rickettsial host dependency unravelled Nat. Microbiol. (IF 30.964) Pub Date : 2022-08-02 Victoria I. Verhoeve, Joseph J. Gillespie
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Chikungunya virus assembly and egress Nat. Microbiol. (IF 30.964) Pub Date : 2022-08-02 Julie M. Fox, Theodore C. Pierson
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Uncontrolled transposition following RNAi loss causes hypermutation and antifungal drug resistance in clinical isolates of Cryptococcus neoformans Nat. Microbiol. (IF 30.964) Pub Date : 2022-08-02 Shelby J. Priest, Vikas Yadav, Cullen Roth, Tim A. Dahlmann, Ulrich Kück, Paul M. Magwene, Joseph Heitman
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Trafficked Malayan pangolins contain viral pathogens of humans Nat. Microbiol. (IF 30.964) Pub Date : 2022-08-02 Wenqiang Shi, Mang Shi, Teng-Cheng Que, Xiao-Ming Cui, Run-Ze Ye, Luo-Yuan Xia, Xin Hou, Jia-Jing Zheng, Na Jia, Xing Xie, Wei-Chen Wu, Mei-Hong He, Hui-Feng Wang, Yong-Jie Wei, Ai-Qiong Wu, Sheng-Feng Zhang, Yu-Sheng Pan, Pan-Yu Chen, Qian Wang, Shou-Sheng Li, Yan-Li Zhong, Ying-Jiao Li, Luo-Hao Tan, Lin Zhao, Jia-Fu Jiang, Yan-Ling Hu, Wu-Chun Cao
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COVID-19-associated fungal infections Nat. Microbiol. (IF 30.964) Pub Date : 2022-08-02 Martin Hoenigl, Danila Seidel, Rosanne Sprute, Cristina Cunha, Matteo Oliverio, Gustavo H. Goldman, Ashraf S. Ibrahim, Agostinho Carvalho
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Sexually transmitted infections and female reproductive health Nat. Microbiol. (IF 30.964) Pub Date : 2022-08-02 Olivia T. Van Gerwen, Christina A. Muzny, Jeanne M. Marrazzo
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Outbreak dynamics of foodborne pathogen Vibrio parahaemolyticus over a seventeen year period implies hidden reservoirs Nat. Microbiol. (IF 30.964) Pub Date : 2022-08-02 Chao Yang, Yinghui Li, Min Jiang, Lei Wang, Yixiang Jiang, Lulu Hu, Xiaolu Shi, Lianhua He, Rui Cai, Shuang Wu, Yaqun Qiu, Linying Lu, Le Zuo, Qiongcheng Chen, Yarong Wu, Jaime Martinez-Urtaza, Chengsong Wan, Ruifu Yang, Yujun Cui, Qinghua Hu
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Viral biogeography of the mammalian gut and parenchymal organs Nat. Microbiol. (IF 30.964) Pub Date : 2022-08-02 Andrey N. Shkoporov, Stephen R. Stockdale, Aonghus Lavelle, Ivanela Kondova, Cara Heuston, Aditya Upadrasta, Ekaterina V. Khokhlova, Imme van der Kamp, Boudewijn Ouwerling, Lorraine A. Draper, Jan A. M. Langermans, R. Paul Ross, Colin Hill
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RNA viromes from terrestrial sites across China expand environmental viral diversity Nat. Microbiol. (IF 30.964) Pub Date : 2022-07-28 Yan-Mei Chen, Sabrina Sadiq, Jun-Hua Tian, Xiao Chen, Xian-Dan Lin, Jin-Jin Shen, Hao Chen, Zong-Yu Hao, Michelle Wille, Zhuo-Cheng Zhou, Jun Wu, Feng Li, Hong-Wei Wang, Wei-Di Yang, Qi-Yi Xu, Wen Wang, Wen-Hua Gao, Edward C. Holmes, Yong-Zhen Zhang
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Stage-specific transcription activator ESB1 regulates monoallelic antigen expression in Trypanosoma brucei Nat. Microbiol. (IF 30.964) Pub Date : 2022-07-25 Lara López-Escobar, Benjamin Hänisch, Clare Halliday, Midori Ishii, Bungo Akiyoshi, Samuel Dean, Jack Daniel Sunter, Richard John Wheeler, Keith Gull
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Patient-derived monoclonal antibody neutralizes SARS-CoV-2 Omicron variants and confers full protection in monkeys Nat. Microbiol. (IF 30.964) Pub Date : 2022-07-25 Craig Fenwick, Priscilla Turelli, Dongchun Ni, Laurent Perez, Kelvin Lau, Cécile Herate, Romain Marlin, Erica Lana, Céline Pellaton, Charlène Raclot, Line Esteves-Leuenberger, Jérémy Campos, Alex Farina, Flurin Fiscalini, Nathalie Dereuddre-Bosquet, Francis Relouzat, Rana Abdelnabi, Caroline S. Foo, Johan Neyts, Pieter Leyssen, Yves Lévy, Florence Pojer, Henning Stahlberg, Roger LeGrand, Didier Trono
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Harnessing the microbiome to prevent global biodiversity loss Nat. Microbiol. (IF 30.964) Pub Date : 2022-07-21 Raquel S. Peixoto, Christian R. Voolstra, Michael Sweet, Carlos M. Duarte, Susana Carvalho, Helena Villela, Jeantine E. Lunshof, Lone Gram, Douglas C. Woodhams, Jens Walter, Anna Roik, Ute Hentschel, Rebecca Vega Thurber, Brendan Daisley, Blake Ushijima, Daniele Daffonchio, Rodrigo Costa, Tina Keller-Costa, Jeff S. Bowman, Alexandre S. Rosado, Gregor Reid, Christopher E. Mason, Jenifer B. Walke, Torsten
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Early detection and surveillance of SARS-CoV-2 genomic variants in wastewater using COJAC Nat. Microbiol. (IF 30.964) Pub Date : 2022-07-18 Katharina Jahn, David Dreifuss, Ivan Topolsky, Anina Kull, Pravin Ganesanandamoorthy, Xavier Fernandez-Cassi, Carola Bänziger, Alexander J. Devaux, Elyse Stachler, Lea Caduff, Federica Cariti, Alex Tuñas Corzón, Lara Fuhrmann, Chaoran Chen, Kim Philipp Jablonski, Sarah Nadeau, Mirjam Feldkamp, Christian Beisel, Catharine Aquino, Tanja Stadler, Christoph Ort, Tamar Kohn, Timothy R. Julian, Niko Beerenwinkel
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COVID vaccination in older adults Nat. Microbiol. (IF 30.964) Pub Date : 2022-07-14 Sara Hägg, Dorota Religa
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Neutralizing antibody activity against 21 SARS-CoV-2 variants in older adults vaccinated with BNT162b2 Nat. Microbiol. (IF 30.964) Pub Date : 2022-07-14 Joseph Newman, Nazia Thakur, Thomas P. Peacock, Dagmara Bialy, Ahmed M. E. Elrefaey, Carlijn Bogaardt, Daniel L. Horton, Sammy Ho, Thivya Kankeyan, Christine Carr, Katja Hoschler, Wendy S. Barclay, Gayatri Amirthalingam, Kevin E. Brown, Bryan Charleston, Dalan Bailey
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Phage defence by deaminase-mediated depletion of deoxynucleotides in bacteria Nat. Microbiol. (IF 30.964) Pub Date : 2022-07-11 Brian Y. Hsueh, Geoffrey B. Severin, Clinton A. Elg, Evan J. Waldron, Abhiruchi Kant, Alex J. Wessel, John A. Dover, Christopher R. Rhoades, Benjamin J. Ridenhour, Kristin N. Parent, Matthew B. Neiditch, Janani Ravi, Eva M. Top, Christopher M. Waters
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Bacteria deplete deoxynucleotides to defend against bacteriophage infection Nat. Microbiol. (IF 30.964) Pub Date : 2022-07-11 Nitzan Tal, Adi Millman, Avigail Stokar-Avihail, Taya Fedorenko, Azita Leavitt, Sarah Melamed, Erez Yirmiya, Carmel Avraham, Alexander Brandis, Tevie Mehlman, Gil Amitai, Rotem Sorek
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Rhoptry secretion system structure and priming in Plasmodium falciparum revealed using in situ cryo-electron tomography Nat. Microbiol. (IF 30.964) Pub Date : 2022-07-11 Matthew Martinez, William David Chen, Marta Mendonça Cova, Petra Molnár, Shrawan Kumar Mageswaran, Amandine Guérin, Audrey R. Odom John, Maryse Lebrun, Yi-Wei Chang
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SARS-CoV-2 Omicron is an immune escape variant with an altered cell entry pathway Nat. Microbiol. (IF 30.964) Pub Date : 2022-07-07 Brian J. Willett, Joe Grove, Oscar A. MacLean, Craig Wilkie, Giuditta De Lorenzo, Wilhelm Furnon, Diego Cantoni, Sam Scott, Nicola Logan, Shirin Ashraf, Maria Manali, Agnieszka Szemiel, Vanessa Cowton, Elen Vink, William T. Harvey, Chris Davis, Patawee Asamaphan, Katherine Smollett, Lily Tong, Richard Orton, Joseph Hughes, Poppy Holland, Vanessa Silva, David J. Pascall, Kathryn Puxty, Ana da Silva
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Cryo-EM structure of an extracellular Geobacter OmcE cytochrome filament reveals tetrahaem packing Nat. Microbiol. (IF 30.964) Pub Date : 2022-07-07 Fengbin Wang, Khawla Mustafa, Victor Suciu, Komal Joshi, Chi H. Chan, Sol Choi, Zhangli Su, Dong Si, Allon I. Hochbaum, Edward H. Egelman, Daniel R. Bond
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The evolutionary origin of host association in the Rickettsiales Nat. Microbiol. (IF 30.964) Pub Date : 2022-07-07 Max E. Schön, Joran Martijn, Julian Vosseberg, Stephan Köstlbacher, Thijs J. G. Ettema
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ILC3 pyroptosis limits Salmonella infection Nat. Microbiol. (IF 30.964) Pub Date : 2022-06-30 Ann M. Joseph, Gregory F. Sonnenberg
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Chikungunya virus assembly and budding visualized in situ using cryogenic electron tomography Nat. Microbiol. (IF 30.964) Pub Date : 2022-06-30 David Chmielewski, Michael F. Schmid, Graham Simmons, Jing Jin, Wah Chiu
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Neutralization mechanism of a human antibody with pan-coronavirus reactivity including SARS-CoV-2 Nat. Microbiol. (IF 30.964) Pub Date : 2022-06-30 Xiaoyu Sun, Chunyan Yi, Yuanfei Zhu, Longfei Ding, Shuai Xia, Xingchen Chen, Mu Liu, Chenjian Gu, Xiao Lu, Yadong Fu, Shuangfeng Chen, Tianlong Zhang, Yaguang Zhang, Zhuo Yang, Liyan Ma, Wangpeng Gu, Gaowei Hu, Shujuan Du, Renhong Yan, Weihui Fu, Songhua Yuan, Chenli Qiu, Chen Zhao, Xiaoyan Zhang, Yonghui He, Aidong Qu, Xu Zhou, Xiuling Li, Gary Wong, Qiang Deng, Qiang Zhou, Hongzhou Lu, Zhiyang Ling
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A trove of Asgard archaeal viruses Nat. Microbiol. (IF 30.964) Pub Date : 2022-06-27 Tomas Alarcón-Schumacher, Susanne Erdmann
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Genomes of six viruses that infect Asgard archaea from deep-sea sediments Nat. Microbiol. (IF 30.964) Pub Date : 2022-06-27 Ian M. Rambo, Marguerite V. Langwig, Pedro Leão, Valerie De Anda, Brett J. Baker
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A closed Candidatus Odinarchaeum chromosome exposes Asgard archaeal viruses Nat. Microbiol. (IF 30.964) Pub Date : 2022-06-27 Daniel Tamarit, Eva F. Caceres, Mart Krupovic, Reindert Nijland, Laura Eme, Nicholas P. Robinson, Thijs J. G. Ettema
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Three families of Asgard archaeal viruses identified in metagenome-assembled genomes Nat. Microbiol. (IF 30.964) Pub Date : 2022-06-27 Sofia Medvedeva, Jiarui Sun, Natalya Yutin, Eugene V. Koonin, Takuro Nunoura, Christian Rinke, Mart Krupovic
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Phage–host coevolution in natural populations Nat. Microbiol. (IF 30.964) Pub Date : 2022-06-27 Damien Piel, Maxime Bruto, Yannick Labreuche, François Blanquart, David Goudenège, Rubén Barcia-Cruz, Sabine Chenivesse, Sophie Le Panse, Adèle James, Javier Dubert, Bruno Petton, Erica Lieberman, K. Mathias Wegner, Fatima A. Hussain, Kathryn M. Kauffman, Martin F. Polz, David Bikard, Sylvain Gandon, Eduardo P. C. Rocha, Frédérique Le Roux
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ICSP response to 'Regulating access can restrict participation in reporting new species and taxa'. Nat. Microbiol. (IF 30.964) Pub Date : 2022-06-27 Aharon Oren,Markus Göker,Richard L Hahnke,Edward R B Moore,,Iain C Sutcliffe
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Supporting scientists who are deaf or hard of hearing Nat. Microbiol. (IF 30.964) Pub Date : 2022-06-23 John J. Dennehy
Increasing awareness and better technology bodes for a more positive future for scientists who are deaf or hard of hearing, explains John Dennehy.
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The DarTG toxin-antitoxin system provides phage defence by ADP-ribosylating viral DNA Nat. Microbiol. (IF 30.964) Pub Date : 2022-06-20 Michele LeRoux, Sriram Srikant, Gabriella I. C. Teodoro, Tong Zhang, Megan L. Littlehale, Shany Doron, Mohsen Badiee, Anthony K. L. Leung, Rotem Sorek, Michael T. Laub
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Characterization of inositol lipid metabolism in gut-associated Bacteroidetes Nat. Microbiol. (IF 30.964) Pub Date : 2022-06-20 Stacey L. Heaver, Henry H. Le, Peijun Tang, Arnaud Baslé, Claudia Mirretta Barone, Dai Long Vu, Jillian L. Waters, Jon Marles-Wright, Elizabeth L. Johnson, Dominic J. Campopiano, Ruth E. Ley
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Climate warming threatens soil microbial diversity Nat. Microbiol. (IF 30.964) Pub Date : 2022-06-15
Well-replicated, ecologically realistic, long-term field experiments were conducted to test the effects of warming on soil microbial diversity. Warming significantly reduced the biodiversity of soil bacteria, fungi and protists by altering environmental selections and biotic interactions, potentially disrupting the functional processes of the soil ecosystem.
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Therapeutic efficacy of monoclonal antibodies and antivirals against SARS-CoV-2 Omicron BA.1 in Syrian hamsters Nat. Microbiol. (IF 30.964) Pub Date : 2022-06-15 Ryuta Uraki, Maki Kiso, Masaki Imai, Seiya Yamayoshi, Mutsumi Ito, Seiichiro Fujisaki, Emi Takashita, Michiko Ujie, Yuri Furusawa, Atsuhiro Yasuhara, Kiyoko Iwatsuki-Horimoto, Yuko Sakai-Tagawa, Shinji Watanabe, Hideki Hasegawa, Yoshihiro Kawaoka
The spike protein of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) is the major antigen stimulating the host’s protective immune response. Here we assessed the efficacy of therapeutic monoclonal antibodies (mAbs) against Omicron variant (B.1.1.529) sublineage BA.1 variants in Syrian hamsters. Of the FDA-approved therapeutic mAbs tested (that is, REGN10987/REGN10933, COV2-2196/COV2-2130
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Mating pair stabilization mediates bacterial conjugation species specificity Nat. Microbiol. (IF 30.964) Pub Date : 2022-06-13 Wen Wen Low, Joshua L. C. Wong, Leticia C. Beltran, Chloe Seddon, Sophia David, Hok-Sau Kwong, Tatiana Bizeau, Fengbin Wang, Alejandro Peña, Tiago R. D. Costa, Bach Pham, Min Chen, Edward H. Egelman, Konstantinos Beis, Gad Frankel
Bacterial conjugation mediates contact-dependent transfer of DNA from donor to recipient bacteria, thus facilitating the spread of virulence and resistance plasmids. Here we describe how variants of the plasmid-encoded donor outer membrane (OM) protein TraN cooperate with distinct OM receptors in recipients to mediate mating pair stabilization and efficient DNA transfer. We show that TraN from the
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Reduction of microbial diversity in grassland soil is driven by long-term climate warming Nat. Microbiol. (IF 30.964) Pub Date : 2022-06-13 Linwei Wu, Ya Zhang, Xue Guo, Daliang Ning, Xishu Zhou, Jiajie Feng, Mengting Maggie Yuan, Suo Liu, Jiajing Guo, Zhipeng Gao, Jie Ma, Jialiang Kuang, Siyang Jian, Shun Han, Zhifeng Yang, Yang Ouyang, Ying Fu, Naijia Xiao, Xueduan Liu, Liyou Wu, Aifen Zhou, Yunfeng Yang, James M. Tiedje, Jizhong Zhou
Anthropogenic climate change threatens ecosystem functioning. Soil biodiversity is essential for maintaining the health of terrestrial systems, but how climate change affects the richness and abundance of soil microbial communities remains unresolved. We examined the effects of warming, altered precipitation and annual biomass removal on grassland soil bacterial, fungal and protistan communities over
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Inactivated whole-virion vaccine BBV152/Covaxin elicits robust cellular immune memory to SARS-CoV-2 and variants of concern Nat. Microbiol. (IF 30.964) Pub Date : 2022-06-09 Rajesh Vikkurthi, Asgar Ansari, Anupama R. Pai, Someshwar Nath Jha, Shilpa Sachan, Suvechchha Pandit, Bhushan Nikam, Anurag Kalia, Bimal Prasad Jit, Hilal Ahmad Parray, Savita Singh, Pallavi Kshetrapal, Nitya Wadhwa, Tripti Shrivastava, Poonam Coshic, Suresh Kumar, Pragya Sharma, Nandini Sharma, Juhi Taneja, Anil K. Pandey, Ashok Sharma, Ramachandran Thiruvengadam, Alba Grifoni, Daniela Weiskopf, Alessandro
BBV152 is a whole-virion inactivated vaccine based on the Asp614Gly variant. BBV152 is the first alum-imidazoquinolin-adjuvanted vaccine authorized for use in large populations. Here we characterized the magnitude, quality and persistence of cellular and humoral memory responses up to 6 months post vaccination. We report that the magnitude of vaccine-induced spike and nucleoprotein antibodies was comparable
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Bacillus subtilis biofilm matrix components target seed oil bodies to promote growth and anti-fungal resistance in melon Nat. Microbiol. (IF 30.964) Pub Date : 2022-06-06 M. V. Berlanga-Clavero, C. Molina-Santiago, A. M. Caraballo-Rodríguez, D. Petras, L. Díaz-Martínez, A. Pérez-García, A. de Vicente, V. J. Carrión, P. C. Dorrestein, D. Romero
Beneficial microorganisms are used to stimulate the germination of seeds; however, their growth-promoting mechanisms remain largely unexplored. Bacillus subtilis is commonly found in association with different plant organs, providing protection against pathogens or stimulating plant growth. We report that application of B. subtilis to melon seeds results in genetic and physiological responses in seeds
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Group 3 innate lymphoid cell pyroptosis represents a host defence mechanism against Salmonella infection Nat. Microbiol. (IF 30.964) Pub Date : 2022-06-06 Lifeng Xiong, Shifeng Wang, Joseph W. Dean, Kristen N. Oliff, Christian Jobin, Roy Curtiss, Liang Zhou
Group 3 innate lymphoid cells (ILC3s) produce interleukin (IL)-22 and coordinate with other cells in the gut to mount productive host immunity against bacterial infection. However, the role of ILC3s in Salmonella enterica serovar Typhimurium (S. Typhimurium) infection, which causes foodborne enteritis in humans, remains elusive. Here we show that S. Typhimurium exploits ILC3-produced IL-22 to promote
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Forecasting ocean microbiome shifts Nat. Microbiol. (IF 30.964) Pub Date : 2022-06-01 Justin R. Seymour
Modelling using metagenomic data has revealed partitioning of the ocean into discrete microbial genomic provinces, but climate change might restructure their global organization.
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Genome-wide protein–DNA interaction site mapping in bacteria using a double-stranded DNA-specific cytosine deaminase Nat. Microbiol. (IF 30.964) Pub Date : 2022-06-01 Larry A. Gallagher, Elena Velazquez, S. Brook Peterson, James C. Charity, Matthew C. Radey, Michael J. Gebhardt, FoSheng Hsu, Lauren M. Shull, Kevin J. Cutler, Keven Macareno, Marcos H. de Moraes, Kelsi M. Penewit, Jennifer Kim, Pia A. Andrade, Thomas LaFramboise, Stephen J. Salipante, Michelle L. Reniere, Victor de Lorenzo, Paul A. Wiggins, Simon L. Dove, Joseph D. Mougous
DNA–protein interactions are central to fundamental cellular processes, yet widely implemented technologies for measuring these interactions on a genome scale in bacteria are laborious and capture only a snapshot of binding events. We devised a facile method for mapping DNA–protein interaction sites in vivo using the double-stranded DNA-specific cytosine deaminase toxin DddA. In 3D-seq (DddA-sequencing)
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John Macfarlane was the first to recognize Eukaryota as a group. Nat. Microbiol. (IF 30.964) Pub Date : 2022-06-01 Yegor Shɨshkin
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Gene–drug potency screening in M. tuberculosis Nat. Microbiol. (IF 30.964) Pub Date : 2022-05-30 Luiz Pedro Sório de Carvalho
Large-scale CRISPRi chemical genetic screening in Mycobacterium tuberculosis identifies genes altering antibiotic potency and the repurposing of the antibiotic clarithromycin to treat tuberculosis in Southeast Asia.
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Mapping phyllosphere microbiota interactions in planta to establish genotype–phenotype relationships Nat. Microbiol. (IF 30.964) Pub Date : 2022-05-30 Martin Schäfer, Christine M. Vogel, Miriam Bortfeld-Miller, Maximilian Mittelviefhaus, Julia A. Vorholt
Host-associated microbiomes harbour hundreds of bacterial species that co-occur, creating the opportunity for manifold bacteria–bacteria interactions, which in turn contribute to the overall community structure. The mechanisms that underlie this self-organization among bacteria remain largely elusive. Here, we studied bacterial interactions in the phyllosphere microbiota. We screened for microbial
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CRISPRi chemical genetics and comparative genomics identify genes mediating drug potency in Mycobacterium tuberculosis Nat. Microbiol. (IF 30.964) Pub Date : 2022-05-30 Shuqi Li, Nicholas C. Poulton, Jesseon S. Chang, Zachary A. Azadian, Michael A. DeJesus, Nadine Ruecker, Matthew D. Zimmerman, Kathryn A. Eckartt, Barbara Bosch, Curtis A. Engelhart, Daniel F. Sullivan, Martin Gengenbacher, Véronique A. Dartois, Dirk Schnappinger, Jeremy M. Rock
Mycobacterium tuberculosis (Mtb) infection is notoriously difficult to treat. Treatment efficacy is limited by Mtb’s intrinsic drug resistance, as well as its ability to evolve acquired resistance to all antituberculars in clinical use. A deeper understanding of the bacterial pathways that influence drug efficacy could facilitate the development of more effective therapies, identify new mechanisms
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Platform for isolation and characterization of SARS-CoV-2 variants enables rapid characterization of Omicron in Australia Nat. Microbiol. (IF 30.964) Pub Date : 2022-05-30 Anupriya Aggarwal, Alberto Ospina Stella, Gregory Walker, Anouschka Akerman, Camille Esneau, Vanessa Milogiannakis, Deborah L. Burnett, Samantha McAllery, Mariana Ruiz Silva, Yonghui Lu, Charles S. P. Foster, Fabienne Brilot, Aleha Pillay, Sabastiaan Van Hal, Vennila Mathivanan, Christina Fichter, Andrea Kindinger, Alexandra Carey Hoppe, Mee Ling Munier, Supavadee Amatayakul-Chantler, Nathan Roth,
Genetically distinct variants of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) have emerged since the start of the COVID-19 pandemic. Over this period, we developed a rapid platform (R-20) for viral isolation and characterization using primary remnant diagnostic swabs. This, combined with quarantine testing and genomics surveillance, enabled the rapid isolation and characterization of
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A bottom-up view of antimicrobial resistance transmission in developing countries Nat. Microbiol. (IF 30.964) Pub Date : 2022-05-30 Odion O. Ikhimiukor, Erkison Ewomazino Odih, Pilar Donado-Godoy, Iruka N. Okeke
Antimicrobial resistance (AMR) is tracked most closely in clinical settings and high-income countries. However, resistant organisms thrive globally and are transmitted to and from healthy humans, animals and the environment, particularly in many low- and middle-income settings. The overall public health and clinical significance of these transmission opportunities remain to be completely clarified
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Dual inhibition of innate immunity and apoptosis by human cytomegalovirus protein UL37x1 enables efficient virus replication Nat. Microbiol. (IF 30.964) Pub Date : 2022-05-30 Yujie Ren, An Wang, Di Wu, Chong Wang, Muhan Huang, Xiaobei Xiong, Liang Jin, Wei Zhou, Yang Qiu, Xi Zhou
Immune evasion and inhibition of apoptosis are required for successful virus infection. However, inhibition of apoptosis can increase antiviral immune responses, which can then clear viral infections. Here we show that human cytomegalovirus (HCMV)-encoded UL37 exon-1 protein (UL37x1) not only inhibits apoptosis but also suppresses the cGAS-STING immune pathway. Using co-immunoprecipitation assays,
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Chromosome organization affects genome evolution in Sulfolobus archaea Nat. Microbiol. (IF 30.964) Pub Date : 2022-05-26 Catherine Badel, Rachel Y. Samson, Stephen D. Bell
In all organisms, the DNA sequence and the structural organization of chromosomes affect gene expression. The extremely thermophilic crenarchaeon Sulfolobus has one circular chromosome with three origins of replication. We previously revealed that this chromosome has defined A and B compartments that have high and low gene expression, respectively. As well as higher levels of gene expression, the A
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Microbiomes of microscopic marine invertebrates do not reveal signatures of phylosymbiosis Nat. Microbiol. (IF 30.964) Pub Date : 2022-05-26 V. Boscaro, C. C. Holt, N. W. L. Van Steenkiste, M. Herranz, N. A. T. Irwin, P. Àlvarez-Campos, K. Grzelak, O. Holovachov, A. Kerbl, V. Mathur, N. Okamoto, R. S. Piercey, K. Worsaae, B. S. Leander, P. J. Keeling
Animals and microorganisms often establish close ecological relationships. However, much of our knowledge about animal microbiomes comes from two deeply studied groups: vertebrates and arthropods. To understand interactions on a broader scale of diversity, we characterized the bacterial microbiomes of close to 1,000 microscopic marine invertebrates from 21 phyla, spanning most of the remaining tree
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Widespread stop-codon recoding in bacteriophages may regulate translation of lytic genes Nat. Microbiol. (IF 30.964) Pub Date : 2022-05-26 Adair L. Borges, Yue Clare Lou, Rohan Sachdeva, Basem Al-Shayeb, Petar I. Penev, Alexander L. Jaffe, Shufei Lei, Joanne M. Santini, Jillian F. Banfield
Bacteriophages (phages) are obligate parasites that use host bacterial translation machinery to produce viral proteins. However, some phages have alternative genetic codes with reassigned stop codons that are predicted to be incompatible with bacterial translation systems. We analysed 9,422 phage genomes and found that stop-codon recoding has evolved in diverse clades of phages that infect bacteria
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Immunosuppression broadens evolutionary pathways to drug resistance and treatment failure during Acinetobacter baumannii pneumonia in mice Nat. Microbiol. (IF 30.964) Pub Date : 2022-05-26 Wenwen Huo, Lindsay M. Busch, Juan Hernandez-Bird, Efrat Hamami, Christopher W. Marshall, Edward Geisinger, Vaughn S. Cooper, Tim van Opijnen, Jason W. Rosch, Ralph R. Isberg
Acinetobacter baumannii is increasingly refractory to antibiotic treatment in healthcare settings. As is true of most human pathogens, the genetic path to antimicrobial resistance (AMR) and the role that the immune system plays in modulating AMR during disease are poorly understood. Here we reproduced several routes to fluoroquinolone resistance, performing evolution experiments using sequential lung