A nonlinear time-series analysis approach to identify thresholds in associations between population antibiotic use and rates of resistance.

abstract：:Primary sclerosing cholangitis (PSC) is a chronic inflammatory liver disease and its frequent complication with ulcerative colitis highlights the pathogenic role of epithelial barrier dysfunction. Intestinal barrier dysfunction has been implicated in the pathogenesis of PSC, yet its underlying mechanism remains unknow...

journal_title：Nature microbiology

authors： Nakamoto N,Sasaki N,Aoki R,Miyamoto K,Suda W,Teratani T,Suzuki T,Koda Y,Chu PS,Taniki N,Yamaguchi A,Kanamori M,Kamada N,Hattori M,Ashida H,Sakamoto M,Atarashi K,Narushima S,Yoshimura A,Honda K,Sato T,Kanai T

更新日期：2019-03-01 00:00:00

abstract：:Little is known about the specificities and neutralization breadth of the H7-reactive antibody repertoire induced by natural H7N9 infection in humans. We have isolated and characterized 73 H7-reactive monoclonal antibodies from peripheral B cells from four donors infected in 2013 and 2014. Of these, 45 antibodies were...

journal_title：Nature microbiology

authors： Huang KA,Rijal P,Jiang H,Wang B,Schimanski L,Dong T,Liu YM,Chang P,Iqbal M,Wang MC,Chen Z,Song R,Huang CC,Yang JH,Qi J,Lin TY,Li A,Powell TJ,Jan JT,Ma C,Gao GF,Shi Y,Townsend AR

更新日期：2019-02-01 00:00:00

abstract：:In most Gram-negative pathogens, the hydrolysis of UDP-2,3-diacylglucosamine to generate lipid X in lipid A biosynthesis is catalysed by the membrane-associated enzyme LpxH. We report the crystal structure of LpxH in complex with its product, lipid X, unveiling a unique insertion lid above the conserved architecture o...

journal_title：Nature microbiology

authors： Cho J,Lee CJ,Zhao J,Young HE,Zhou P

更新日期：2016-08-15 00:00:00

abstract：:The original version of this Letter has been modified in the abstract and main text to better reflect the distribution of Neu5Ac sialoglycans in humans. Additionally, co-author Lingquan Deng's present address has been further clarified. ...

journal_title：Nature microbiology

authors： Gao X,Deng L,Stack G,Yu H,Chen X,Naito-Matsui Y,Varki A,Galán JE

更新日期：2017-12-01 00:00:00

abstract：:Bacterial toxin-antitoxin systems (TASs) are thought to respond to various stresses, often inducing growth-arrested (persistent) sub-populations of cells whose housekeeping functions are inhibited. Many such TASs induce this effect through the translation-dependent RNA cleavage (RNase) activity of their toxins, which ...

journal_title：Nature microbiology

authors： Kirkpatrick CL,Martins D,Redder P,Frandi A,Mignolet J,Chapalay JB,Chambon M,Turcatti G,Viollier PH

更新日期：2016-02-22 00:00:00

abstract：:It is generally believed that exchange of secondary metabolite biosynthetic gene clusters (BGCs) among closely related bacteria is an important driver of BGC evolution and diversification. Applying this idea may help researchers efficiently connect many BGCs to their products and characterize the products' roles in va...

journal_title：Nature microbiology

authors： Wang G,Zhao Z,Ke J,Engel Y,Shi YM,Robinson D,Bingol K,Zhang Z,Bowen B,Louie K,Wang B,Evans R,Miyamoto Y,Cheng K,Kosina S,De Raad M,Silva L,Luhrs A,Lubbe A,Hoyt DW,Francavilla C,Otani H,Deutsch S,Washton NM,

更新日期：2019-12-01 00:00:00

abstract：:Aichi virus (AiV), an unusual and poorly characterized picornavirus, classified in the genus Kobuvirus, can cause severe gastroenteritis and deaths in children below the age of five years, especially in developing countries1,2. The seroprevalence of AiV is approximately 60% in children under the age of ten years and r...

journal_title：Nature microbiology

authors： Zhu L,Wang X,Ren J,Kotecha A,Walter TS,Yuan S,Yamashita T,Tuthill TJ,Fry EE,Rao Z,Stuart DI

更新日期：2016-09-05 00:00:00

abstract：:CRISPR-Cas systems are adaptive immune systems that protect bacteria from bacteriophage (phage) infection1. To provide immunity, RNA-guided protein surveillance complexes recognize foreign nucleic acids, triggering their destruction by Cas nucleases2. While the essential requirements for immune activity are well under...

journal_title：Nature microbiology

authors： Borges AL,Castro B,Govindarajan S,Solvik T,Escalante V,Bondy-Denomy J

更新日期：2020-05-01 00:00:00

abstract：:How does environmental complexity affect the evolution of single genes? Here, we measured the effects of a set of Bacillus subtilis glutamate dehydrogenase mutants across 19 different environments-from phenotypically homogeneous single-cell populations in liquid media to heterogeneous biofilms, plant roots and soil po...

journal_title：Nature microbiology

authors： Noda-García L,Davidi D,Korenblum E,Elazar A,Putintseva E,Aharoni A,Tawfik DS

更新日期：2019-07-01 00:00:00

abstract：:Autophagy and interferon (IFN)-mediated innate immunity are critical antiviral defence mechanisms, and recent evidence indicated that tripartite motif (TRIM) proteins are important regulators of both processes. Although the role of TRIM proteins in modulating antiviral cytokine responses has been well established, muc...

journal_title：Nature microbiology

authors： Sparrer KMJ,Gableske S,Zurenski MA,Parker ZM,Full F,Baumgart GJ,Kato J,Pacheco-Rodriguez G,Liang C,Pornillos O,Moss J,Vaughan M,Gack MU

更新日期：2017-11-01 00:00:00

abstract：:Competition among microorganisms is a key determinant of successful host colonization and persistence. For Streptococcus pneumoniae, lower than predicted rates of co-colonizing strains suggest a competitive advantage for resident bacteria over newcomers. In light of evolutionary theory, we hypothesized that S. pneumon...

journal_title：Nature microbiology

authors： Shen P,Lees JA,Bee GCW,Brown SP,Weiser JN

更新日期：2019-01-01 00:00:00

abstract：:Cancer arises from the acquisition of multiple genetic and epigenetic changes in host cells over the span of many years, promoting oncogenic traits and carcinogenesis. Most cancers develop following random somatic alterations of key oncogenic genes, which are favoured by a number of risk factors, including lifestyle, ...

journal_title：Nature microbiology

authors： Tsilimigras MC,Fodor A,Jobin C

更新日期：2017-02-22 00:00:00

abstract：:Tigecycline is one of the last-resort antibiotics to treat complicated infections caused by both multidrug-resistant Gram-negative and Gram-positive bacteria1. Tigecycline resistance has sporadically occurred in recent years, primarily due to chromosome-encoding mechanisms, such as overexpression of efflux pumps and r...

journal_title：Nature microbiology

authors： Sun J,Chen C,Cui CY,Zhang Y,Liu X,Cui ZH,Ma XY,Feng Y,Fang LX,Lian XL,Zhang RM,Tang YZ,Zhang KX,Liu HM,Zhuang ZH,Zhou SD,Lv JN,Du H,Huang B,Yu FY,Mathema B,Kreiswirth BN,Liao XP,Chen L,Liu YH

更新日期：2019-09-01 00:00:00

abstract：:The microbial environment influences animal physiology. However, the underlying molecular mechanisms of such functional interactions are largely undefined. Previously, we showed that during chronic undernutrition, strains of Lactobacillus plantarum, a major commensal partner of Drosophila, promote host juvenile growth...

journal_title：Nature microbiology

authors： Matos RC,Schwarzer M,Gervais H,Courtin P,Joncour P,Gillet B,Ma D,Bulteau AL,Martino ME,Hughes S,Chapot-Chartier MP,Leulier F

更新日期：2017-12-01 00:00:00

abstract：:Retinoic acid-inducible gene I (RIG-I) receptor recognizes 5'-triphosphorylated RNA and triggers a signalling cascade that results in the induction of type-I interferon (IFN)-dependent responses. Its precise regulation represents a pivotal balance between antiviral defences and autoimmunity. To elucidate the cellular ...

journal_title：Nature microbiology

authors： Soonthornvacharin S,Rodriguez-Frandsen A,Zhou Y,Galvez F,Huffmaster NJ,Tripathi S,Balasubramaniam VR,Inoue A,de Castro E,Moulton H,Stein DA,Sánchez-Aparicio MT,De Jesus PD,Nguyen Q,König R,Krogan NJ,García-Sastre A,Yoh

更新日期：2017-03-01 00:00:00

abstract：:Immune responses in insects are differentially triggered depending on the infection route used by the pathogen. In most studies involving Drosophila melanogaster and viruses, infection is done by injection, while oral infection, which is probably the most common route of viral entry in nature, remains unexplored. Here...

journal_title：Nature microbiology

authors： Mondotte JA,Gausson V,Frangeul L,Blanc H,Lambrechts L,Saleh MC

更新日期：2018-12-01 00:00:00

abstract：:Despite the sporadic detection of fluoroquinolone-resistant Shigella in Asia in the early 2000s and the subsequent global spread of ciprofloxacin-resistant (cipR) Shigella sonnei from 2010, fluoroquinolones remain the recommended therapy for shigellosis1-7. The potential for cipR S. sonnei to develop resistance to alt...

journal_title：Nature microbiology

authors： Thanh Duy P,Thi Nguyen TN,Vu Thuy D,Chung The H,Alcock F,Boinett C,Dan Thanh HN,Thanh Tuyen H,Thwaites GE,Rabaa MA,Baker S

更新日期：2020-02-01 00:00:00

abstract：:Clostridium difficile infection (CDI) is mediated by two major exotoxins, toxin A (TcdA) and toxin B (TcdB), that damage the colonic epithelial barrier and induce inflammatory responses. The function of the colonic vascular barrier during CDI has been relatively understudied. Here we report increased colonic vascular ...

journal_title：Nature microbiology

authors： Huang J,Kelly CP,Bakirtzi K,Villafuerte Gálvez JA,Lyras D,Mileto SJ,Larcombe S,Xu H,Yang X,Shields KS,Zhu W,Zhang Y,Goldsmith JD,Patel IJ,Hansen J,Huang M,Yla-Herttuala S,Moss AC,Paredes-Sabja D,Pothoulakis C,Shah

更新日期：2019-02-01 00:00:00

abstract：:Pathogenic bacteria are armed with potent effector proteins that subvert host signalling processes during infection1. The activities of bacterial effectors and their associated roles within the host cell are often poorly understood, particularly for Chlamydia trachomatis2, a World Health Organization designated neglec...

journal_title：Nature microbiology

authors： Pruneda JN,Bastidas RJ,Bertsoulaki E,Swatek KN,Santhanam B,Clague MJ,Valdivia RH,Urbé S,Komander D

更新日期：2018-12-01 00:00:00

abstract：:Mesalamine serves as the gold standard in treating ulcerative colitis. However, its precise mechanism(s) of action remains unclear. Here, we show that mesalamine treatment rapidly decreases polyphosphate levels in diverse bacteria, including members of the human gut microbiome. This decrease sensitizes bacteria toward...

journal_title：Nature microbiology

authors： Dahl JU,Gray MJ,Bazopoulou D,Beaufay F,Lempart J,Koenigsknecht MJ,Wang Y,Baker JR,Hasler WL,Young VB,Sun D,Jakob U

更新日期：2017-01-23 00:00:00

abstract：:Host adaptation is a key factor contributing to the emergence of new bacterial, viral and parasitic pathogens. Many pathogens are considered promiscuous because they cause disease across a range of host species, while others are host-adapted, infecting particular hosts(1). Host adaptation can potentially progress to h...

journal_title：Nature microbiology

authors： Klemm EJ,Gkrania-Klotsas E,Hadfield J,Forbester JL,Harris SR,Hale C,Heath JN,Wileman T,Clare S,Kane L,Goulding D,Otto TD,Kay S,Doffinger R,Cooke FJ,Carmichael A,Lever AM,Parkhill J,MacLennan CA,Kumararatne D,Douga

更新日期：2016-01-25 00:00:00

abstract：:Despite recent progress, the organization and ecological properties of the intestinal microbial ecosystem remain under-investigated. Here, using a manually curated metabolic module framework for (meta-)genomic data analysis, we studied species-function relationships in gut microbial genomes and microbiomes. Half of gu...

journal_title：Nature microbiology

authors： Vieira-Silva S,Falony G,Darzi Y,Lima-Mendez G,Garcia Yunta R,Okuda S,Vandeputte D,Valles-Colomer M,Hildebrand F,Chaffron S,Raes J

更新日期：2016-06-13 00:00:00

abstract：:Evidence has accumulated to demonstrate that the intestinal microbiota enhances mammalian enteric virus infections1. For example, we and others previously reported that commensal bacteria stimulate acute and persistent murine norovirus infections2-4. However, in apparent contradiction of these results, the virulence o...

journal_title：Nature microbiology

authors： Grau KR,Zhu S,Peterson ST,Helm EW,Philip D,Phillips M,Hernandez A,Turula H,Frasse P,Graziano VR,Wilen CB,Wobus CE,Baldridge MT,Karst SM

更新日期：2020-01-01 00:00:00

abstract：:Retroviral infection involves the reverse transcription of the viral RNA genome into DNA, which is subsequently integrated into the host cell genome. Human immunodeficiency virus type 1 (HIV-1) and other lentiviruses mediate the infection of non-dividing cells through the ability of the capsid protein1 to engage the c...

journal_title：Nature microbiology

authors： Dharan A,Bachmann N,Talley S,Zwikelmaier V,Campbell EM

更新日期：2020-09-01 00:00:00

abstract：:In the version of this Article originally published, author Carolina Falcón Garcia's name was coded wrongly, resulting in it being incorrect when exported to citation databases. This has now been corrected, though no visible changes will be apparent. ...

journal_title：Nature microbiology

authors： Dragoš A,Martin M,Garcia CF,Kricks L,Pausch P,Heimerl T,Bálint B,Maróti G,Bange G,López D,Lieleg O,Kovács ÁT

更新日期：2019-02-01 00:00:00

abstract：:Leishmania are ancient eukaryotes that have retained the exosome pathway through evolution. Leishmania RNA virus 1 (LRV1)-infected Leishmania species are associated with a particularly aggressive mucocutaneous disease triggered in response to the double-stranded RNA (dsRNA) virus. However, it is unclear how LRV1 is ex...

journal_title：Nature microbiology

authors： Atayde VD,da Silva Lira Filho A,Chaparro V,Zimmermann A,Martel C,Jaramillo M,Olivier M

更新日期：2019-04-01 00:00:00

abstract：:As they proliferate, fungi expose antigens at their cell surface that are potent stimulators of the innate immune response, and yet the commensal fungus Candida albicans is able to colonize immuno competent individuals. We show that C. albicans may evade immune detection by presenting a moving immunological target. We...

journal_title：Nature microbiology

authors： Ballou ER,Avelar GM,Childers DS,Mackie J,Bain JM,Wagener J,Kastora SL,Panea MD,Hardison SE,Walker LA,Erwig LP,Munro CA,Gow NA,Brown GD,MacCallum DM,Brown AJ

更新日期：2016-12-12 00:00:00

abstract：:The sexually transmitted pathogen Neisseria gonorrhoeae is regarded as being on the way to becoming an untreatable superbug. Despite its clinical importance, little is known about its emergence and evolution, and how this corresponds with the introduction of antimicrobials. We present a genome-based phylogeographical ...

journal_title：Nature microbiology

authors： Sánchez-Busó L,Golparian D,Corander J,Grad YH,Ohnishi M,Flemming R,Parkhill J,Bentley SD,Unemo M,Harris SR

更新日期：2019-11-01 00:00:00

abstract：:The evolution of virulence traits is central for the emergence or re-emergence of microbial pathogens and for their adaptation to a specific host 1-5 . Typhoid toxin is an essential virulence factor of the human-adapted bacterial pathogen Salmonella Typhi 6,7 , the cause of typhoid fever in humans 8-12 . Typhoid toxin...

journal_title：Nature microbiology

authors： Gao X,Deng L,Stack G,Yu H,Chen X,Naito-Matsui Y,Varki A,Galán JE

更新日期：2017-12-01 00:00:00

abstract：:Single-cell RNA sequencing has revealed extensive cellular heterogeneity within many organisms, but few methods have been developed for microbial clonal populations. The yeast genome displays unusually dense transcript spacing, with interleaved and overlapping transcription from both strands, resulting in a minuscule ...

journal_title：Nature microbiology

authors： Nadal-Ribelles M,Islam S,Wei W,Latorre P,Nguyen M,de Nadal E,Posas F,Steinmetz LM

更新日期：2019-04-01 00:00:00