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  • 1.
    Brussaard, Corina P. D.
    et al.
    NIOZ Royal Netherlands Institute of Sea Research, Netherlands ; University of Utrecht, Netherlands.
    Bidle, Kay D.
    Rutgers University, USA.
    Pedrós-Alió, Carlos
    Institut de Ciències del Mar (CSIC), Spain.
    Legrand, Catherine
    Linnéuniversitetet, Institutionen för biologi och miljö (BOM).
    The interactive microbial ocean2016Ingår i: Nature Microbiology, E-ISSN 2058-5276, Vol. 2, artikel-id 16255Artikel i tidskrift (Refereegranskat)
    Abstract [en]

    Marine microorganisms inhabit diverse environments and interact over different spatial and temporal scales. To fully understand how these interactions shape genome structures, cellular responses, lifestyles, community ecology and biogeochemical cycles, integration of diverse approaches and data is essential.

  • 2.
    Bueno, Emilio
    et al.
    Umeå universitet, Medicinska fakulteten, Institutionen för molekylärbiologi (Medicinska fakulteten). Umeå universitet, Medicinska fakulteten, Molekylär Infektionsmedicin, Sverige (MIMS).
    Sit, Brandon
    Waldor, Matthew K.
    Cava, Felipe
    Umeå universitet, Medicinska fakulteten, Molekylär Infektionsmedicin, Sverige (MIMS). Umeå universitet, Medicinska fakulteten, Institutionen för molekylärbiologi (Medicinska fakulteten).
    Anaerobic nitrate reduction divergently governs population expansion of the enteropathogen Vibrio cholerae2018Ingår i: Nature Microbiology, E-ISSN 2058-5276, Vol. 3, nr 12, s. 1346-1353Artikel i tidskrift (Refereegranskat)
    Abstract [en]

    To survive and proliferate in the absence of oxygen, many enteric pathogens can undergo anaerobic respiration within the host by using nitrate (NO3-) as an electron acceptor(1,2). In these bacteria, NO3- is typically reduced by a nitrate reductase to nitrite (NO2-), a toxic intermediate that is further reduced by a nitrite reductase(3). However, Vibrio cholerae, the intestinal pathogen that causes cholera, lacks a nitrite reductase, leading to NO2- accumulation during nitrate reduction 4(.) Thus, V. cholerae is thought to be unable to undergo NO3-(-)dependent anaerobic respiration(4). Here, we show that during hypoxic growth, NO3- reduction in V. cholerae divergently affects bacterial fitness in a manner dependent on environmental pH. Remarkably, in alkaline conditions, V. cholerae can reduce NO3- to support population growth. Conversely, in acidic conditions, accumulation of NO2- from NO3- reduction simultaneously limits population expansion and preserves cell viability by lowering fermentative acid production. Interestingly, other bacterial species such as Salmonella typhimurium, enterohaemorrhagic Escherichia coli (EHEC) and Citrobacter rodentium also reproduced this pH-dependent response, suggesting that this mechanism might be conserved within enteric pathogens. Our findings explain how a bacterial pathogen can use a single redox reaction to divergently regulate population expansion depending on the fluctuating environmental pH.

  • 3. Javaheri, Anahita
    et al.
    Kruse, Tobias
    Moonens, Kristof
    Mejias-Luque, Raquel
    Debraekeleer, Ayla
    Asche, Carmen I.
    Tegtmeyer, Nicole
    Kalali, Behnam
    Bach, Nina C.
    Sieber, Stephan A.
    Hill, Darryl J.
    Koeniger, Verena
    Hauck, Christof R.
    Moskalenko, Roman
    Haas, Rainer
    Busch, Dirk H.
    Klaile, Esther
    Slevogt, Hortense
    Schmidt, Alexej
    Umeå universitet, Medicinska fakulteten, Institutionen för medicinsk biovetenskap, Patologi. Medical Faculty, Institute of Anatomy, University Duisburg-Essen, 45122 Essen, Germany.
    Backert, Steffen
    Remaut, Han
    Singer, Bernhard B.
    Gerhard, Markus
    Helicobacter pylori adhesin HopQ engages in a virulence-enhancing interaction with human CEACAMs2017Ingår i: Nature Microbiology, E-ISSN 2058-5276, Vol. 2, nr 1, artikel-id 16189Artikel i tidskrift (Refereegranskat)
    Abstract [en]

    Helicobacter pylori specifically colonizes the human gastric epithelium and is the major causative agent for ulcer disease and gastric cancer development. Here, we identify members of the carcinoembryonic antigen-related cell adhesion molecule (CEACAM) family as receptors of H. pylori and show that HopQ is the surface-exposed adhesin that specifically binds human CEACAM1, CEACAM3, CEACAM5 and CEACAM6. HopQ-CEACAM binding is glycan-independent and targeted to the N-domain. H. pylori binding induces CEACAM1-mediated signalling, and the HopQ-CEACAM1 interaction enables translocation of the virulence factor CagA into host cells and enhances the release of pro-inflammatory mediators such as interleukin-8. Based on the crystal structure of HopQ, we found that a beta-hairpin insertion (HopQ-ID) in HopQ's extracellular 3+4 helix bundle domain is important for CEACAM binding. A peptide derived from this domain competitively inhibits HopQ-mediated activation of the Cag virulence pathway, as genetic or antibody-mediated abrogation of the HopQ function shows. Together, our data suggest the HopQ-CEACAM1 interaction to be a potentially promising novel therapeutic target to combat H. pylori-associated diseases.

  • 4. Kent, Robyn S
    et al.
    Modrzynska, Katarzyna K
    Cameron, Rachael
    Philip, Nisha
    Billker, Oliver
    Wellcome Trust Sanger Institute, Hinxton, Cambridge, UK.
    Waters, Andrew P
    Inducible developmental reprogramming redefines commitment to sexual development in the malaria parasite Plasmodium berghei2018Ingår i: Nature Microbiology, E-ISSN 2058-5276, Vol. 3, nr 11, s. 1206-1213Artikel i tidskrift (Refereegranskat)
    Abstract [en]

    During malaria infection, Plasmodium spp. parasites cyclically invade red blood cells and can follow two different developmental pathways. They can either replicate asexually to sustain the infection, or differentiate into gametocytes, the sexual stage that can be taken up by mosquitoes, ultimately leading to disease transmission. Despite its importance for malaria control, the process of gametocytogenesis remains poorly understood, partially due to the difficulty of generating high numbers of sexually committed parasites in laboratory conditions1. Recently, an apicomplexa-specific transcription factor (AP2-G) was identified as necessary for gametocyte production in multiple Plasmodium species2,3, and suggested to be an epigenetically regulated master switch that initiates gametocytogenesis4,5. Here we show that in a rodent malaria parasite, Plasmodium berghei, conditional overexpression of AP2-G can be used to synchronously convert the great majority of the population into fertile gametocytes. This discovery allowed us to redefine the time frame of sexual commitment, identify a number of putative AP2-G targets and chart the sequence of transcriptional changes through gametocyte development, including the observation that gender-specific transcription occurred within 6 h of induction. These data provide entry points for further detailed characterization of the key process required for malaria transmission.

  • 5. Omattage, Natalie S.
    et al.
    Deng, Zengqin
    Pinkner, Jerome S.
    Dodson, Karen W.
    Almqvist, Fredrik
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Kemiska institutionen. Umeå universitet, Medicinska fakulteten, Umeå Centre for Microbial Research (UCMR).
    Yuan, Peng
    Hultgren, Scott J.
    Structural basis for usher activation and intramolecular subunit transfer in P pilus biogenesis in Escherichia coli2018Ingår i: Nature Microbiology, E-ISSN 2058-5276, Vol. 3, nr 12, s. 1362-1368Artikel i tidskrift (Refereegranskat)
    Abstract [en]

    Chaperone-usher pathway pili are extracellular proteinaceous fibres ubiquitously found on Gram-negative bacteria, and mediate host-pathogen interactions and biofilm formation critical in pathogenesis in numerous human diseases(1). During pilus assembly, an outer membrane macromolecular machine called the usher catalyses pilus biogenesis from the individual subunits that are delivered as chaperone-subunit complexes in the periplasm. The usher orchestrates pilus assembly using all five functional domains: a 24-stranded transmembrane beta-barrel translocation domain, a beta-sandwich plug domain, an amino-terminal periplasmic domain and two carboxy-terminal periplasmic domains (CTD1 and CTD2)(2-6). Despite extensive structural and functional characterization, the mechanism by which the usher is activated to initiate pilus biogenesis is unknown. Here, we present the crystal structure of the full-length PapC usher from Escherichia coli in complex with its cognate PapDG chaperone-subunit complex in a pre-activation state, elucidating molecular details of how the usher is specifically engaged by allosteric interactions with its substrate preceding activation and how the usher facilitates the transfer of subunits from the amino-terminal periplasmic domain to the CTDs during pilus assembly. This work elucidates the intricate workings of a molecular machine that catalyses chaperone-usher pathway pilus assembly and opens the door for the development of potent inhibitors to block pilus biogenesis.

  • 6. Ramirez, Kelly S.
    et al.
    Knight, Christopher G.
    de Hollander, Mattias
    Brearley, Francis Q.
    Constantinides, Bede
    Cotton, Anne
    Creer, Si
    Crowther, Thomas W.
    Davison, John
    Delgado-Baquerizo, Manuel
    Dorrepaal, Ellen
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för ekologi, miljö och geovetenskap.
    Elliott, David R.
    Fox, Graeme
    Griffiths, Robert I.
    Hale, Chris
    Hartman, Kyle
    Houlden, Ashley
    Jones, David L.
    Krab, Eveline J.
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för ekologi, miljö och geovetenskap.
    Maestre, Fernando T.
    McGuire, Krista L.
    Monteux, Sylvain
    Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för ekologi, miljö och geovetenskap.
    Orr, Caroline H.
    van der Putten, Wim H.
    Roberts, Ian S.
    Robinson, David A.
    Rocca, Jennifer D.
    Rowntree, Jennifer
    Schlaeppi, Klaus
    Shepherd, Matthew
    Singh, Brajesh K.
    Straathof, Angela L.
    Bhatnagar, Jennifer M.
    Thion, Cecile
    van der Heijden, Marcel G. A.
    de Vries, Franciska T.
    Detecting macroecological patterns in bacterial communities across independent studies of global soils2018Ingår i: Nature Microbiology, E-ISSN 2058-5276, Vol. 3, nr 2, s. 189-196Artikel i tidskrift (Refereegranskat)
    Abstract [en]

    The emergence of high-throughput DNA sequencing methods provides unprecedented opportunities to further unravel bacterial biodiversity and its worldwide role from human health to ecosystem functioning. However, despite the abundance of sequencing studies, combining data from multiple individual studies to address macroecological questions of bacterial diversity remains methodically challenging and plagued with biases. Here, using a machine-learning approach that accounts for differences among studies and complex interactions among taxa, we merge 30 independent bacterial data sets comprising 1,998 soil samples from 21 countries. Whereas previous meta-analysis efforts have focused on bacterial diversity measures or abundances of major taxa, we show that disparate amplicon sequence data can be combined at the taxonomy-based level to assess bacterial community structure. We find that rarer taxa are more important for structuring soil communities than abundant taxa, and that these rarer taxa are better predictors of community structure than environmental factors, which are often confounded across studies. We conclude that combining data from independent studies can be used to explore bacterial community dynamics, identify potential 'indicator' taxa with an important role in structuring communities, and propose hypotheses on the factors that shape bacterial biogeography that have been overlooked in the past.

  • 7. Zehr, Jonathan P.
    et al.
    Shilova, Irina N.
    Farnelid, Hanna M.
    Munoz-Marin, Maria del Carmen
    Turk-Kubo, Kendra A.
    Unusual marine unicellular symbiosis with the nitrogen-fixing cyanobacterium UCYN-A (vol 2, 16214, 2016)2017Ingår i: Nature Microbiology, E-ISSN 2058-5276, Vol. 2, nr 3, artikel-id 17016Artikel i tidskrift (Refereegranskat)
1 - 7 av 7
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