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  Subjects -> BIOLOGY (Total: 2849 journals)
    - BIOCHEMISTRY (215 journals)
    - BIOENGINEERING (93 journals)
    - BIOLOGY (1384 journals)
    - BIOPHYSICS (43 journals)
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    - CYTOLOGY AND HISTOLOGY (25 journals)
    - ENTOMOLOGY (57 journals)
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    - ORNITHOLOGY (27 journals)
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    - ZOOLOGY (128 journals)

MICROBIOLOGY (243 journals)                  1 2 3     

Acta Microbiologica et Immunologica Hungarica     Full-text available via subscription   (Followers: 5)
Addiction Genetics     Open Access   (Followers: 5)
Advances in Applied Microbiology     Full-text available via subscription   (Followers: 19)
Advances in Microbiology     Open Access   (Followers: 17)
Advances in Molecular Imaging     Open Access   (Followers: 2)
African Journal of Clinical and Experimental Microbiology     Open Access   (Followers: 1)
African Journal of Microbiology Research     Open Access   (Followers: 1)
Algorithms for Molecular Biology     Open Access   (Followers: 4)
American Journal of Infectious Diseases and Microbiology     Open Access   (Followers: 15)
American Journal of Microbiological Research     Open Access  
American Journal of Microbiology     Open Access   (Followers: 15)
American Journal of Molecular Biology     Open Access   (Followers: 2)
American Journal of Stem Cell Research     Open Access   (Followers: 1)
Annals of Clinical Microbiology and Antimicrobials     Open Access   (Followers: 6)
Annals of Microbiology     Hybrid Journal   (Followers: 9)
Annual Review of Microbiology     Full-text available via subscription   (Followers: 24)
Antimicrobial Agents and Chemotherapy     Full-text available via subscription   (Followers: 16)
Applied and Environmental Microbiology     Full-text available via subscription   (Followers: 34)
Applied Biochemistry and Microbiology     Hybrid Journal   (Followers: 8)
Applied Microbiology and Biotechnology     Hybrid Journal   (Followers: 30)
Archives of Microbiology     Hybrid Journal   (Followers: 4)
Avicenna Journal of Clinical Microbiology and Infection     Open Access  
Bangladesh Journal of Medical Microbiology     Open Access  
Beneficial Microbes     Full-text available via subscription   (Followers: 2)
Bio-Research     Full-text available via subscription  
BioArchitecture     Full-text available via subscription  
Biocell     Open Access  
Bioethanol     Open Access  
Biomaterials Science     Full-text available via subscription   (Followers: 4)
BioMolecular Concepts     Hybrid Journal   (Followers: 2)
Biomolecular Detection and Quantification     Open Access  
Biomolecules     Open Access   (Followers: 1)
BMC Microbiology     Open Access   (Followers: 8)
Brazilian Journal of Microbiology     Open Access   (Followers: 2)
Canadian Journal of Infectious Diseases & Medical Microbiology     Hybrid Journal   (Followers: 2)
Canadian Journal of Microbiology     Full-text available via subscription   (Followers: 3)
Cell Biology : Research & Therapy     Hybrid Journal  
Cell Host & Microbe     Full-text available via subscription   (Followers: 10)
Cell Medicine     Open Access  
Cell Regeneration     Open Access  
Cell Stem Cell     Full-text available via subscription   (Followers: 23)
CellBio     Open Access  
Cells     Open Access   (Followers: 1)
Cellular & Molecular Immunology     Hybrid Journal   (Followers: 9)
Cellular and Molecular Biology Letters     Open Access   (Followers: 1)
Cellular Microbiology     Hybrid Journal   (Followers: 5)
Cellular Senescence and Therapy     Open Access  
Cheese: Chemistry, Physics and Microbiology     Full-text available via subscription   (Followers: 2)
Chimerism     Full-text available via subscription  
Clinical Microbiology and Infection     Hybrid Journal   (Followers: 16)
Clinical Microbiology Newsletter     Hybrid Journal   (Followers: 4)
Clinical Microbiology Reviews     Full-text available via subscription   (Followers: 10)
Comparative Immunology, Microbiology and Infectious Diseases     Hybrid Journal   (Followers: 9)
Computational Molecular Bioscience     Open Access   (Followers: 1)
Critical Reviews in Microbiology     Hybrid Journal   (Followers: 8)
Current Clinical Microbiology Reports     Hybrid Journal  
Current Issues in Molecular Biology     Open Access   (Followers: 1)
Current Microbiology     Hybrid Journal   (Followers: 6)
Current Molecular Biology Reports     Hybrid Journal  
Current Molecular Imaging     Hybrid Journal  
Current Opinion in Microbiology     Hybrid Journal   (Followers: 19)
Current Tissue Engineering     Hybrid Journal   (Followers: 1)
Current Topics in Microbiology and Immunology     Hybrid Journal   (Followers: 4)
Diagnostic Microbiology and Infectious Disease     Hybrid Journal   (Followers: 6)
Disease and Molecular Medicine     Open Access   (Followers: 1)
DNA Barcodes     Open Access  
Egyptian Journal of Biochemistry and Molecular Biology     Full-text available via subscription  
Emerging Microbes & Infections     Open Access   (Followers: 2)
Environmental Microbiology     Hybrid Journal   (Followers: 14)
Environmental Microbiology Reports     Hybrid Journal   (Followers: 3)
Enzyme and Microbial Technology     Hybrid Journal   (Followers: 5)
Epigenetics of Degenerative Diseases     Open Access   (Followers: 3)
European Journal of Clinical Microbiology & Infectious Diseases     Hybrid Journal   (Followers: 11)
European Journal of Microbiology and Immunology     Open Access   (Followers: 8)
Experimental and Molecular Pathology     Hybrid Journal   (Followers: 5)
Fems Microbiology Ecology     Hybrid Journal   (Followers: 6)
Fems Microbiology Letters     Hybrid Journal   (Followers: 15)
Fems Microbiology Reviews     Hybrid Journal   (Followers: 19)
Fermentation     Open Access  
Folia Histochemica et Cytobiologica     Open Access  
Folia Microbiologica     Hybrid Journal   (Followers: 1)
Food Microbiology     Hybrid Journal   (Followers: 13)
Frontiers in Cell and Developmental Biology     Open Access   (Followers: 2)
Frontiers in Cellular and Infection Microbiology     Open Access   (Followers: 2)
Frontiers in Cellular Neuroscience     Open Access   (Followers: 2)
Frontiers in Microbiology     Open Access   (Followers: 6)
Frontiers in Molecular Neuroscience     Open Access   (Followers: 1)
Future Microbiology     Full-text available via subscription   (Followers: 2)
Future Virology     Full-text available via subscription   (Followers: 6)
Gene Expression     Full-text available via subscription  
Genetica si Biologie Moleculara     Open Access  
Genetics and Molecular Research     Open Access   (Followers: 4)
Geomicrobiology Journal     Hybrid Journal   (Followers: 1)
Gut Microbes     Full-text available via subscription   (Followers: 4)
IAWA Journal     Hybrid Journal  
Indian Journal of Microbiology     Hybrid Journal   (Followers: 1)
Indian Journal of Pathology and Microbiology     Open Access   (Followers: 1)
Infection Ecology & Epidemiology     Open Access   (Followers: 6)
Inside the Cell     Open Access  
International Arabic Journal of Antimicrobial Agents     Open Access   (Followers: 5)

        1 2 3     

Journal Cover   Trends in Microbiology
  [SJR: 5.211]   [H-I: 132]   [15 followers]  Follow
    
   Full-text available via subscription Subscription journal
   ISSN (Print) 0966-842X
   Published by Elsevier Homepage  [2812 journals]
  • Targeting specific bacteria in the oral microbiome
    • Abstract: Publication date: Available online 24 July 2015
      Source:Trends in Microbiology
      Author(s): Jorge Frias-Lopez
      A lack of tools that kill selected members of the oral microbiome has hampered the ability to study specific roles of bacteria within bacterial communities. Work by Guo et al. shows the potential of antimicrobial peptides as a tool to assess the role of individual species in the microbial community.


      PubDate: 2015-07-27T12:05:42Z
       
  • Bat-to-human: spike features determining ‘host jump’ of
           coronaviruses SARS-CoV, MERS-CoV, and beyond
    • Abstract: Publication date: Available online 21 July 2015
      Source:Trends in Microbiology
      Author(s): Guangwen Lu, Qihui Wang, George F. Gao
      Both severe acute respiratory syndrome coronavirus (SARS-CoV) and Middle East respiratory syndrome coronavirus (MERS-CoV) are zoonotic pathogens that crossed the species barriers to infect humans. The mechanism of viral interspecies transmission is an important scientific question to be addressed. These coronaviruses contain a surface-located spike (S) protein that initiates infection by mediating receptor-recognition and membrane fusion and is therefore a key factor in host specificity. In addition, the S protein needs to be cleaved by host proteases before executing fusion, making these proteases a second determinant of coronavirus interspecies infection. Here, we summarize the progress made in the past decade in understanding the cross-species transmission of SARS-CoV and MERS-CoV by focusing on the features of the S protein, its receptor-binding characteristics, and the cleavage process involved in priming.


      PubDate: 2015-07-23T11:54:45Z
       
  • Entry and exit of bacterial outer membrane proteins
    • Abstract: Publication date: Available online 11 July 2015
      Source:Trends in Microbiology
      Author(s): Rajeev Misra
      The sites of new outer membrane protein (OMP) deposition and the fate of pre-existing OMPs are still enigmatic despite numerous concerted efforts. Rassam et al. identified mid-cell regions as the primary entry points for new OMP insertion in clusters, driving the pre-existing OMP clusters towards cell poles for long-term storage.


      PubDate: 2015-07-14T10:49:53Z
       
  • Anthropogenic action shapes the evolutionary ecology of Bacillus
           thuringiensis: response to Ruan et al
    • Abstract: Publication date: Available online 7 July 2015
      Source:Trends in Microbiology
      Author(s): Leandro L. Loguercio , Ronaldo C. Argôlo-Filho



      PubDate: 2015-07-10T10:19:57Z
       
  • The giant panda gut microbiome
    • Abstract: Publication date: Available online 1 July 2015
      Source:Trends in Microbiology
      Author(s): Fuwen Wei , Xiao Wang , Qi Wu
      Giant pandas (Ailuropoda melanoleuca) are bamboo specialists that evolved from carnivores. Their gut microbiota probably aids in the digestion of cellulose and this is considered an example of gut microbiota adaptation to a bamboo diet. However, this issue remains unresolved and further functional and compositional studies are needed.


      PubDate: 2015-07-06T10:07:08Z
       
  • Multipurpose prevention technologies: the future of HIV and STI protection
    • Abstract: Publication date: July 2015
      Source:Trends in Microbiology, Volume 23, Issue 7
      Author(s): José A. Fernández-Romero , Carolyn Deal , Betsy C. Herold , John Schiller , Dorothy Patton , Thomas Zydowsky , Joe Romano , Christopher D. Petro , Manjulaa Narasimhan
      Every day, more than 1 million people are newly infected with sexually transmitted infections (STIs) that can lead to morbidity, mortality, and an increased risk of human immunodeficiency virus (HIV) acquisition. Existing prevention and management strategies, including behavior change, condom promotion, and therapy have not reduced the global incidence and prevalence, pointing to the need for novel innovative strategies. This review summarizes important issues raised during a satellite session at the first HIV Research for Prevention (R4P) conference, held in Cape Town, on October 31, 2014. We explore key STIs that are challenging public health today, new biomedical prevention approaches including multipurpose prevention technologies (MPTs), and the scientific and regulatory hurdles that must be overcome to make combination prevention tools a reality.


      PubDate: 2015-07-01T10:02:29Z
       
  • Resistance is not futile: gliotoxin biosynthesis, functionality and
           utility
    • Abstract: Publication date: July 2015
      Source:Trends in Microbiology, Volume 23, Issue 7
      Author(s): Stephen K. Dolan , Grainne O’Keeffe , Gary W. Jones , Sean Doyle
      Gliotoxin biosynthesis is encoded by the gli gene cluster in Aspergillus fumigatus. The biosynthesis of gliotoxin is influenced by a suite of transcriptionally-active regulatory proteins and a bis-thiomethyltransferase. A self-protection system against gliotoxin is present in A. fumigatus. Several additional metabolites are also produced via the gliotoxin biosynthetic pathway. Moreover, the biosynthesis of unrelated natural products appears to be influenced either by gliotoxin or by the activity of specific reactions within the biosynthetic pathway. The activity of gliotoxin against animal cells and fungi, often mediated by interference with redox homeostasis or protein modification, is revealing new metabolic interactions within eukaryotic systems. Nature has provided a most useful natural product with which to reveal some of its many molecular secrets.


      PubDate: 2015-07-01T10:02:29Z
       
  • The changing face of asthma and its relation with microbes
    • Abstract: Publication date: July 2015
      Source:Trends in Microbiology, Volume 23, Issue 7
      Author(s): Chris S. Earl , Shi-qi An , Robert P. Ryan
      During the past 50 years, the prevalence of asthma has increased and this has coincided with our changing relation with microorganisms. Asthma is a complex disease associated with local tissue inflammation of the airway that is determined by environmental, immunological, and host genetic factors. In a subgroup of sufferers, respiratory infections are associated with the development of chronic disease and more frequent inflammatory exacerbations. Recent studies suggest that these infections are polymicrobial in nature. Furthermore, there is increasing evidence that the recently discovered asthma airway microbiota may play a critical role in pathophysiological processes associated with the disease. Here, we discuss the current data regarding a possible role for infection in chronic asthma with a particular focus on the role bacteria may play. We discuss recent advances that are beginning to elucidate the complex relations between the microbiota and the immune response in asthma patients. We also highlight the clinical implications of these recent findings in regards to the development of novel therapeutic strategies.


      PubDate: 2015-07-01T10:02:29Z
       
  • Editorial Board and Contents
    • Abstract: Publication date: July 2015
      Source:Trends in Microbiology, Volume 23, Issue 7




      PubDate: 2015-07-01T10:02:29Z
       
  • Getting to the root of epidemic spread with phylodynamic analysis of
           genomic data
    • Abstract: Publication date: July 2015
      Source:Trends in Microbiology, Volume 23, Issue 7
      Author(s): Louis du Plessis , Tanja Stadler
      When epidemiological and evolutionary dynamics occur on similar timescales, pathogen genomes sampled from infected hosts carry a signature of the dynamics of epidemic spread. Phylodynamic inference methods aim to extract this signature from genetic data. We discuss the contribution of phylodynamics toward understanding the 2014 West African Ebola virus epidemic.


      PubDate: 2015-07-01T10:02:29Z
       
  • Collateral sensitivity of antibiotic-resistant microbes
    • Abstract: Publication date: July 2015
      Source:Trends in Microbiology, Volume 23, Issue 7
      Author(s): Csaba Pál , Balázs Papp , Viktória Lázár
      Understanding how evolution of microbial resistance towards a given antibiotic influences susceptibility to other drugs is a challenge of profound importance. By combining laboratory evolution, genome sequencing, and functional analyses, recent works have charted the map of evolutionary trade-offs between antibiotics and have explored the underlying molecular mechanisms. Strikingly, mutations that caused multidrug resistance in bacteria simultaneously enhanced sensitivity to many other unrelated drugs (collateral sensitivity). Here, we explore how this emerging research sheds new light on resistance mechanisms and the way it could be exploited for the development of alternative antimicrobial strategies.


      PubDate: 2015-07-01T10:02:29Z
       
  • Complex host genetic susceptibility to Staphylococcus aureus infections
    • Abstract: Publication date: Available online 22 June 2015
      Source:Trends in Microbiology
      Author(s): Sanjay K. Shukla , Warren Rose , Steven J. Schrodi
      Understanding of the host genetic susceptibility to carriage of, and infections, due to Staphylococcus aureus, a nosocomial pathogen, is still in its nascent stages. Mouse models show variable susceptibility to S. aureus infections across mouse strains and disease models with roles for signaling pathways involving Toll-like receptors (TLR-1, TLR-2, and TLR-6), interleukins (IL-4, IL-6, IL-10, and IL-13), chemokines [CXC ligand (CXCL)-1 and CXCL-2], and T helper (Th)1/Th2 responses. Genome-wide association studies (GWASs) for carriage in humans identified SNPs in IL4, DEFB1, CRP, and VDR for persistent nasal carriage. NR3C1 haplotypes may either enhance risk or provide protection from colonization. GWASs for all S. aureus diseases have suggested roles for DAPK3, a kinase, and XRN1, a nuclease, while CDON could have a role in complicated bacteremia. More studies are needed to identify host susceptibility genes along with confirmation from functional assays.


      PubDate: 2015-06-26T09:35:56Z
       
  • Lokiarchaeota: eukaryote-like missing links from microbial dark
           matter?
    • Abstract: Publication date: Available online 22 June 2015
      Source:Trends in Microbiology
      Author(s): Arshan Nasir , Kyung Mo Kim , Gustavo Caetano-Anollés
      Identification and genome sequencing of novel organismal groups can reduce the gap between the sequenced minority and the unexplored majority. The recent discovery of phylum Lokiarchaeota promises understanding of biological history. Here we inquire if Lokiarchaeota truly represent ancient eukaryotic ancestors or just microbial dark matter of expanding archaeal diversity.


      PubDate: 2015-06-26T09:35:56Z
       
  • Control of bacterial metabolism by quorum sensing
    • Abstract: Publication date: Available online 10 June 2015
      Source:Trends in Microbiology
      Author(s): Eunhye Goo , Jae Hyung An , Yongsung Kang , Ingyu Hwang
      Bacterial quorum sensing (QS)-dependent gene expression is a dynamic response to cell density. Bacteria produce costly public goods for the benefit of the population as a whole. As an example, QS rewires cellular metabolism to produce oxalate (a public good) to enable survival during the stationary phase in Burkholderia glumae, Burkholderia thailandensis, and Burkholderia pseudomallei. Recent reports showed that QS serves as a metabolic brake to maintain homeostatic primary metabolism in B. glumae and readjusts the central metabolism of Pseudomonas aeruginosa. In this review, we emphasize the dynamics and complexity of the control of gene expression by QS and discuss the metabolic costs and possible metabolic options to sustain cooperativity. We then focus on how QS influences bacterial central metabolism.


      PubDate: 2015-06-14T09:07:00Z
       
  • Bacterial cellulose biosynthesis: diversity of operons, subunits,
           products, and functions
    • Abstract: Publication date: Available online 12 June 2015
      Source:Trends in Microbiology
      Author(s): Ute Römling , Michael Y. Galperin
      Recent studies of bacterial cellulose biosynthesis, including structural characterization of a functional cellulose synthase complex, provided the first mechanistic insight into this fascinating process. In most studied bacteria, just two subunits, BcsA and BcsB, are necessary and sufficient for the formation of the polysaccharide chain in vitro. Other subunits – which differ among various taxa – affect the enzymatic activity and product yield in vivo by modulating (i) the expression of the biosynthesis apparatus, (ii) the export of the nascent β-D-glucan polymer to the cell surface, and (iii) the organization of cellulose fibers into a higher-order structure. These auxiliary subunits play key roles in determining the quantity and structure of resulting biofilms, which is particularly important for the interactions of bacteria with higher organisms – leading to rhizosphere colonization and modulating the virulence of cellulose-producing bacterial pathogens inside and outside of host cells. We review the organization of four principal types of cellulose synthase operon found in various bacterial genomes, identify additional bcs genes that encode components of the cellulose biosynthesis and secretion machinery, and propose a unified nomenclature for these genes and subunits. We also discuss the role of cellulose as a key component of biofilms and in the choice between acute infection and persistence in the host.


      PubDate: 2015-06-14T09:07:00Z
       
  • Infectious asthma triggers: time to revise the hygiene hypothesis'
    • Abstract: Publication date: Available online 9 June 2015
      Source:Trends in Microbiology
      Author(s): Wilmore C. Webley , Kelly L. Aldridge
      The hygiene hypothesis supports an inverse relationship between respiratory infections in early-life and atopic diseases. However, a recent study supports growing evidence that early-life infection and airway microbiome composition can significantly influence asthma inception and exacerbation later in life. This reignites discussions on infection-mediated asthma phenotypes and potential therapeutics.


      PubDate: 2015-06-10T09:01:52Z
       
  • Does chronic infection in retroviruses have a sense'
    • Abstract: Publication date: June 2015
      Source:Trends in Microbiology, Volume 23, Issue 6
      Author(s): Benoit Barbeau , Jean-Michel Mesnard
      Over recent years, retroviral gene expression has been shown to depend on a promoter that is bidirectional. This promoter activity is likely to occur at either end of the retroviral genome and has important consequences at the level of retroviral gene expression. This review focuses on the recent discovery of retroviral antisense genes termed HBZ [in human T-cell leukemia virus type 1 (HTLV-1)] and ASP (in HIV-1) in terms of their function and the regulation of their expression, both of which are interconnected with the expression and function of other viral proteins. Emphasis is also given to the potential implication of these proteins in the maintenance of chronic infection in infected individuals. In light of recent findings, the discovery of these new genes opens a new avenue for the future treatment of HTLV-1- and HIV-1-infected individuals.


      PubDate: 2015-06-06T08:38:47Z
       
  • The essential features and modes of bacterial polar growth
    • Abstract: Publication date: June 2015
      Source:Trends in Microbiology, Volume 23, Issue 6
      Author(s): Todd A. Cameron , John R. Zupan , Patricia C. Zambryski
      Polar growth represents a surprising departure from the canonical dispersed cell growth model. However, we know relatively little of the underlying mechanisms governing polar growth or the requisite suite of factors that direct polar growth. Underscoring how classic doctrine can be turned on its head, the peptidoglycan layer of polar-growing bacteria features unusual crosslinks and in some species the quintessential cell division proteins FtsA and FtsZ are recruited to the growing poles. Remarkably, numerous medically important pathogens utilize polar growth, accentuating the need for intensive research in this area. Here we review models of polar growth in bacteria based on recent research in the Actinomycetales and Rhizobiales, with emphasis on Mycobacterium and Agrobacterium species.


      PubDate: 2015-06-06T08:38:47Z
       
  • Temporal patterns of rarity provide a more complete view of microbial
           diversity
    • Abstract: Publication date: June 2015
      Source:Trends in Microbiology, Volume 23, Issue 6
      Author(s): Ashley Shade , Jack A. Gilbert
      Recently, conditionally rare taxa (CRTs) – those taxa that are typically in very low abundance but occasionally achieve prevalence – were shown to contribute to patterns of microbial diversity because their collective dynamics explained a large proportion of temporal variability in microbial community structure. Here the benefits and challenges of characterizing the presence and interpreting the role of CRTs are further explored, along with questions about CRT ecology. We also introduce a conceptual model for thinking about microbial taxa as dynamic components along the dimensions of occurrence and abundance. Accounting for CRTs in interpretations of microbial ecological dynamics is essential if we are to understand community stability and ecoevolutionary interactions.


      PubDate: 2015-06-06T08:38:47Z
       
  • Editorial Board and Contents
    • Abstract: Publication date: June 2015
      Source:Trends in Microbiology, Volume 23, Issue 6




      PubDate: 2015-06-06T08:38:47Z
       
  • Hepatitis C virus screening to reveal a better picture of infection
    • Abstract: Publication date: June 2015
      Source:Trends in Microbiology, Volume 23, Issue 6
      Author(s): Maria Cristina Medici , Claudio Galli , Adriana Calderaro
      Antiviral therapy for hepatitis C virus (HCV) infection will be the next revolution in clinical virology. Sensible planning for treatment is needed, starting with population-screening policies ideally using the HCV core antigen. This will result in a more defined picture of the silent spread of HCV.


      PubDate: 2015-06-06T08:38:47Z
       
  • Sticky microbes: forces in microbial cell adhesion
    • Abstract: Publication date: June 2015
      Source:Trends in Microbiology, Volume 23, Issue 6
      Author(s): Yves F. Dufrêne
      Understanding the fundamental forces involved in the adhesion of microbial cells is important not only in microbiology, to elucidate cellular functions (such as ligand-binding or biofilm formation), but also in medicine (biofilm infections) and biotechnology (cell aggregation). Rapid progress in atomic force microscopy (AFM) techniques has made it possible to measure the forces driving cell–cell and cell–substrate interactions on a single cell basis. A living cell is attached to the AFM probe, thereby enabling researchers to measure the interaction forces between the cell and a target surface. Recent advances in our understanding of the forces driving cell adhesion and biofilm formation are discussed, with a focus on pathogens. These studies provide compelling evidence that, upon contact with a surface, cell adhesion components display a variety of mechanical responses that are important for cell adhesion.


      PubDate: 2015-06-06T08:38:47Z
       
  • How do divergent ecological strategies emerge among marine
           bacterioplankton lineages'
    • Abstract: Publication date: Available online 4 June 2015
      Source:Trends in Microbiology
      Author(s): Haiwei Luo , Mary Ann Moran
      Heterotrophic bacteria in pelagic marine environments are frequently categorized into two canonical ecological groups: patch-associated and free-living. This framework provides a conceptual basis for understanding bacterial utilization of oceanic organic matter. Some patch-associated bacteria are ecologically linked with eukaryotic phytoplankton, and this observation fits with predicted coincidence of their genome expansion with marine phytoplankton diversification. By contrast, free-living bacteria in today's oceans typically live singly with streamlined metabolic and regulatory functions that allow them to grow in nutrient-poor seawater. Recent analyses of marine Alphaproteobacteria suggest that some free-living bacterioplankton lineages evolved from patch-associated ancestors up to several hundred million years ago. While evolutionary analyses agree with the hypothesis that natural selection has maintained these distinct ecological strategies and genomic traits in present-day populations, they do not rule out a major role for genetic drift in driving ancient ecological switches. These two evolutionary forces may have acted on ocean bacteria at different geological time scales and under different geochemical constraints, with possible implications for future adaptations to a changing ocean. New evolutionary models and genomic data are leading to a more comprehensive understanding of marine bacterioplankton evolutionary history.


      PubDate: 2015-06-06T08:38:47Z
       
  • The potential impact of coinfection on antimicrobial chemotherapy and drug
           resistance
    • Abstract: Publication date: Available online 29 May 2015
      Source:Trends in Microbiology
      Author(s): Ruthie B. Birger , Roger D. Kouyos , Ted Cohen , Emily C. Griffiths , Silvie Huijben , Michael Mina , Victoriya Volkova , Bryan Grenfell , C. Jessica E. Metcalf
      Across a range of pathogens, resistance to chemotherapy is a growing problem in both public health and animal health. Despite the ubiquity of coinfection, and its potential effects on within-host biology, the role played by coinfecting pathogens on the evolution of resistance and efficacy of antimicrobial chemotherapy is rarely considered. In this review, we provide an overview of the mechanisms of interaction of coinfecting pathogens, ranging from immune modulation and resource modulation, to drug interactions. We discuss their potential implications for the evolution of resistance, providing evidence in the rare cases where it is available. Overall, our review indicates that the impact of coinfection has the potential to be considerable, suggesting that this should be taken into account when designing antimicrobial drug treatments.


      PubDate: 2015-05-31T08:13:36Z
       
  • Tolerance engineering in bacteria for the production of advanced biofuels
           and chemicals
    • Abstract: Publication date: Available online 26 May 2015
      Source:Trends in Microbiology
      Author(s): Aindrila Mukhopadhyay
      During microbial production of solvent-like compounds, such as advanced biofuels and bulk chemicals, accumulation of the final product can negatively impact the cultivation of the host microbe and limit the production levels. Consequently, improving solvent tolerance is becoming an essential aspect of engineering microbial production strains. Mechanisms ranging from chaperones to transcriptional factors have been used to obtain solvent-tolerant strains. However, alleviating growth inhibition does not invariably result in increased production. Transporters specifically have emerged as a powerful category of proteins that bestow tolerance and often improve production but are difficult targets for cellular expression. Here we review strain engineering, primarily as it pertains to bacterial solvent tolerance, and the benefits and challenges associated with the expression of membrane-localized transporters in improving solvent tolerance and production.


      PubDate: 2015-05-27T08:02:42Z
       
  • Bacterial spread from cell to cell: beyond actin-based motility
    • Abstract: Publication date: Available online 25 May 2015
      Source:Trends in Microbiology
      Author(s): Carole J. Kuehl , Ana-Maria Dragoi , Arthur Talman , Hervé Agaisse
      Several intracellular pathogens display the ability to propagate within host tissues by displaying actin-based motility in the cytosol of infected cells. As motile bacteria reach cell–cell contacts they form plasma membrane protrusions that project into adjacent cells and resolve into vacuoles from which the pathogen escapes, thereby achieving spread from cell to cell. Seminal studies have defined the bacterial and cellular factors that support actin-based motility. By contrast, the mechanisms supporting the formation of protrusions and their resolution into vacuoles have remained elusive. Here, we review recent advances in the field showing that Listeria monocytogenes and Shigella flexneri have evolved pathogen-specific mechanisms of bacterial spread from cell to cell.


      PubDate: 2015-05-27T08:02:42Z
       
  • Evolution of bacterial transcription factors: how proteins take on new
           tasks, but do not always stop doing the old ones
    • Abstract: Publication date: Available online 20 May 2015
      Source:Trends in Microbiology
      Author(s): Sandhya S. Visweswariah , Stephen J.W. Busby
      Many bacterial transcription factors do not behave as per the textbook operon model. We draw on whole genome work, as well as reported diversity across different bacteria, to argue that transcription factors may have evolved from nucleoid-associated proteins. This view would explain a large amount of recent data gleaned from high-throughput sequencing and bioinformatic analyses.


      PubDate: 2015-05-22T04:46:40Z
       
  • RNA structures are involved in the thermoregulation of bacterial
           virulence-associated traits
    • Abstract: Publication date: Available online 18 May 2015
      Source:Trends in Microbiology
      Author(s): María Victoria Grosso-Becera , Luis Servín-González , Gloria Soberón-Chávez
      Pathogenic bacteria are exposed to temperature changes during colonization of the human body and during exposure to environmental conditions. Virulence-associated traits are mainly expressed by pathogenic bacteria at 37°C. We review different cases of post-transcriptional regulation of virulence-associated proteins through RNA structures (called RNA thermometers or RNATs) that modulate the translation of mRNAs. The analysis of RNATs in pathogenic bacteria has started to produce a comprehensive picture of the structures involved, and of the genes regulated by this mechanism. However, we are still not able to predict the functionality of putative RNATs predicted by bioinformatics methods, and there is not a global approach to measure the effect of these RNA structures in gene regulation during bacterial infections.


      PubDate: 2015-05-22T04:46:40Z
       
  • Emerging intracellular receptors for hemorrhagic fever viruses
    • Abstract: Publication date: Available online 21 May 2015
      Source:Trends in Microbiology
      Author(s): Lucas T. Jae , Thijn R. Brummelkamp
      Ebola virus and Lassa virus belong to different virus families that can cause viral hemorrhagic fever, a life-threatening disease in humans with limited treatment options. To infect a target cell, Ebola and Lassa viruses engage receptors at the cell surface and are subsequently shuttled into the endosomal compartment. Upon arrival in late endosomes/lysosomes, the viruses trigger membrane fusion to release their genome into the cytoplasm. Although contact sites at the cell surface were recognized for Ebola virus and Lassa virus, it was postulated that Ebola virus requires a critical receptor inside the cell. Recent screens for host factors identified such internal receptors for both viruses: Niemann–Pick disease type C1 protein (NPC1) for Ebola virus and lysosome-associated membrane protein 1 (LAMP1) for Lassa virus. A cellular trigger is needed to permit binding of the viral envelope protein to these intracellular receptors. This ‘receptor switch’ represents a previously unnoticed step in virus entry with implications for host–pathogen interactions and viral tropism.


      PubDate: 2015-05-22T04:46:40Z
       
  • How Ebola has been evolving in West Africa
    • Abstract: Publication date: Available online 15 May 2015
      Source:Trends in Microbiology
      Author(s): Si-Qing Liu , Simon Rayner , Bo Zhang
      The ongoing Ebola outbreak in West Africa has generated fears of a global epidemic. Particularly, estimates of higher substitution rates have raised concerns about increased transmissibility or virulence. A recent study using a more comprehensive datasets demonstrates lower variation, highlighting the importance of representative datasets and limitations of computational modelling.


      PubDate: 2015-05-18T04:20:21Z
       
  • Gut bacteria and necrotizing enterocolitis: cause or effect?
    • Abstract: Publication date: Available online 30 April 2015
      Source:Trends in Microbiology
      Author(s): Christopher James Stewart , Stephen Paul Cummings
      Development of necrotising enterocolitis (NEC) is considered to be dependent on the bacterial colonisation of the gut. With little concordance between published data and a recent study failing to detect a common strain in infants with NEC, more questions than answers are arising about our understanding of this complex disease.


      PubDate: 2015-05-01T01:41:38Z
       
  • Novel role of DNA in neutrophil extracellular traps
    • Abstract: Publication date: Available online 23 April 2015
      Source:Trends in Microbiology
      Author(s): Christoph Georg Baums , Maren von Köckritz-Blickwede
      Neutrophil extracellular traps (NETs) have been shown to play a crucial role in health and disease. In a recent paper in PLoS Pathogens, Halverson et al. demonstrate that the DNA backbone of NETs contributes to its antibacterial activity and serves as signal for entrapped microbes to employ immune evasion strategies.


      PubDate: 2015-04-27T01:01:57Z
       
  • Axonal spread of neuroinvasive viral infections
    • Abstract: Publication date: May 2015
      Source:Trends in Microbiology, Volume 23, Issue 5
      Author(s): Matthew P. Taylor , Lynn W. Enquist
      Neuroinvasive viral infections invade the nervous system, often eliciting serious disease and death. Members of four viral families are both neuroinvasive and capable of transmitting progeny virions or virion components within the long neuronal extensions known as axons. Axons provide physical structures that enable viral infection to spread within the host while avoiding extracellular immune responses. Technological advances in the analysis of in vivo neural circuits, neuronal culturing, and live imaging of fluorescent fusion proteins have enabled an unprecedented view into the steps of virion assembly, transport, and egress involved in axonal spread. In this review we summarize the literature supporting anterograde (axon to cell) spread of viral infection, describe the various strategies of virion transport, and discuss the effects of spread on populations of neuroinvasive viruses.


      PubDate: 2015-04-27T01:01:57Z
       
  • Editorial Board and Contents
    • Abstract: Publication date: May 2015
      Source:Trends in Microbiology, Volume 23, Issue 5




      PubDate: 2015-04-27T01:01:57Z
       
  • The bacterial flagellar motor and its structural diversity
    • Abstract: Publication date: May 2015
      Source:Trends in Microbiology, Volume 23, Issue 5
      Author(s): Tohru Minamino , Katsumi Imada
      The bacterial flagellum is a reversible rotary motor powered by an electrochemical-potential difference of specific ions across the cytoplasmic membrane. The H + -driven motor of Salmonella spins at ∼300Hz, whereas the Na+-driven motor of marine Vibrio spp. can rotate much faster, up to 1700Hz. A highly conserved motor structure consists of the MS ring, C ring, rod, and export apparatus. The C ring and the export apparatus show dynamic properties for exerting their functional activities. Various additional structures surrounding the conserved motor structure are observed in different bacterial species. In this review we summarize our current understanding of the structure, function, and assembly of the flagellar motor in Salmonella and marine Vibrio.


      PubDate: 2015-04-27T01:01:57Z
       
  • AI-2 to the rescue against antibiotic-induced intestinal dysbiosis'
    • Abstract: Publication date: Available online 17 April 2015
      Source:Trends in Microbiology
      Author(s): Zhongke Sun , Verena Grimm , Christian U. Riedel
      The downside of antibiotic treatment of infectious diseases is a disturbed intestinal microbiota leading to reduced resistance against pathogen colonization. Work by Thompson et al. now suggests that antibiotic-induced intestinal dysbiosis can partially be counterbalanced by artificially increasing the levels of autoinducer-2 (AI-2), a well-known bacterial communication molecule.


      PubDate: 2015-04-23T00:36:39Z
       
  • Who determines the outcomes of HBV exposure'
    • Abstract: Publication date: Available online 9 April 2015
      Source:Trends in Microbiology
      Author(s): Baohong Wang , Lanjuan Li
      Until recently, the reason for age-dependent immune clearance of hepatitis B virus remained elusive. A new study has revealed that establishment of the commensal gut microbiota could modulate the liver immunity phenotype in a hydrodynamic transfection mouse model, suggesting that natural gut–liver interactions can help achieve rapid viral clearance.


      PubDate: 2015-04-10T05:56:18Z
       
  • Staphylococcus aureus infections: transmission within households and the
           community
    • Abstract: Publication date: Available online 9 April 2015
      Source:Trends in Microbiology
      Author(s): Justin Knox , Anne-Catrin Uhlemann , Franklin D. Lowy
      Staphylococcus aureus, both methicillin susceptible and resistant, are now major community-based pathogens worldwide. The basis for this is multifactorial and includes the emergence of epidemic clones with enhanced virulence, antibiotic resistance, colonization potential, or transmissibility. Household reservoirs of these unique strains are crucial to their success as community-based pathogens. Staphylococci become resident in households, either as colonizers or environmental contaminants, increasing the risk for recurrent infections. Interactions of household members with others in different households or at community sites, including schools and daycare facilities, have a critical role in the ability of these strains to become endemic. Colonization density at these sites appears to have an important role in facilitating transmission. The integration of research tools, including whole-genome sequencing (WGS), mathematical modeling, and social network analysis, has provided additional insight into the transmission dynamics of these strains. Thus far, interventions designed to reduce recurrent infections among household members have had limited success, likely due to the multiplicity of potential sources for recolonization. The development of better strategies to reduce the number of household-based infections will depend on greater insight into the different factors that contribute to the success of these uniquely successful epidemic clones of S. aureus.


      PubDate: 2015-04-10T05:56:18Z
       
  • Fueling type III secretion
    • Abstract: Publication date: Available online 17 February 2015
      Source:Trends in Microbiology
      Author(s): Pei-Chung Lee , Arne Rietsch
      Type III secretion systems (T3SSs) are complex nanomachines that export proteins from the bacterial cytoplasm across the cell envelope in a single step. They are at the core of the machinery used to assemble the bacterial flagellum, and the needle complex many Gram-negative pathogens use to inject effector proteins into host cells and cause disease. Several models have been put forward to explain how this export is energized, and the mechanism has been the subject of considerable debate. Here we present an overview of these models and discuss their relative merits. Recent evidence suggests that the proton motive force (pmf) is the primary energy source for type III secretion, although contribution from refolding of secreted proteins has not been ruled out. The mechanism by which the pmf is converted to protein export remains enigmatic.


      PubDate: 2015-04-05T05:40:21Z
       
  • HIV cell-to-cell transmission: effects on pathogenesis and antiretroviral
           therapy
    • Abstract: Publication date: Available online 9 March 2015
      Source:Trends in Microbiology
      Author(s): Luis M. Agosto , Pradeep D. Uchil , Walther Mothes
      HIV spreads more efficiently in vitro when infected cells directly contact uninfected cells to form virological synapses. A hallmark of virological synapses is that viruses can be transmitted at a higher multiplicity of infection (MOI) that, in vitro, results in a higher number of proviruses. Whether HIV also spreads by cell–cell contact in vivo is a matter of debate. Here we discuss recent data that suggest that contact-mediated transmission largely manifests itself in vivo as CD4+ T cell depletion. The assault of a cell by a large number of incoming particles is likely to be efficiently sensed by the innate cellular surveillance to trigger cell death. The large number of particles transferred across virological synapses has also been implicated in reduced efficacy of antiretroviral therapies. Thus, antiretroviral therapies must remain effective against the high MOI observed during cell-to-cell transmission to inhibit both viral replication and the pathogenesis associated with HIV infection.


      PubDate: 2015-04-05T05:40:21Z
       
  • Positioning of bacterial chemoreceptors
    • Abstract: Publication date: Available online 2 April 2015
      Source:Trends in Microbiology
      Author(s): Christopher W. Jones , Judith P. Armitage
      For optimum growth, bacteria must adapt to their environment, and one way that many species do this is by moving towards favourable conditions. To do so requires mechanisms to both physically drive movement and provide directionality to this movement. The pathways that control this directionality comprise chemoreceptors, which, along with an adaptor protein (CheW) and kinase (CheA), form large hexagonal arrays. These arrays can be formed around transmembrane receptors, resulting in arrays embedded in the inner membrane, or they can comprise soluble receptors, forming arrays in the cytoplasm. Across bacterial species, chemoreceptor arrays (both transmembrane and soluble) are localised to a variety of positions within the cell; some species with multiple arrays demonstrate this variety within individual cells. In many cases, the positioning pattern of the arrays is linked to the need for segregation of arrays between daughter cells on division, ensuring the production of chemotactically competent progeny. Multiple mechanisms have evolved to drive this segregation, including stochastic self-assembly, cellular landmarks, and the utilisation of ParA homologues. The variety of mechanisms highlights the importance of chemotaxis to motile species.


      PubDate: 2015-04-05T05:40:21Z
       
  • A fantastic voyage for sliding bacteria
    • Abstract: Publication date: Available online 13 March 2015
      Source:Trends in Microbiology
      Author(s): Joshua D. Shrout
      A recent study showed that Salmonella enterica serovar Typhimurium exhibits sliding motility under magnesium-limited conditions. Overall, bacteria that exhibit this passive surface movement described as sliding share few common traits. This discovery provides an opportunity to revisit and better characterize appendage-independent bacterial motility.


      PubDate: 2015-04-05T05:40:21Z
       
  • The great microbial beauty Philosophy of Microbiology by Maureen
           O’Malley, Cambridge University Press, 2014. US$95.00/31.99, hbk/pbk
           (277 pp.) ISBN 978-1-107-62150-3
    • Abstract: Publication date: Available online 22 March 2015
      Source:Trends in Microbiology
      Author(s): Vittorio Capozzi , Pasquale Russo , Giuseppe Spano



      PubDate: 2015-04-05T05:40:21Z
       
  • Detecting virulence and drug-resistance mycobacterial phenotypes in vivo
    • Abstract: Publication date: Available online 20 March 2015
      Source:Trends in Microbiology
      Author(s): Graham S. Timmins
      Bacterial phenotypes are predominantly studied in culture because detection of their specific metabolic pathways in the host is challenging. Development of stable-isotope breath tests, allowing in situ phenotype analyses, may endow diagnostics with new modalities based upon direct monitoring of in vivo microbial metabolism and host–pathogen phenotypic interactions.


      PubDate: 2015-04-05T05:40:21Z
       
  • Are nematodes a missing link in the confounded ecology of the
           entomopathogen Bacillus thuringiensis'
    • Abstract: Publication date: Available online 25 March 2015
      Source:Trends in Microbiology
      Author(s): Lifang Ruan , Neil Crickmore , Donghai Peng , Ming Sun
      Bacillus thuringiensis, which is well known as an entomopathogen, has been accepted by the public as a safe bioinsecticide. The natural ecology of this bacterium has never been particularly clear, with views ranging from it being an obligate pathogen to an opportunist pathogen that can otherwise exist as a soil saprophyte or a plant endophyte. This confusion has recently led to it being considered as an environmental pathogen that has evolved to occupy a diverse set of environmental niches in which it can thrive without needing a host. A significant driving force behind this classification is the fact that B. thuringiensis is found in high numbers in environments that are not occupied by the insect hosts to which it is pathogenic. It is our opinion that the ubiquitous presence of this bacterium in the environment is the result of a variety of vectoring systems, particularly those that include nematodes.


      PubDate: 2015-04-05T05:40:21Z
       
  • Structural biology of the Gram-negative bacterial conjugation systems
    • Abstract: Publication date: Available online 27 March 2015
      Source:Trends in Microbiology
      Author(s): Aravindan Ilangovan , Sarah Connery , Gabriel Waksman
      Conjugation, the process by which plasmid DNA is transferred from one bacterium to another, is mediated by type IV secretion systems (T4SSs). T4SSs are versatile systems that can transport not only DNA, but also toxins and effector proteins. Conjugative T4SSs comprise 12 proteins named VirB1–11 and VirD4 that assemble into a large membrane-spanning exporting machine. Before being transported, the DNA substrate is first processed on the cytoplasmic side by a complex called the relaxosome. The substrate is then targeted to the T4SS for export into a recipient cell. In this review, we describe the recent progress made in the structural biology of both the relaxosome and the T4SS.


      PubDate: 2015-04-05T05:40:21Z
       
  • Signaling and sensory adaptation in Escherichia coli chemoreceptors: 2015
           update
    • Abstract: Publication date: Available online 30 March 2015
      Source:Trends in Microbiology
      Author(s): John S. Parkinson , Gerald L. Hazelbauer , Joseph J. Falke
      Motile Escherichia coli cells track gradients of attractant and repellent chemicals in their environment with transmembrane chemoreceptor proteins. These receptors operate in cooperative arrays to produce large changes in the activity of a signaling kinase, CheA, in response to small changes in chemoeffector concentration. Recent research has provided a much deeper understanding of the structure and function of core receptor signaling complexes and the architecture of higher-order receptor arrays, which, in turn, has led to new insights into the molecular signaling mechanisms of chemoreceptor networks. Current evidence supports a new view of receptor signaling in which stimulus information travels within receptor molecules through shifts in the dynamic properties of adjoining structural elements rather than through a few discrete conformational states.


      PubDate: 2015-04-05T05:40:21Z
       
  • Fate, activity, and impact of ingested bacteria within the human gut
           microbiota
    • Abstract: Publication date: Available online 1 April 2015
      Source:Trends in Microbiology
      Author(s): Muriel Derrien , Johan E.T. van Hylckama Vlieg
      The human gut contains a highly diverse microbial community that is essentially an open ecosystem, despite being deeply embedded within the human body. Food-associated fermentative bacteria, including probiotics, are major sources of ingested bacteria that may temporarily complement resident microbial communities, thus forming part of our transient microbiome. Here, we review data on the fate and activity of ingested bacteria and, in particular, lactobacilli and bifidobacteria in the gastrointestinal (GI) tract and their impact on the composition and metabolism of the gut microbiome with a focus on data from clinical studies. In addition, we discuss the mechanisms involved and the potential impact on the host's health.


      PubDate: 2015-04-05T05:40:21Z
       
  • The power of movement
    • Abstract: Publication date: Available online 2 April 2015
      Source:Trends in Microbiology
      Author(s): Gail Teitzel



      PubDate: 2015-04-05T05:40:21Z
       
  • The role of flagella in Clostridium difficile pathogenicity
    • Abstract: Publication date: Available online 4 February 2015
      Source:Trends in Microbiology
      Author(s): Emma Stevenson , Nigel P. Minton , Sarah A. Kuehne
      Clostridium difficile is widely publicised as a problem in the health-care system. Disruption of the normal gut microbiota by antibiotic therapy allows C. difficile to colonise the colon. On colonisation, C. difficile produces two toxins that lead to disease, with symptoms ranging from mild-to-severe diarrhoea, to fulminant and often fatal pseudomembranous colitis (PMC). How C. difficile establishes initial colonisation of the host is an area of active investigation. Recently there has been increased research into the role of C. difficile flagella in colonisation and adherence. Novel research has also elucidated a more complex role of flagella in C. difficile virulence pertaining to the regulation of toxin gene expression. This review focuses on new insights into the specific role of C. difficile flagella in colonisation and toxin gene expression.


      PubDate: 2015-02-05T07:33:50Z
       
 
 
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