Abstract:
:Single cell genomics (SCG) uncovers hereditary information at the most basic level of biological organization. It is emerging as a powerful complement to cultivation-based and microbial community-focused research approaches. SCG has been instrumental in identifying metabolic features, evolutionary histories and inter-organismal interactions of the uncultured microbial groups that dominate many environments and biogeochemical cycles. The SCG approach also holds great promise in microbial microevolution studies and industrial bioprospecting. Methods for SCG consist of a series of integrated processes, beginning with the collection and preservation of environmental samples, followed by physical separation, lysis and whole genome amplification of individual cells, and culminating in genomic sequencing and the inference of encoded biological features.
journal_name
Curr Opin Microbioljournal_title
Current opinion in microbiologyauthors
Stepanauskas Rdoi
10.1016/j.mib.2012.09.001subject
Has Abstractpub_date
2012-10-01 00:00:00pages
613-20issue
5eissn
1369-5274issn
1879-0364pii
S1369-5274(12)00116-6journal_volume
15pub_type
杂志文章,评审abstract::Dectin-1 is an innate immune pattern recognition receptor (PRR) that, through its ability to bind β-glucans, is involved in the recognition of several pathogenic fungi. Dectin-1 can stimulate a variety of cellular responses via the Syk/CARD9 signalling pathway, including phagocytosis, cytokine production and the respi...
journal_title:Current opinion in microbiology
pub_type: 杂志文章,评审
doi:10.1016/j.mib.2011.07.001
更新日期:2011-08-01 00:00:00
abstract::A combination of structural, biochemical and functional studies with the flavivirus tick-borne encephalitis virus has revealed the characteristics of a new class of viral fusion protein, class II, that is unrelated to the class I viral fusion proteins for which influenza virus hemagglutinin is the prototype. New struc...
journal_title:Current opinion in microbiology
pub_type: 杂志文章,评审
doi:10.1016/s1369-5274(00)00234-4
更新日期:2001-08-01 00:00:00
abstract::Membrane shape is functionally linked with many cellular processes. The limiting membrane of vacuoles containing Toxoplasma gondii and Plasmodium apicomplexan parasites lies at the host-parasite interface. This membrane comprises intra-vacuolar and extra-vacuolar tubulo-vesicular deformations, which influence host-par...
journal_title:Current opinion in microbiology
pub_type: 杂志文章,评审
doi:10.1016/j.mib.2017.11.013
更新日期:2017-12-01 00:00:00
abstract::Type III secretion is a mechanism of protein export in bacteria, by which proteins (termed effectors) are exported from the bacteria to the external environment. One topic that has escaped much attention is the potential link between the secretion of effectors and transcriptional regulation of genes encoding the effec...
journal_title:Current opinion in microbiology
pub_type: 杂志文章,评审
doi:10.1016/s1369-5274(02)00303-x
更新日期:2002-04-01 00:00:00
abstract::In response to starvation, myxobacteria build multicellular fruiting bodies that contain many thousands of cells and that have particular species-specific shapes. To coordinate fruiting body development, the myxobacterial cells signal to each other. The timing of and cellular responses to these signals help to give fo...
journal_title:Current opinion in microbiology
pub_type: 杂志文章,评审
doi:10.1016/s1369-5274(98)80112-4
更新日期:1998-12-01 00:00:00
abstract::Since the past decades, oligosaccharides are considered for their potential biological activities. To exploit them, it was essential to obtain pure molecules in large amounts. Several strategies were developed to produce specific sugar sequences with specific substitution patterns from land plants and algae polysaccha...
journal_title:Current opinion in microbiology
pub_type: 杂志文章,评审
doi:10.1016/j.mib.2009.04.007
更新日期:2009-06-01 00:00:00
abstract::Sexual development in filamentous ascomycetes requires mating-type genes to mediate recognition of compatible cell and nuclear types. Characterization of mating-type genes from various fungi shows that they primarily encode transcriptional regulators. Recent studies on mating-type-specific pheromones and internuclear ...
journal_title:Current opinion in microbiology
pub_type: 杂志文章,评审
doi:10.1016/s1369-5274(00)00073-4
更新日期:2000-04-01 00:00:00
abstract::The eukaryotic unicellular pathogen Plasmodium falciparum tightly regulates gene expression, both during development and in adaptation to dynamic host environments. This regulation is evident in the mutually exclusive expression of members of clonally variant virulence multigene families. While epigenetic regulators h...
journal_title:Current opinion in microbiology
pub_type: 杂志文章,评审
doi:10.1016/j.mib.2014.06.013
更新日期:2014-08-01 00:00:00
abstract::The DNA-binding domains of eucaryotic GATA factors comprise a four-cysteine Zn finger and an adjacent basic region. Fungal GATA factors regulate nitrogen metabolism, light induction, siderophore biosynthesis and mating-type switching. Hydrophobic interactions determine binding-site specificity. Interactions with other...
journal_title:Current opinion in microbiology
pub_type: 杂志文章,评审
doi:10.1016/s1369-5274(00)00063-1
更新日期:2000-04-01 00:00:00
abstract::It is well accepted that bacterial pathogens growing in a biofilm are recalcitrant to the action of most antibiotics and are resistant to the innate immune system. New treatment modalities are greatly warranted to effectively eradicate these infections. However, bacteria growing in a biofilm are metabolically unique i...
journal_title:Current opinion in microbiology
pub_type: 杂志文章,评审
doi:10.1016/j.mib.2010.09.007
更新日期:2010-10-01 00:00:00
abstract::Host social interactions can provide multiple complex pathways for microbial transmission. Here, we suggest non-human primates as models to study the social transmission of commensal or mutualistic microbes due to their high sociality, wide range of group compositions and dominance structures, and diverse group intera...
journal_title:Current opinion in microbiology
pub_type: 杂志文章,评审
doi:10.1016/j.mib.2019.09.001
更新日期:2019-08-01 00:00:00
abstract::The yeast Saccharomyces cerevisiae senses and responds to nutrients by adapting its growth rate and undergoing morphogenic transitions to ensure survival. The Tor pathway is a major integrator of nutrient-derived signals that in coordination with other signaling pathways orchestrates cell growth. Recent advances have ...
journal_title:Current opinion in microbiology
pub_type: 杂志文章,评审
doi:10.1016/j.mib.2008.02.013
更新日期:2008-04-01 00:00:00
abstract::In filamentous fungi, the actin cytoskeleton is required for polarity establishment and maintenance at hyphal tips and for formation of a contractile ring at sites of septation. Recently, formins have been identified as Arp (actin-related protein) 2/3-independent nucleators of actin polymerization, and filamentous fun...
journal_title:Current opinion in microbiology
pub_type: 杂志文章,评审
doi:10.1016/j.mib.2003.10.009
更新日期:2003-12-01 00:00:00
abstract::Quorum sensing is an important mechanism for the regulation of genes in many Gram-negative and Gram-positive bacteria. In the opportunistic pathogen Pseudomonas aeruginosa, the absence of one or more components of the quorum-sensing system results in a significant reduction in virulence. Recent advances in the past ye...
journal_title:Current opinion in microbiology
pub_type: 杂志文章,评审
doi:10.1016/s1369-5274(03)00008-0
更新日期:2003-02-01 00:00:00
abstract::In the study of transmembrane transport, molecular phylogeny provides a reliable guide to protein structure, catalytic and noncatalytic transport mechanisms, mode of energy coupling and substrate specificity. It also allows prediction of the evolutionary history of a transporter family, leading to estimations of its a...
journal_title:Current opinion in microbiology
pub_type: 杂志文章
doi:10.1016/s1369-5274(99)00016-8
更新日期:1999-10-01 00:00:00
abstract::The 21st century has seen the licensure of new anti-infective vaccines that have demonstrated their benefit for both individual and population (herd) protection. Despite this there are still many human pathogens for which no vaccine is available. As we learn more about these pathogens, and as technologies advance, mor...
journal_title:Current opinion in microbiology
pub_type: 杂志文章,评审
doi:10.1016/j.mib.2015.07.006
更新日期:2015-10-01 00:00:00
abstract::Inflammasomes - molecular platforms for caspase-1 activation - have emerged as common hubs for a number of pathways that detect and respond to bacterial pathogens. Caspase-1 activation results in the secretion of bioactive IL-1β and IL-18 and pyroptosis, and thus launches a systemic immune and inflammatory response. I...
journal_title:Current opinion in microbiology
pub_type: 杂志文章,评审
doi:10.1016/j.mib.2014.10.008
更新日期:2015-02-01 00:00:00
abstract::Microbial growth can be characterized by a limited set of macroscopic parameters such as growth rate, biomass yield and substrate affinity. Different culturing protocols for laboratory evolution have been developed to select mutant strains that have one specific macroscopic growth parameter improved. Some of those mut...
journal_title:Current opinion in microbiology
pub_type: 杂志文章,评审
doi:10.1016/j.mib.2016.03.007
更新日期:2016-06-01 00:00:00
abstract::Since the publication of the complete genome sequence of Mycobacterium tuberculosis in 1998, there has been a marked intensification and diversification of activities in the field of tuberculosis research. Among the areas that have advanced spectacularly are comparative genomics, functional genomics-notably the study ...
journal_title:Current opinion in microbiology
pub_type: 杂志文章,评审
doi:10.1016/s1369-5274(00)00160-0
更新日期:2001-02-01 00:00:00
abstract::Human cytomegalovirus (HCMV) is a clinically significant herpes virus that maintains a lifelong infection in the host. HCMV infection of endothelial cells and macrophages plays an important role in the establishment of latency and persistence, which appears critical for the maintenance of HCMV within the host. HCMV in...
journal_title:Current opinion in microbiology
pub_type: 杂志文章,评审
doi:10.1016/s1369-5274(02)00334-x
更新日期:2002-08-01 00:00:00
abstract::In this paper, we discuss recent advances in our knowledge of the dengue virus life cycle based on new structural data of the virus and its proteins. Specifically, we focus on the structure of the pre-membrane protein, prM and its role in virus assembly, the first full-length structure of a multi-domain dengue virus r...
journal_title:Current opinion in microbiology
pub_type: 杂志文章,评审
doi:10.1016/j.mib.2008.06.004
更新日期:2008-08-01 00:00:00
abstract::Integrative and conjugative elements (ICEs) are nearly ubiquitous in microbial genomes and influence their evolution by providing adaptive functions to their host and by enhancing genome plasticity and diversification. For a long-time, it has been assumed that by integrating into the chromosome of their host, these se...
journal_title:Current opinion in microbiology
pub_type: 杂志文章,评审
doi:10.1016/j.mib.2017.03.014
更新日期:2017-08-01 00:00:00
abstract::Research into the mechanisms regulating bacterial cell size has its origins in a single paper published over 50 years ago. In it Schaechter and colleagues made the observation that the chemical composition and size of a bacterial cell is a function of growth rate, independent of the medium used to achieve that growth ...
journal_title:Current opinion in microbiology
pub_type: 杂志文章,评审
doi:10.1016/j.mib.2015.01.011
更新日期:2015-04-01 00:00:00
abstract::Complete and partial genome sequence information is underway in several parasitic and symbiotic fungi that infect humans, other animals and plants. Comparative analyses of these sequences will provide new insights into the genomic plasticity and evolution of parasitism and mutualism in fungi. ...
journal_title:Current opinion in microbiology
pub_type: 杂志文章,评审
doi:10.1016/s1369-5274(02)00355-7
更新日期:2002-10-01 00:00:00
abstract::The historical paradigm of the deep ocean as a biological 'desert' has shifted to one of a 'rainforest' owing to the isolation of many novel microbes and their associated bioactive compounds. Recently, there has been an explosion of information about novel bioactive compounds that have been isolated from marine microb...
journal_title:Current opinion in microbiology
pub_type: 杂志文章,评审
doi:10.1016/j.mib.2005.04.008
更新日期:2005-06-01 00:00:00
abstract::Much progress has been made in recent years in the investigation of the interplay between HIV-1 and its host cells. Most of these interactions are complex and have not yet been fully unraveled. Nevertheless, current knowledge on the molecular interactions between HIV and host-cell factors has substantially broadened o...
journal_title:Current opinion in microbiology
pub_type: 杂志文章,评审
doi:10.1016/j.mib.2004.06.002
更新日期:2004-08-01 00:00:00
abstract::Virulence associated protein type III secretion systems (T3SSs) are intricately structured organic nanosyringes that achieve the translocation of bacterial proteins from the prokaryotic cytoplasm across three membranes into the host cytosol. The substrates for these systems number in the hundreds, with remarkably dive...
journal_title:Current opinion in microbiology
pub_type: 杂志文章,评审
doi:10.1016/j.mib.2009.11.001
更新日期:2010-02-01 00:00:00
abstract::Molecular phylogenetic studies reveal that many endosymbioses between bacteria and invertebrate hosts result from ancient infections followed by strict vertical transmission within host lineages. Endosymbionts display a distinctive constellation of genetic properties including AT-biased base composition, accelerated s...
journal_title:Current opinion in microbiology
pub_type: 杂志文章,评审
doi:10.1016/s1369-5274(00)00088-6
更新日期:2000-06-01 00:00:00
abstract::Antisense technology has been widely used to regulate gene expression. A tetracycline (tet)-regulated antisense-RNA-expressing system has been developed and used to downregulate chromosomally derived genes expressed in Staphylococcus aureus. This downregulation subsequently provides an evaluation of the virulence fact...
journal_title:Current opinion in microbiology
pub_type: 杂志文章,评审
doi:10.1016/s1369-5274(02)00315-6
更新日期:2002-06-01 00:00:00
abstract::Mosquitoes are the major arthropod vectors of human diseases such as malaria and viral encephalitis. However, each mosquito species does not transmit every pathogen, owing to reasons that include specific evolutionary histories, mosquito immune system structure, and ecology. Even a competent vector species for a patho...
journal_title:Current opinion in microbiology
pub_type: 杂志文章,评审
doi:10.1016/j.mib.2012.04.001
更新日期:2012-06-01 00:00:00