Abstract：
:The deterministic force of natural selection and stochastic influence of drift shape RNA virus evolution. New deep-sequencing and microfluidics technologies allow us to quantify the effect of mutations and trace the evolution of viral populations with single-genome and single-nucleotide resolution. Such experiments can reveal the topography of the genotype-fitness landscapes that shape the path of viral evolution. By combining historical analyses, like phylogenetic approaches, with high-throughput and high-resolution evolutionary experiments, we can observe parallel patterns of evolution that drive important phenotypic transitions. These developments provide a framework for quantifying and anticipating potential evolutionary events. Here, we examine emerging technologies that can map the selective landscapes of viruses, focusing on their application to pathogenic viruses. We identify areas where these technologies can bolster our ability to study the evolution of viruses and to anticipate and possibly intervene in evolutionary events and prevent viral disease.
journal_name
Cell Host Microbejournal_title
Cell host & microbeauthors
Dolan PT,Whitfield ZJ,Andino Rdoi
10.1016/j.chom.2018.03.012subject
Has Abstractpub_date
2018-04-11 00:00:00pages
435-446issue
4eissn
1931-3128issn
1934-6069pii
S1931-3128(18)30141-0journal_volume
23pub_type
杂志文章,评审abstract：:RIG-I detects double-stranded RNA (dsRNA) to trigger antiviral cytokine production. Protein deamidation is emerging as a post-translational modification that chiefly regulates protein function. We report here that UL37 of herpes simplex virus 1 (HSV-1) is a protein deamidase that targets RIG-I to block RNA-induced act...
journal_title：Cell host & microbe
pub_type： 杂志文章
doi：10.1016/j.chom.2016.10.011
更新日期：2016-12-14 00:00:00
abstract：:The life cycle of several viruses involves host or virally encoded small noncoding RNAs, which play important roles in posttranscriptional regulation. Small noncoding RNAs include microRNAs (miRNAs), which modulate the transcriptome, and small interfering RNAs (siRNAs), which are involved in pathogen defense in plants...
journal_title：Cell host & microbe
pub_type： 杂志文章
doi：10.1016/j.chom.2012.05.019
更新日期：2012-08-16 00:00:00
abstract：:Many Rickettsia species are intracellular bacterial pathogens that use actin-based motility for spread during infection. However, while other bacteria assemble actin tails consisting of branched networks, Rickettsia assemble long parallel actin bundles, suggesting the use of a distinct mechanism for exploiting actin. ...
journal_title：Cell host & microbe
pub_type： 杂志文章
doi：10.1016/j.chom.2010.04.008
更新日期：2010-05-20 00:00:00
abstract：:In this issue of Cell Host & Microbe, two papers by Osuna et al. describe the characterization of AcrIIA1, an anti-CRISPR protein distributed widely among Listeria phages. AcrIIA1 functions as an anti-CRISPR and as a dynamic repressor of acr loci, suggesting it may play an important role in lysogeny. ...
journal_title：Cell host & microbe
pub_type： 评论,杂志文章
doi：10.1016/j.chom.2020.06.016
更新日期：2020-07-08 00:00:00
abstract：:Complement, a complex system of serum proteins, contributes to host defense through multiple mechanisms. In this issue of Cell Host & Microbe, Sorbara et al. (2018) discovered that cytosolic pathogens opsonized by complement are restricted by autophagy. This unexpected role for complement is important for cell-autonom...
journal_title：Cell host & microbe
pub_type： 评论,杂志文章
doi：10.1016/j.chom.2018.04.010
更新日期：2018-05-09 00:00:00
abstract：:Hepatitis C virus genome replication occurs in endoplasmic reticulum-derived membrane compartments, but it is unknown how these structures arise. In this issue of Cell Host & Microbe, Reiss and colleagues (2011) show that the virus recruits a specific lipid kinase to replication sites, stimulates its kinase activity, ...
journal_title：Cell host & microbe
pub_type： 评论,杂志文章
doi：10.1016/j.chom.2011.01.002
更新日期：2011-01-20 00:00:00
abstract：:Modification of the intestinal microbiome is an emerging target to improve health and prevent or treat a number of diseases. In this issue of Cell Host & Microbe, Maldonado-Gómez et al. (2016) uncover the basic principles that govern the successful establishment and persistence of an exogenously introduced gut bacteri...
journal_title：Cell host & microbe
pub_type： 评论,杂志文章
doi：10.1016/j.chom.2016.09.012
更新日期：2016-10-12 00:00:00
abstract：:Polysaccharide A (PSA), the archetypical immunomodulatory molecule of the gut commensal Bacteroides fragilis, induces regulatory T cells to secrete the anti-inflammatory cytokine interleukin-10 (IL-10). The cellular mediators of PSA's immunomodulatory properties are incompletely understood. In a mouse model of colitis...
journal_title：Cell host & microbe
pub_type： 杂志文章
doi：10.1016/j.chom.2014.03.006
更新日期：2014-04-09 00:00:00
abstract：:The liver-specific microRNA, miR-122, stabilizes hepatitis C virus (HCV) RNA genomes by recruiting host argonaute 2 (AGO2) to the 5' end and preventing decay mediated by exonuclease Xrn1. However, HCV replication requires miR-122 in Xrn1-depleted cells, indicating additional functions. We show that miR-122 enhances HC...
journal_title：Cell host & microbe
pub_type： 杂志文章
doi：10.1016/j.chom.2014.12.014
更新日期：2015-02-11 00:00:00
abstract：:Live attenuated vaccines remain the safest, most cost-effective intervention against viral infections. Because live vaccine strains are generated empirically and the basis for attenuation is usually ill defined, many important viruses lack an efficient live vaccine. Here, we present a general strategy for the rational...
journal_title：Cell host & microbe
pub_type： 杂志文章
doi：10.1016/j.chom.2008.08.003
更新日期：2008-09-11 00:00:00
abstract：:The switch from culture-based enumeration to deep sequencing has enabled microbial community composition to be profiled en masse. In a new article, Maurice et al. (2013) report the use of fluorescence-activated cell sorting (FACS) to perform a high-throughput analysis of gut microbiota community function. ...
journal_title：Cell host & microbe
pub_type： 评论,杂志文章
doi：10.1016/j.chom.2013.01.011
更新日期：2013-02-13 00:00:00
abstract：:In addition to classically defined immune mechanisms, cell-intrinsic processes can restrict virus infection and have shaped virus evolution. The details of this virus-host interaction are still emerging. Following a genome-wide siRNA screen for host factors affecting replication of Semliki Forest virus (SFV), a positi...
journal_title：Cell host & microbe
pub_type： 杂志文章
doi：10.1016/j.chom.2014.08.007
更新日期：2014-09-10 00:00:00
abstract：:The transitional epithelium of the bladder normally turns over slowly but upon injury undergoes rapid regeneration fueled by basal uroepithelial stem and/or early progenitor cells (USCs). Little is known about the mechanisms underlying the injury response. We investigate the mechanism of bladder epithelial regeneratio...
journal_title：Cell host & microbe
pub_type： 杂志文章
doi：10.1016/j.chom.2009.04.005
更新日期：2009-05-08 00:00:00
abstract：:Variant surface antigens play an important role in Plasmodium falciparum malaria pathogenesis and in immune evasion by the parasite. Although most work to date has focused on P. falciparum Erythrocyte Membrane Protein 1 (PfEMP1), two other multigene families encoding STEVOR and RIFIN are expressed in invasive merozoit...
journal_title：Cell host & microbe
pub_type： 杂志文章
doi：10.1016/j.chom.2014.06.004
更新日期：2014-07-09 00:00:00
abstract：:Intraerythrocytic malaria parasites send hundreds of effector proteins into the host cell. Diverse modes of export have been proposed for different proteins. In this issue, Grüring et al. (2012) present findings that bring the models together. ...
journal_title：Cell host & microbe
pub_type： 评论,杂志文章
doi：10.1016/j.chom.2012.11.001
更新日期：2012-11-15 00:00:00
abstract：:Defensins are naturally occurring antimicrobial peptides that disrupt bacterial membranes and prevent bacterial invasion of the host. Emerging studies indicate that certain defensins also block virus infection; however, the mechanism(s) involved are poorly understood. We demonstrate that human alpha-defensins inhibit ...
journal_title：Cell host & microbe
pub_type： 杂志文章
doi：10.1016/j.chom.2007.12.001
更新日期：2008-01-17 00:00:00
abstract：:Hepatitis C virus (HCV) vaccine efforts are hampered by the extensive genetic diversity of HCV envelope glycoproteins E1 and E2. Structures of broadly neutralizing antibodies (bNAbs) (e.g., HEPC3, HEPC74) isolated from individuals who spontaneously cleared HCV infection facilitate immunogen design to elicit antibodies...
journal_title：Cell host & microbe
pub_type： 杂志文章
doi：10.1016/j.chom.2018.10.009
更新日期：2018-11-14 00:00:00
abstract：:Anti-helminth immunity involves CD4+ T cells, yet the precise effector mechanisms responsible for parasite killing or expulsion remain elusive. We now report an essential role for antibodies in mediating immunity against the enteric helminth Heligmosomoides polygyrus (Hp), a natural murine parasite that establishes ch...
journal_title：Cell host & microbe
pub_type： 杂志文章
doi：10.1016/j.chom.2008.08.014
更新日期：2008-10-16 00:00:00
abstract：:In this issue of Cell Host & Microbe, Jia et al. used a vesicular stomatitis virus-based probe to isolate B cells expressing broadly neutralizing HIV-1 antibodies. Besides identifying neutralizing epitopes, this study highlights potential protection afforded by IgA arising from either direct IgM-to-IgA or sequential I...
journal_title：Cell host & microbe
pub_type： 评论,杂志文章
doi：10.1016/j.chom.2020.05.017
更新日期：2020-06-10 00:00:00
abstract：:Commensal bacteria are known to provide colonization resistance in the gut. But exactly which ones provide this function? In a recent paper in Science, Kim et al. (2017) revealed that Clostridia added to mouse infant gut microbiota are sufficient to limit colonization of pathogenic Enterobacteriaceae. ...
journal_title：Cell host & microbe
pub_type： 杂志文章
doi：10.1016/j.chom.2017.06.002
更新日期：2017-06-14 00:00:00
abstract：:Genome degradation correlates with host adaptation and systemic disease in Salmonella. Most lineages of the S. enterica subspecies Typhimurium cause gastroenteritis in humans; however, the recently emerged ST313 lineage II pathovar commonly causes systemic bacteremia in sub-Saharan Africa. ST313 lineage II displays ge...
journal_title：Cell host & microbe
pub_type： 杂志文章
doi：10.1016/j.chom.2017.01.009
更新日期：2017-02-08 00:00:00
abstract：:Efficient nutrient acquisition in the human gut is essential for microbial persistence. Although polysaccharides have been well-studied nutrients for the gut microbiome, other resources such as nucleic acids and nucleosides are less studied. We describe several ribose-utilization systems (RUSs) that are broadly repres...
journal_title：Cell host & microbe
pub_type： 杂志文章
doi：10.1016/j.chom.2019.11.009
更新日期：2020-01-08 00:00:00
abstract：:The ecological dynamics underlying the coexistence between antagonistic populations of bacteria and their viruses, bacteriophages (phages), in the mammalian gut microbiota remain poorly understood. We challenged a murine synthetic bacterial community with phages to study the factors allowing phages-bacteria coexistenc...
journal_title：Cell host & microbe
pub_type： 杂志文章
doi：10.1016/j.chom.2020.06.002
更新日期：2020-09-09 00:00:00
abstract：:In an era of increasing antibiotic resistance, growing clinical need for new drugs, and few lead molecules, new research is helping to identify new targets and the mechanism of action of lead molecules. ...
journal_title：Cell host & microbe
pub_type： 杂志文章
doi：10.1016/j.chom.2009.08.009
更新日期：2009-09-17 00:00:00
abstract：:Influenza A virus hemagglutinin (HA) initiates viral entry by engaging host receptor sialylated glycans via its receptor-binding site (RBS). The amino acid sequence of the RBS naturally varies across avian and human influenza virus subtypes and is also evolvable. However, functional sequence diversity in the RBS has n...
journal_title：Cell host & microbe
pub_type： 杂志文章
doi：10.1016/j.chom.2017.05.011
更新日期：2017-06-14 00:00:00
abstract：:The intestinal microbiota, which is composed of bacteria, viruses, and micro-eukaryotes, acts as an accessory organ system with distinct functions along the intestinal tract that are critical for health. This review focuses on how the microbiota drives intestinal disease through alterations in microbial community arch...
journal_title：Cell host & microbe
pub_type： 杂志文章,评审
doi：10.1016/j.chom.2015.04.008
更新日期：2015-05-13 00:00:00
abstract：:Intracellular pathogens manipulate host organelles to support replication within cells. For Legionella pneumophila, the bacterium translocates proteins that establish an endoplasmic reticulum (ER)-associated replication compartment. We show here that the bacterial Sde proteins target host reticulon 4 (Rtn4) to control...
journal_title：Cell host & microbe
pub_type： 杂志文章
doi：10.1016/j.chom.2016.12.007
更新日期：2017-02-08 00:00:00
abstract：:Horizontal gene transfer (HGT) facilitates spead of antibiotic resistance elements. In this issue of Cell Host & Microbe, Domenech et al. discover that compounds disrupting proton motive force block natural competence (COM) and interrupt intraspecies HGT and exchange of antibiotic resistance. Such strategies might min...
journal_title：Cell host & microbe
pub_type： 评论,杂志文章
doi：10.1016/j.chom.2020.03.013
更新日期：2020-04-08 00:00:00
abstract：:Pathogens commonly utilize endocytic pathways to gain cellular access. The endosomal pattern recognition receptors TLR7 and TLR9 detect pathogen-encoded nucleic acids to initiate MyD88-dependent proinflammatory responses to microbial infection. Using genome-wide RNAi screening and integrative systems-based analysis, w...
journal_title：Cell host & microbe
pub_type： 杂志文章
doi：10.1016/j.chom.2012.02.002
更新日期：2012-03-15 00:00:00
abstract：:Antibiotic-mediated microbiota destruction and the consequent loss of colonization resistance can result in intestinal domination with vancomycin-resistant Enterococcus (VRE), leading to bloodstream infection in hospitalized patients. Clearance of VRE remains a challenging goal that, if achieved, would reduce systemic...
journal_title：Cell host & microbe
pub_type： 杂志文章
doi：10.1016/j.chom.2017.04.002
更新日期：2017-05-10 00:00:00
