Abstract：
:Although biologists have long recognized the importance of studying evolution to understand the organization of living organisms, only with the development of genomics have evolutionary studies become part of their routine toolkit. Placing genomes into an evolutionary framework has proved useful for understanding the functioning of organisms. It has also substantially increased understanding of the processes by which genomes evolve and led to a re-evaluation of our representation of the diversity and the history of life. In this review, we present some of the most important recent advances and promising leads in the field of microbial evolutionary genomics.
journal_name
Trends Microbioljournal_title
Trends in microbiologyauthors
Abby S,Daubin Vdoi
10.1016/j.tim.2007.01.007subject
Has Abstractpub_date
2007-03-01 00:00:00pages
135-41issue
3eissn
0966-842Xissn
1878-4380pii
S0966-842X(07)00022-4journal_volume
15pub_type
杂志文章,评审abstract：:Insect endogenous retroviruses (IERVs) are present in the genome of several species. Previous studies have shown a relationship between the envelope glycoproteins (Envs) and fusion proteins (FPs) of several baculoviruses. We used this sequence similarity to predict fusion domains in the Envs of IERVs. We suggest that ...
journal_title：Trends in microbiology
pub_type： 杂志文章
doi：10.1016/s0966-842x(03)00119-7
更新日期：2003-06-01 00:00:00
abstract：:The existence of peptidoglycan (PG) in chlamydiae has long been debated. Genome sequencing of members of the Chlamydiaceae family and Protochlamydia amoebophila has uncovered a nearly complete pathway for PG synthesis in these organisms. The recent use of microarray and proteomic analysis methods has revealed that PG ...
journal_title：Trends in microbiology
pub_type： 杂志文章,评审
doi：10.1016/j.tim.2005.12.004
更新日期：2006-02-01 00:00:00
abstract：:Strictly blood-feeding leeches and their limited microbiota provide natural and powerful model systems to examine symbiosis. Blood is devoid of essential nutrients and it is thought that symbiotic bacteria synthesize these for the host. In this review, three distinct leech-microbe associations are described: (i) the m...
journal_title：Trends in microbiology
pub_type： 杂志文章,评审
doi：10.1016/j.tim.2006.06.009
更新日期：2006-08-01 00:00:00
abstract：:Bacteriophages are viruses of bacteria that are used for controlling bacterial food-borne pathogens and have been proposed for more extensive usage in infection control. Protists are now recognised to harbour viruses and virus-like particles. We propose that investigation of their prevalence in parasites be intensifie...
journal_title：Trends in microbiology
pub_type： 杂志文章
doi：10.1016/j.tim.2013.02.006
更新日期：2013-05-01 00:00:00
abstract：:Pathogenic viral infections have exerted selection pressure on their hosts to evolve cellular antiviral inhibitors referred to as restriction factors. Examples of such molecules are APOBEC3G, APOBEC3F and TRIM5alpha. APOBEC3G and APOBEC3F are cytidine deaminases that are able to strongly inhibit retroviral replication...
journal_title：Trends in microbiology
pub_type： 杂志文章,评审
doi：10.1016/j.tim.2008.08.013
更新日期：2008-12-01 00:00:00
abstract：:Microbiology has unraveled rich evidence of ongoing reticulate evolutionary processes and complex interactions both within and between cells. These phenomena feature real biological networks, which can logically be analyzed using network-based tools. It is thus not surprising that network sciences, a field independent...
journal_title：Trends in microbiology
pub_type： 杂志文章,评审
doi：10.1016/j.tim.2019.11.006
更新日期：2020-04-01 00:00:00
abstract：:Several features of HIV have frustrated efforts to develop a vaccine able to induce broadly neutralising antibodies. The enormous genetic diversity of HIV is a major factor, accompanied by the camouflaged nature of the envelope spike, upon which HIV depends for cellular entry and to which antibodies must bind to neutr...
journal_title：Trends in microbiology
pub_type： 杂志文章,评审
doi：10.1016/j.tim.2008.08.008
更新日期：2008-12-01 00:00:00
abstract：:The airways of patients afflicted with cystic fibrosis (CF) are colonized by many pathogens, the most predominant of which is the Gram-negative bacterium Pseudomonas aeruginosa. In the thick CF airway mucus, P. aeruginosa forms antibiotic- and phagocyte-resistant structures known as biofilms, which enable the survival...
journal_title：Trends in microbiology
pub_type： 杂志文章,评审
doi：10.1016/j.tim.2008.12.003
更新日期：2009-03-01 00:00:00
abstract：:Vaccines preventing seasonal influenza infections save many lives every year; however, due to rapid viral evolution, they have to be updated frequently to remain effective. To identify appropriate vaccine strains, the World Health Organization (WHO) operates a global program that continually generates and interprets s...
journal_title：Trends in microbiology
pub_type： 杂志文章,评审
doi：10.1016/j.tim.2017.09.001
更新日期：2018-02-01 00:00:00
abstract：:A holistic approach to understanding the mechanisms by which stress influences the pathogenesis of infectious disease has resulted in the development of the field of microbial endocrinology. This transdisciplinary field represents the intersection of microbiology with mammalian endocrinology and neurophysiology, and i...
journal_title：Trends in microbiology
pub_type： 杂志文章,评审
doi：10.1016/j.tim.2007.11.005
更新日期：2008-02-01 00:00:00
abstract：:ISG15 is an interferon (IFN)-induced ubiquitin-like protein that is conjugated to target proteins via the sequential action of three enzymes that are also induced by IFN. Unlike ubiquitin, which is highly conserved, the sequence of ISG15 varies between species. ISG15 conjugation inhibits many viruses, and free (unconj...
journal_title：Trends in microbiology
pub_type： 杂志文章,评审
doi：10.1016/j.tim.2013.01.005
更新日期：2013-04-01 00:00:00
abstract：:Defensins and cathelicidins are prevalent and essential gastrointestinal cationic antimicrobial peptides (CAPs). However, these defensive peptides are not infallible because certain enteropathogens can overcome their protective function. Furthermore, impaired defensin synthesis has been linked to the occurrence of Cro...
journal_title：Trends in microbiology
pub_type： 杂志文章
doi：10.1016/j.tim.2006.08.008
更新日期：2006-10-01 00:00:00
abstract：:If we took all of the single copy genes in all sequenced genomes, made phylogenetic trees from them individually, and then made the supertree of those trees, what would we get? Recently, David Pisani and colleagues did that experiment and their results are likely to spark much discussion. Their prokaryote tree looks v...
journal_title：Trends in microbiology
pub_type： 杂志文章
doi：10.1016/j.tim.2007.09.001
更新日期：2007-10-01 00:00:00
abstract：:The microbial surface components recognizing adhesive matrix molecules (MSCRAMMs) are a family of proteins that are defined by the presence of two adjacent IgG-like folded subdomains. These promote binding to ligands by mechanisms that involve major conformational changes exemplified by the binding to fibrinogen by th...
journal_title：Trends in microbiology
pub_type： 杂志文章,评审
doi：10.1016/j.tim.2019.06.007
更新日期：2019-11-01 00:00:00
abstract：:Entomopathogenic fungi are attracting attention as potential biological control agents of insect pests. The mechanisms of pathogenesis have parallels with those of some plant-pathogenic fungi, particularly in the areas of formation of an infection structure, entry into the host and toxin-mediated host death. Understan...
journal_title：Trends in microbiology
pub_type： 杂志文章,评审
doi：10.1016/0966-842x(96)10022-6
更新日期：1996-05-01 00:00:00
abstract：:Most membrane-anchored histidine kinases (HKs) of bacterial two-component systems (2CSs) contain an extracellular input domain that is thought to be responsible for sensing an environmental cue. By contrast, intramembrane-sensing HKs (IM-HKs) lack a sensory domain and cannot perceive their stimuli directly. Instead, a...
journal_title：Trends in microbiology
pub_type： 杂志文章
doi：10.1016/j.tim.2014.05.006
更新日期：2014-10-01 00:00:00
abstract：:Human influenza viruses cause regular epidemics and occasional pandemics with a substantial public health burden. Household transmission studies have provided valuable information on the dynamics of influenza transmission. We reviewed published studies and found that once one household member is infected with influenz...
journal_title：Trends in microbiology
pub_type： 杂志文章,评审
doi：10.1016/j.tim.2015.10.012
更新日期：2016-02-01 00:00:00
abstract：:The dramatic clinical manifestations of toxigenic infections such as cholera and diphtheria occur without substantial bacterial invasion. Disease is mediated by the secretion of potent toxins that use ADP-ribosylation as the catalytic mechanism underlying their action. ADP-ribosylating toxins comprise a large family, ...
journal_title：Trends in microbiology
pub_type： 杂志文章,评审
doi：10.1016/s0966-842x(00)01902-8
更新日期：2001-01-01 00:00:00
abstract：:A recent paper by Castilla et al. reported the detection of prions in the blood of scrapie-infected hamsters using a biochemical amplification method that is conceptually analogous to the polymerase chain reaction. This technological advance raises the possibility that prion diseases in humans and livestock could soon...
journal_title：Trends in microbiology
pub_type： 杂志文章
doi：10.1016/j.tim.2006.02.001
更新日期：2006-04-01 00:00:00
abstract：:Phloem transport of endogenous macromolecules and plant viruses remains poorly understood. Selective movement into and out of the phloem is tightly regulated, yet the mechanisms governing this selectivity have not been elucidated. Recent advances in identifying nonviral proteins and nucleic acids with the capacity for...
journal_title：Trends in microbiology
pub_type： 杂志文章,评审
doi：10.1016/s0966-842x(99)01508-5
更新日期：1999-06-01 00:00:00
abstract：:Horizontal gene transfer can provide bacteria with new functions that confer an important competitive advantage, and is therefore likely to affect the dynamics of bacterial ecosystems. Two studies by Wolfe et al. and Bonham et al. prepare the way to study this hypothesis in a model ecosystem with reproducible properti...
journal_title：Trends in microbiology
pub_type： 评论,杂志文章
doi：10.1016/j.tim.2017.07.002
更新日期：2017-09-01 00:00:00
abstract：:Knockout mice with distinct gene deletions are valuable tools for in vivo analyses of the immune response against infectious agents. Studies of bacterial and protozoal infections have shown that antimicrobial immunity is generally defective in knockout mice. At one extreme, deletion of just one gene may completely com...
journal_title：Trends in microbiology
pub_type： 杂志文章,评审
doi：10.1016/0966-842x(94)90628-9
更新日期：1994-07-01 00:00:00
abstract：:Staphylococcus aureus and Staphylococcus epidermidis are a frequent cause of biofilm-associated infections that are a tremendous burden on our healthcare system. Staphylococcal biofilms exhibit extraordinary resistance to antimicrobial killing, limiting the efficacy of antibiotic therapy, and surgical intervention is ...
journal_title：Trends in microbiology
pub_type： 杂志文章,评审
doi：10.1016/j.tim.2011.06.004
更新日期：2011-09-01 00:00:00
abstract：:Hepatitis C virus populations in infected individuals consist of quasispecies with diverse mutations. These quasispecies have different biological properties, and the analysis of these variants has led to new interpretations of viral persistence, carcinogenesis and resistance to interferon therapy. ...
journal_title：Trends in microbiology
pub_type： 杂志文章,评审
doi：10.1016/s0966-842x(00)89000-9
更新日期：1995-11-01 00:00:00
abstract：:The tricorn protease is an archaeal protease that forms massive proteasome-like capsids with a hollow chamber. beta-Propeller and PDZ domains are thought to play a role in substrate selection. By analysis of predicted proteins from novel bacterial genome sequences, we have identified four new bacterial tricorn-like pr...
journal_title：Trends in microbiology
pub_type： 杂志文章
doi：10.1016/s0966-842x(01)02199-0
更新日期：2001-11-01 00:00:00
abstract：:Nguyen et al. used transposon sequencing analysis and competitive colonization assays to describe how aspartate/malate can trigger initial Salmonella Typhimurium gut-lumen colonization in mice, providing insight into the significance of certain key metabolites beyond the realm of Salmonella life. Metabolite-driven dia...
journal_title：Trends in microbiology
pub_type： 评论,杂志文章
doi：10.1016/j.tim.2020.06.007
更新日期：2020-09-01 00:00:00
abstract：:The capacity to injure infected cells is a widespread property of viruses. Usually, this cytopathic effect (CPE) is ascribed to viral hijacking of cellular resources to fulfill viral needs. However, evidence is accumulating that CPE is not necessarily directly coupled to viral reproduction but may largely be due to ho...
journal_title：Trends in microbiology
pub_type： 杂志文章,评审
doi：10.1016/j.tim.2012.09.003
更新日期：2012-12-01 00:00:00
abstract：:DNA damage that blocks the transcription of genes is prioritized for repair by transcription-coupled DNA repair pathways. RNA polymerases stalled at DNA lesions obstruct repair enzymes, but this situation is turned to the advantage of the cell by transcription-repair coupling factors that remove the stalled RNA polyme...
journal_title：Trends in microbiology
pub_type： 杂志文章
doi：10.1016/j.tim.2007.05.005
更新日期：2007-07-01 00:00:00
abstract：:The ubiquitin-26S proteasome degradation system (UPS) plays a pivotal role in almost all aspects of plant life, including defending against pathogens. Although the proteasome is important for plant immunity, it has been found to be also exploited by pathogens using effectors to increase their virulence. Recent work on...
journal_title：Trends in microbiology
pub_type： 杂志文章,评审
doi：10.1016/j.tim.2013.10.010
更新日期：2014-01-01 00:00:00
abstract：:Over the past two decades infections due to antibiotic-resistant bacteria have escalated world-wide, affecting patient morbidity, mortality, and health care costs. Among these bacteria, Enterococcus faecium and Enterococcus faecalis represent opportunistic nosocomial pathogens that cause difficult-to-treat infections ...
journal_title：Trends in microbiology
pub_type： 杂志文章,评审
doi：10.1016/j.tim.2017.01.004
更新日期：2017-06-01 00:00:00
