Abstract:
:N6-methyladenosine (m6A) plays important roles in a branch of biological and physiological processes. Accurate identification of m6A sites is especially helpful for understanding their biological functions. Since the wet-lab techniques are still expensive and time-consuming, it's urgent to develop computational methods to identify m6A sites from primary RNA sequences. Although there are some computational methods for identifying m6A sites, no methods whatsoever are available for detecting m6A sites in microbial genomes. In this study, we developed a computational method for identifying m6A sites in Escherichia coli genome. The accuracies obtained by the proposed method are >90% in both 10-fold cross-validation test and independent dataset test, indicating that the proposed method holds the high potential to become a useful tool for the identification of m6A sites in microbial genomes.
journal_name
Front Microbioljournal_title
Frontiers in microbiologyauthors
Zhang J,Feng P,Lin H,Chen Wdoi
10.3389/fmicb.2018.00955subject
Has Abstractpub_date
2018-05-14 00:00:00pages
955issn
1664-302Xjournal_volume
9pub_type
杂志文章abstract::Metacaspases are distant homologs of metazoan caspase proteases, implicated in stress response, and programmed cell death (PCD) in bacteria and phytoplankton. While the few previous studies on metacaspases have relied on cultured organisms and sequenced genomes, no studies have focused on metacaspases in a natural set...
journal_title:Frontiers in microbiology
pub_type: 杂志文章
doi:10.3389/fmicb.2016.01043
更新日期:2016-07-06 00:00:00
abstract::Previous studies had suggested the presence of ammonium oxidizing Thaumarchaeota as well as nitrite oxidizing Bacteria in the subsurface spring called Franz Josef Quelle (FJQ), a slightly radioactive thermal mineral spring with a temperature of 43.6-47°C near the alpine village of Bad Gastein, Austria. The microbiolog...
journal_title:Frontiers in microbiology
pub_type: 杂志文章
doi:10.3389/fmicb.2014.00225
更新日期:2014-05-16 00:00:00
abstract::Traditionally, the shelf-life and safety of foods have been achieved by thermal processing. Low temperature long time and high temperature short time treatments are the most commonly used hurdles for the pasteurization of fluid foods and raw materials. However, the thermal treatments can reduce the product quality and...
journal_title:Frontiers in microbiology
pub_type: 杂志文章,评审
doi:10.3389/fmicb.2016.01132
更新日期:2016-08-03 00:00:00
abstract::Human immunodeficiency virus (HIV) relies heavily on the host cellular machinery for production of viral progeny. To exploit cellular proteins for replication and to overcome host factors with antiviral activity, HIV has evolved a set of regulatory and accessory proteins to shape an optimized environment for its repli...
journal_title:Frontiers in microbiology
pub_type: 杂志文章,评审
doi:10.3389/fmicb.2018.02131
更新日期:2018-09-11 00:00:00
abstract::The association between biofilm-forming microorganisms and prosthetic joint infection influences all aspect of management including approaches to diagnosis, management and prevention. This article will provide an overview of new anti-biofilm strategies for management of prosthetic joint infection. ...
journal_title:Frontiers in microbiology
pub_type: 杂志文章,评审
doi:10.3389/fmicb.2019.00359
更新日期:2019-02-26 00:00:00
abstract::The conserved protein DivIVA is involved in different morphogenetic processes in Gram-positive bacteria. In Bacillus subtilis, the protein localizes to the cell division site and cell poles, and functions as a scaffold for proteins that regulate division site selection, and for proteins that are required for sporulati...
journal_title:Frontiers in microbiology
pub_type: 杂志文章
doi:10.3389/fmicb.2014.00058
更新日期:2014-02-14 00:00:00
abstract::Nisin, an important bacteriocin from Lactococcus lactis subsp., is primarily active against various Gram-positive bacteria. Leucocin C, produced by Leuconostoc carnosum 4010, is a class IIa bacteriocin used to inhibit the growth of Listeria monocytogenes. Because two bacteriocins have different modes of action, the co...
journal_title:Frontiers in microbiology
pub_type: 杂志文章
doi:10.3389/fmicb.2018.00547
更新日期:2018-03-23 00:00:00
abstract::An extended multilocus sequence analysis (MLSA) scheme applicable to the Brucella, an expanding genus that includes zoonotic pathogens that severely impact animal and human health across large parts of the globe, was developed. The scheme, which extends a previously described nine locus scheme by examining sequences a...
journal_title:Frontiers in microbiology
pub_type: 杂志文章
doi:10.3389/fmicb.2016.02049
更新日期:2016-12-21 00:00:00
abstract::Gut -associated microbes ('gut microbiota') impact the nutrition of their hosts, especially in ruminants and pseudoruminants that consume high-cellulose diets. Examples include the pseudoruminant alpaca. To better understand how body site and diet influence the alpaca microbiota, we performed three 16S rRNA gene surve...
journal_title:Frontiers in microbiology
pub_type: 杂志文章
doi:10.3389/fmicb.2018.03334
更新日期:2019-01-18 00:00:00
abstract::Chlorpyrifos (CP) is one of the most widely used organophosphate pesticides in agriculture worldwide, but its extensive use has led to the contamination of various soil and water systems. Microbial bioremediation is considered to be one of the most viable options for the removal of CP from the environment; however, li...
journal_title:Frontiers in microbiology
pub_type: 杂志文章
doi:10.3389/fmicb.2017.00518
更新日期:2017-04-04 00:00:00
abstract::Biological nitrogen fixation plays a crucial role in the nitrogen cycle. An ability to fix atmospheric nitrogen, reducing it to ammonium, was described for multiple species of Bacteria and Archaea. The transcriptional regulatory network for nitrogen fixation was extensively studied in several representatives of the cl...
journal_title:Frontiers in microbiology
pub_type: 杂志文章
doi:10.3389/fmicb.2016.01343
更新日期:2016-08-26 00:00:00
abstract::Penicillium digitatum is the most damaging pathogen provoking green mold in citrus fruit during storage, and there is an urgent need for novel antifungal agents with high efficiency. The aim of this study was to investigate the antifungal effects of peptide thanatin against P. digitatum and the molecular mechanisms. R...
journal_title:Frontiers in microbiology
pub_type: 杂志文章
doi:10.3389/fmicb.2020.606482
更新日期:2020-12-14 00:00:00
abstract::The role of food in human exposure to antimicrobial-resistant bacteria is a growing food safety issue. The contribution of fruits and vegetables eaten raw to this exposure is still unclear. The evaluation of contamination levels of fruits, vegetables and the agricultural environment by third-generation cephalosporin (...
journal_title:Frontiers in microbiology
pub_type: 杂志文章
doi:10.3389/fmicb.2017.01569
更新日期:2017-08-24 00:00:00
abstract::Pestiviruses are highly variable RNA viruses. A growing number of novel pestiviruses has been discovered in domestic and wild species in the last two decades. Recently, a novel atypical porcine pestivirus (APPV) linked with the development of congenital tremor (CT) in neonatal pigs was described in Europe and the Amer...
journal_title:Frontiers in microbiology
pub_type: 杂志文章
doi:10.3389/fmicb.2017.00862
更新日期:2017-05-11 00:00:00
abstract::Acinetobacter baumannii is emerging as a challenging nosocomial pathogen due to its rapid evolution of antibiotic resistance. We report characterization of two novel bacteriophages, PBAB08 and PBAB25, infecting clinically isolated, multidrug-resistant (MDR) A. baumannii strains. Both phages belonged to Myoviridae of C...
journal_title:Frontiers in microbiology
pub_type: 杂志文章
doi:10.3389/fmicb.2018.00696
更新日期:2018-04-10 00:00:00
abstract::Outbreaks of foodborne illnesses linked to fresh fruits and vegetables have been key drivers behind a wide breadth of research aiming to fill data gaps in our understanding of the total ecology of agricultural water sources such as ponds and wells and the relationship of this ecology to foodborne pathogens such as Sal...
journal_title:Frontiers in microbiology
pub_type: 杂志文章
doi:10.3389/fmicb.2020.557289
更新日期:2021-01-08 00:00:00
abstract::Vibrio parahaemolyticus, a halophilic bacterium often found in the marine or estuarine environment is a well-known enteropathogen responsible for foodborne outbreaks associated with seafood. The pathogenic strains of V. parahaemolyticus are marked by the presence of thermostable direct hemoylsin (tdh) and/or TDH relat...
journal_title:Frontiers in microbiology
pub_type: 杂志文章
doi:10.3389/fmicb.2020.00592
更新日期:2020-04-07 00:00:00
abstract::Fusarium head blight (FHB) is a disease of cereal crops caused by trichothecene producing Fusarium species. Trichothecenes, macrocylicic fungal metabolites composed of three fused rings (A-C) with one epoxide functionality, are a class of mycotoxins known to inhibit protein synthesis in eukaryotic ribosomes. These tox...
journal_title:Frontiers in microbiology
pub_type: 杂志文章
doi:10.3389/fmicb.2016.01239
更新日期:2016-08-17 00:00:00
abstract::Since ancient times, even in today's modern world, infectious diseases cause lots of people to die. Infectious organisms, pathogens, cause diseases by physical interactions with human proteins. A thorough analysis of these interspecies interactions is required to provide insights about infection strategies of pathogen...
journal_title:Frontiers in microbiology
pub_type: 杂志文章
doi:10.3389/fmicb.2012.00046
更新日期:2012-02-14 00:00:00
abstract::Several arenaviruses are highly pathogenic to humans, causing hemorrhagic fever. Discovery of anti-arenavirus drug candidates is urgently needed, although the molecular basis of the host- and organ-specific pathogenicity remains to be fully elucidated. The arenavirus Z protein facilitates production of virus-like part...
journal_title:Frontiers in microbiology
pub_type: 杂志文章
doi:10.3389/fmicb.2020.562814
更新日期:2020-09-30 00:00:00
abstract::Anthrax is a zoonotic disease caused by Bacillus anthracis spore-forming bacterium. Since it is primarily a disease of animals, the control in animals, and humans depend on the prevention in livestock, principally cattle, sheep, and goats. Most veterinary vaccines utilize the toxigenic, uncapsulated (pXO1+/pXO2-) B. a...
journal_title:Frontiers in microbiology
pub_type: 杂志文章
doi:10.3389/fmicb.2016.00019
更新日期:2016-01-28 00:00:00
abstract::Understanding the symbiotic performance of rhizobia and responses of plant root systems to mineral nutrient supply will facilitate the development of strategies to enhance effective rhizobia-legume symbioses. Interactive effect of nitrogen (N), phosphorus (P), and magnesium (Mg) on the symbiotic performance of soybean...
journal_title:Frontiers in microbiology
pub_type: 杂志文章
doi:10.3389/fmicb.2018.01000
更新日期:2018-05-23 00:00:00
abstract::Agricultural ponds have a great potential as a means of capture and storage of water for irrigation. However, pond topography (small size, shallow depth) leaves them susceptible to environmental, agricultural, and anthropogenic exposures that may influence microbial dynamics. Therefore, the aim of this project was to ...
journal_title:Frontiers in microbiology
pub_type: 杂志文章
doi:10.3389/fmicb.2018.00792
更新日期:2018-04-24 00:00:00
abstract::Campylobacteriosis is the most frequently reported bacterial food-borne illness in the European Union and contaminated broiler meat is considered the most important source of infection in humans. The aim of the present study was to evaluate real-time PCR (qPCR) and digital PCR (dPCR) for quantification of Campylobacte...
journal_title:Frontiers in microbiology
pub_type: 杂志文章
doi:10.3389/fmicb.2017.00331
更新日期:2017-03-02 00:00:00
abstract::Human settlement of Madagascar traces back to the beginning of the first millennium with the arrival of Austronesians from Southeast Asia, followed by migrations from Africa and the Middle East. Remains of these different cultural, genetic, and linguistic legacies are still present in Madagascar and other islands of t...
journal_title:Frontiers in microbiology
pub_type: 杂志文章
doi:10.3389/fmicb.2020.00711
更新日期:2020-05-11 00:00:00
abstract::Complement is a tightly controlled arm of the innate immune system, facilitating phagocytosis and killing of invading pathogens. Factor H (FH) is the main fluid-phase inhibitor of the alternative pathway. Many pathogens can hijack FH from the host and protect themselves from complement-dependent killing. Candida albic...
journal_title:Frontiers in microbiology
pub_type: 杂志文章
doi:10.3389/fmicb.2018.03319
更新日期:2019-01-15 00:00:00
abstract::Vibrio vulnificus (Vv) is a multi-host pathogenic species currently subdivided into three biotypes (Bts). The three Bts are human-pathogens, but only Bt2 is also a fish-pathogen, an ability that is conferred by a transferable virulence-plasmid (pVvbt2). Here we present a phylogenomic analysis from the core genome of 8...
journal_title:Frontiers in microbiology
pub_type: 杂志文章
doi:10.3389/fmicb.2017.02613
更新日期:2018-01-05 00:00:00
abstract::Emerging evidence suggests that antibodies against merozoite proteins involved in Plasmodium falciparum invasion into the red blood cell (RBC) play an important role in clinical immunity to malaria. The protein family of parasite antigens known as P. falciparum reticulocyte binding protein-like homolog (PfRh) is requi...
journal_title:Frontiers in microbiology
pub_type: 杂志文章
doi:10.3389/fmicb.2014.00314
更新日期:2014-06-30 00:00:00
abstract::Many Gram-negative bacteria use a type VI secretion system (T6SS) for microbial warfare and/or host manipulation. Acinetobacter baumannii is an important nosocomial pathogen and many A. baumannii strains utilize a T6SS to deliver toxic effector proteins to surrounding bacterial cells. These toxic effectors are usually...
journal_title:Frontiers in microbiology
pub_type: 杂志文章
doi:10.3389/fmicb.2019.02440
更新日期:2019-10-30 00:00:00
abstract::A Gram-positive, coccoid, motile, aerobic bacterium, designated strain B12T was isolated from a Jet Propulsion Laboratory spacecraft assembly cleanroom, Pasadena, CA, United States. Strain B12T was resistant to chloramphenicol (100 μg/mL), and is a relatively slow grower (3-5 days optimal). Strain B12T was found to gr...
journal_title:Frontiers in microbiology
pub_type: 杂志文章
doi:10.3389/fmicb.2020.01957
更新日期:2020-08-18 00:00:00