• rRNA
  • An extensive reclassification of families and orders of the class based on a polyphasic analysis (including 16S rRNA gene analyses and 53-protein ribosomal protein concatamer analyses using the rMLST Multilocus sequence typing system) was published in 2017, that removed the order Hydrogenophilales from the class and into a novel class of the "Proteobacteria", the Hydrogenophilalia. (wikipedia.org)
  • A number of studies have defined C. concisus to be composed of two phenotypically identical, yet genomically distinct genomospecies by analysis of amplified fragment length polymorphisms (AFLP), housekeeping genes and a PCR method targeting the polymorphisms of C. concisus 23S rRNA gene. (wikipedia.org)
  • gene
  • The housekeeping gene sequences were provided from the ongoing sequencing project of B. unamae MTl-641 T , B. tuberum STM678 T , B. silvatlantica SRMrh-20 T , and B. silvatlantica PVA5 from a project, funded in part by the U.S. National Science Foundation (Grant IOB-0537497) to George Weinstock (Washington University, St. Louis, MO) and AMH. (springer.com)
  • Ait-Tayeb L, Lefevre M, Passet V, Diancourt L, Brisse S, Grimont PAD (2008) Comparative phylogenies of Burkholderia , Ralstonia , Comamonas , Brevundimonas and related organism derived from rpoB , gyrB and rrs gene sequences. (springer.com)
  • Approximately 450-500 bp internal fragments of each gene are used, as these can be accurately sequenced on both strands using an automated DNA sequencer. (wikipedia.org)
  • In the data collection step, definitive identification of variation is obtained by nucleotide sequence determination of gene fragments. (wikipedia.org)
  • comprises
  • The genus comprises two species, Salmonella bongori and Salmonella enterica, the latter of which is divided into six subspecies: S. e. enterica, S. e. salamae, S. e. arizonae, S. e. diarizonae, S. e. houtenae, and S. e. indica. (wikipedia.org)
  • The four orders of the Betaproteobactera are sub-divided into families: Burkholderiales (type order) comprises the families Burkholderiacae (type family), Alcaliginaceae, Commamonadaceae, Oxalobacteraceae and Stutterellaceae. (wikipedia.org)
  • Both heterotrophs and photoheterotrophs are found along with some facultative autotrophs.Neisseriales comprises the families Neisseriaceae (type family) and Chromobacteriaceae. (wikipedia.org)
  • Most organisms are heterotrophs with some facultative methylotrophs and chemolithoheterotrophs.Nitrosomonadales comprises the families Nitrosomonadaceae (type family), Methylophilacae, Thiobacillaceae, Sterolibacteriacae, Spirillaceae and Gallionellaceae. (wikipedia.org)
  • Most organisms are chemolithoautotrophs with some methylotrophs and heterotrophsRhodocyclales comprises the families Rhodocyclaceae (type family), Azonexaceae and Zoogloeaceae. (wikipedia.org)
  • Cronobacter
  • Cronobacter is a genus of Gram-negative, facultatively anaerobic, oxidase-negative, catalase-positive, rod-shaped bacteria of the family Enterobacteriaceae. (wikipedia.org)
  • The genome of one strain of Cronobacter sakazakii (BAA-894) has been sequenced and annotated. (wikipedia.org)
  • However, multilocus sequence typing has shown that the majority of neonatal meningitis cases in the past 30 years, across 6 countries have been associated with only one genetic lineage of the species Cronobacter sakazakii called 'Sequence Type 4' or 'ST4', and therefore this clone appears to be of greatest concern with infant infections. (wikipedia.org)
  • Genetic and biochemical analysis has most recently shown that Cronobacter turicensis is not actually a member of the Cronobacter species and a new genus Siccibacter has been proposed. (wikipedia.org)
  • This resulted in the classification of E. sakazakii as a new genus, Cronobacter within the Enterobacteriaceae, initially comprising four named species in 2007. (wikipedia.org)
  • 2008). "Cronobacter gen. nov., a new genus to accommodate the biogroups of Enterobacter sakazakii, and proposal of Cronobacter sakazakii gen. nov. comb. (wikipedia.org)
  • Bacillus
  • The Pam protein shows limited sequence similarity to the 13.6 kDa component of a binary toxin of Bacillus thuringiensis . (beds.ac.uk)
  • Salmonella is a genus of rod-shaped (bacillus) gram-negative bacteria of the family Enterobacteriaceae. (wikipedia.org)
  • allele
  • In the data analysis step, all unique sequences are assigned allele numbers and combined into an allelic profile and assigned a sequence type (ST). If new alleles and STs are found, they are stored in the database after verification. (wikipedia.org)
  • bioinformatic
  • A huge set of data is produced during the sequencing and identification process so bioinformatic techniques are used to arrange, manage, analyze and merge all of the biological data. (wikipedia.org)
  • This work will be carried out using available DNA sequence data and a bioinformatic approach. (uio.no)
  • Bordetella
  • Some members of the Betaproteobacteria can cause disease in various eukaryotic organisms, including in humans, such as members of the genus Neisseria: N. gonorrhoeae and N. meninngitides being primary examples, which cause gonorrhea and meningitis respectively, as well as Bordetella pertussis which causes whooping cough. (wikipedia.org)
  • secretion system
  • They inject a number of effector proteins, including TAL effectors, into the plant by their secretion systems (i.e., type III secretion system). (wikipedia.org)
  • differences
  • Sequences that differ at even a single nucleotide are assigned as different alleles and no weighting is given to take into account the number of nucleotide differences between alleles, as we cannot distinguish whether differences at multiple nucleotide sites are a result of multiple point mutations or a single recombinational exchange. (wikipedia.org)
  • diversity
  • Morphological analysis of all of these phages by electron microscopy revealed a broad diversity with different members of the order Caudovirales, including the families Siphoviridae, Myoviridae, and Podoviridae. (jove.com)
  • data
  • This includes the creation of fluorescent phages, infection of the cells, imaging under the microscope and data analysis. (jove.com)
  • study
  • In addition to resolving biogeographic patterns in Thermococcus , this study has raised new questions about the closely related Pyrococcus genus. (frontiersin.org)
  • We also present the first expanded study on bacteriophages of the genus Achromobacter that has been so far a blank slate with respect to phage research. (jove.com)
  • plasmid
  • A crude phage lysate is first obtained by inducing a lysogen of the gpD-EYFP (Enhanced Yellow Fluorescent Protein) phage, harboring a plasmid expressing wild type gpD. (jove.com)
  • system
  • In order to determine the predominant carbon metabolisms within a 3-km deep fracture fluid system accessed via the Tau Tona gold mine (Witwatersrand Basin, South Africa), metagenomic and thermodynamic analyses were combined. (darkenergybiosphere.org)