In this work, we employed MicrobeCensus22 for de novo estimation of the average genome size (AGS) of microorganisms captured in shotgun metagenome sequences (Fig. 1a; Supplementary Data 1). Briefly, MicrobeCensus optimally aligns metagenomic reads to a set of 30 conserved single-copy gene (CSC...
The aim of this work was to develop two simple models to describe and predict the kinetics of viability and mortality of genome damage induced by UV-C light onE. coli, considering both: a multiple impact and a corpurscular behavior of light. We used a set of five strains that were diffe...
In the paper presented by the MARC (also known as MAP) [13], a control strain of Escherichia coli K-12 was used by five laboratories from different countries to generate data. Each participating laboratory used QIAGEN Genomic-tip 20/G to extract DNA from approximately 4 × 109 log-phase ...
This is compatible with previous analyses on the dispensable genome of Escherichia coli, where it was estimated that, on average, dispensable sequences are lost after 6.7 million years, to be compared with the 100 million years since the speciation of E. coli from Salmonella enterica [53]. ...
It also should be helpful in epidemiology and for the development of new vaccines. In 2011, an outbreak due to E. coli O104:H4 caused about 4000 cases with more than 40 deaths. The causative agent was quickly identified, and its genome sequenced. The incriminated food, however, was more...
Blattner FR, Plunkett G, Bloch CA, Perna NT, Burland V, Riley M, Collado-Vides J, Glasner JD, Rode CK, Mayhew GF: The complete genome sequence of Escherichia coli K-12. Science. 1997, 277 (5331): 1453-1462. 10.1126/science.277.5331.1453. CAS PubMed Google Scholar Andersson SG, ...
(i.e.to function as intracellular compounds) and re-tested whether thein silicomodel can grow on each of them. The results showed that 11 of the 14 carbon sources enablediKF1028 to grow after applying the above assumption. This supports the hypothesis that J2315 lacks of transporters for all...
locustag ECPOOp \ --increment 10 --gffver 2 --centre CDC --compliant \ --genus Escherichia --species coli --strain POO247 --plasmid pECPOO247 \ --kingdom Bacteria --gcode 11 --usegenus \ --proteins /opt/prokka/db/trusted/Ecocyc-17.6 \ --evalue 1e-9 --rfam \ plasmid-closed....
(GenomicSolutions). A set of ten different 70 mer probes designed fromEscherichia coligenome sequence, with less than 70% homology toS. cerevisiaegenome, was also included in the microarray in order to monitor non-specific hybridization. The array design and spotting protocol were deposited in ...
Full size image Productivity of σ70 dependent promoter/operator combinations The T7 expression system is known to provide high expression rates, even from a single target gene copy, when integrated into the E. coli chromosome. First, we wanted to check whether the same productivity could be rea...