• Login
    About WHOAS
    View Item 
    •   WHOAS Home
    • Marine Biological Laboratory
    • Josephine Bay Paul Center in Comparative Molecular Biology and Evolution
    • View Item
    •   WHOAS Home
    • Marine Biological Laboratory
    • Josephine Bay Paul Center in Comparative Molecular Biology and Evolution
    • View Item
    JavaScript is disabled for your browser. Some features of this site may not work without it.

    Browse

    All of WHOASCommunities & CollectionsBy Issue DateAuthorsTitlesKeywordsThis CollectionBy Issue DateAuthorsTitlesKeywords

    My Account

    LoginRegister

    Statistics

    View Usage Statistics

    A functional update of the Escherichia coli K-12 genome

    Thumbnail
    View/Open
    Serres et al.pdf (87.18Kb)
    Date
    2001-08-20
    Author
    Serres, Margrethe H.  Concept link
    Gopal, Shuba  Concept link
    Nahum, Laila A.  Concept link
    Liang, Ping  Concept link
    Gaasterland, Terry  Concept link
    Riley, Monica  Concept link
    Metadata
    Show full item record
    Citable URI
    https://hdl.handle.net/1912/106
    As published
    https://doi.org/10.1186/gb-2001-2-9-research0035
    DOI
    10.1186/gb-2001-2-9-research0035
    Keyword
    Escherichia coli K-12
    Abstract
    Background: Since the genome of Escherichia coli K-12 was initially annotated in 1997, additional functional information based on biological characterization and functions of sequence-similar proteins has become available. On the basis of this new information, an updated version of the annotated chromosome has been generated. Results: The E. coli K-12 chromosome is currently represented by 4,401 genes encoding 116 RNAs and 4,285 proteins. The boundaries of the genes identified in the GenBank Accession U00096 were used. Some protein-coding sequences are compound and encode multimodular proteins. The coding sequences (CDSs) are represented by modules (protein elements of at least 100 amino acids with biological activity and independent evolutionary history). There are 4,616 identified modules in the 4,285 proteins. Of these, 48.9% have been characterized, 29.5% have an imputed function, 2.1% have a phenotype and 19.5% have no function assignment. Only 7% of the modules appear unique to E. coli, and this number is expected to be reduced as more genome data becomes available. The imputed functions were assigned on the basis of manual evaluation of functions predicted by BLAST and DARWIN analyses and by the MAGPIE genome annotation system. Conclusions: Much knowledge has been gained about functions encoded by the E. coli K-12 genome since the 1997 annotation was published. The data presented here should be useful for analysis of E. coli gene products as well as gene products encoded by other genomes.
    Description
    Author Posting. © 2001 Serres et al. The definitive version was published in Genome Biology 2 (2001): research0035.1–0035.7, doi:10.1186/gb-2001-2-9-research0035.
    Collections
    • Josephine Bay Paul Center in Comparative Molecular Biology and Evolution
    Suggested Citation
    Article: Serres, Margrethe H., Gopal, Shuba, Nahum, Laila A., Liang, Ping, Gaasterland, Terry, Riley, Monica, "A functional update of the Escherichia coli K-12 genome", Genome Biology 2 (2001): research0035.1–0035.7, DOI:10.1186/gb-2001-2-9-research0035, https://hdl.handle.net/1912/106
     

    Related items

    Showing items related by title, author, creator and subject.

    • Thumbnail

      Rate zonal density gradient ultracentrifugation analysis of repair of radiation damage to the folded chromosome of Escherichia coli 

      Ulmer, Kevin M. (Massachusetts Institute of Technology and Woods Hole Oceanographic Institution, 1978-04)
      The structure of the membrane-free nucleoid of Escherichia coli and of unfolded chromosomal DNA was investigated by sedimentation on neutral sucrose gradients after irradiation with 60Co gamma-rays and ultraviolet light ...
    • Thumbnail

      Mechanism for nitrogen isotope fractionation during ammonium assimilation by Escherichia coli K12 

      Vo, Jason; Inwood, William; Hayes, John M.; Kustu, Sydney (2013-03-25)
      Organisms that use ammonium as the sole nitrogen source discriminate between [15N] and [14N] ammonium. This selectivity leaves an isotopic signature in their biomass that depends on the external concentration of ammonium. ...
    • Thumbnail

      Extending knowledge of Escherichia coli metabolism by modeling and experiment 

      Voit, Eberhard O.; Riley, Monica (BioMed Central, 2003-10-28)
      One of the challenges for ‘post-genomic’ biology is the integration of data from many different sources. Two recent studies independently take steps towards this goal for Escherichia coli, using mathematical modeling and ...
    All Items in WHOAS are protected by original copyright, with all rights reserved, unless otherwise indicated. WHOAS also supports the use of the Creative Commons licenses for original content.
    A service of the MBLWHOI Library | About WHOAS
    Contact Us | Send Feedback | Privacy Policy