title: Revision and reannotation of the Halomonas elongata DSM 2581Tgenome.
abstract: The genome of the Halomonas elongata type strain DSM 2581, an industrial producer, was reevaluated using the Illumina HiSeq2500 technology. To resolve duplication-associated ambiguities, PCR products were generated and sequenced. Outside of duplications, 72 sequence corrections were required, of which 24 were point mutations and 48 were indels of one or few bases. Most of these were associated with polynucleotide stretches (poly-T stretch overestimated in 19 cases, poly-C underestimated in 15 cases). These problems may be attributed to using 454 technology for original genome sequencing. On average, the original genome sequence had only one error in 56 kb. There were 23 frameshift error corrections in the 29 protein-coding genes affected by sequence revision. The genome has been subjected to major reannotation in order to substantially increase the annotation quality.
authors.affiliation: Computational Biology Group, Max-Planck-Institute of Biochemistry, Martinsried, Germany.
authors.forename: Friedhelm
authors.identifier: 0000-0003-4691-3246
authors.initials: F
authors.lastname: Pfeiffer
authors.affiliation: Research and Development Division, bitop AG, Witten, Germany.
authors.forename: Irina
authors.initials: I
authors.lastname: Bagyan
authors.affiliation: Materials and Environment Division, Federal Institute for Materials Research and Testing (BAM), Berlin, Germany.
authors.forename: Gabriela
authors.initials: G
authors.lastname: Alfaro-Espinoza
authors.affiliation: Computational Biology Group, Max-Planck-Institute of Biochemistry, Martinsried, Germany.
authors.forename: Maria-A
authors.initials: MA
authors.lastname: Zamora-Lagos
authors.affiliation: Computational Biology Group, Max-Planck-Institute of Biochemistry, Martinsried, Germany.
authors.forename: Bianca
authors.initials: B
authors.lastname: Habermann
authors.affiliation: Faculty of Mechanical Engineering, Specialty Division for Systems Biotechnology, Technische Universität München, Germany.
authors.forename: Alberto
authors.initials: A
authors.lastname: Marin-Sanguino
authors.affiliation: Department of Membrane Biochemistry, Max-Planck-Institute of Biochemistry, Martinsried, Germany.
authors.forename: Dieter
authors.initials: D
authors.lastname: Oesterhelt
authors.affiliation: Materials and Environment Division, Federal Institute for Materials Research and Testing (BAM), Berlin, Germany.
authors.forename: Hans J
authors.initials: HJ
authors.lastname: Kunte
mesh_terms: D004269:DNA, Bacterial / Q000737:chemistry / Q000235:genetics; D016680:Genome, Bacterial; D020632:Halomonas / Q000235:genetics*; D058977:Molecular Sequence Annotation; D016133:Polymerase Chain Reaction; D017422:Sequence Analysis, DNA
chemical_list: D004269:DNA, Bacterial
keywords: Halomonas elongata; frameshift; genome annotation; genome sequencing; halophilic bacteria; sequence revision