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Revision and reannotation of the Halomonas elongata DSM 2581T genome.

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.

SUBMITTER: Pfeiffer F

PROVIDER: S-EPMC5552945 | biostudies-literature | 2017 Aug

REPOSITORIES: biostudies-literature

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Revision and reannotation of the Halomonas elongata DSM 2581<sup>T</sup> genome.

Pfeiffer Friedhelm F Bagyan Irina I Alfaro-Espinoza Gabriela G Zamora-Lagos Maria-A MA Habermann Bianca B Marin-Sanguino Alberto A Oesterhelt Dieter D Kunte Hans J HJ

MicrobiologyOpen 20170327 4

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 ca ...[more]

PMID: 28349658

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