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The Rhodobacter capsulatus genome |
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| Authors: | Haselkorn Robert Lapidus Alla Kogan Yakov Vlcek Cestmir Paces Jan Paces Vaclav Ulbrich Pavel Pecenkova Tamara Rebrekov Denis Milgram Arthur Mazur Mikhail Cox Randal Kyrpides Nikos Ivanova Natalia Kapatral Vinayak Los Tamara Lykidis Athanasios Mikhailova Natalia Reznik Gary Vasieva Olga Fonstein Michael |
| Institution: | (1) Integrated Genomics, Inc., 2201 West Campbell Park Drive, Chicago, IL 60612, USA;(2) Institute of Molecular Genetics, Academy of Sciences of the Czech Republic and Institute of Chemical Technology, Prague, CZ-16637, Czech Republic;(3) Russian Academy of Sciences, Institute of Bioorganic Chemistry, Moscow, Russia;(4) University of Pennsylvania, Philadelphia, PA 19104, USA |
| Abstract: | The genome of Rhodobacter capsulatus has been completely sequenced. It consists of a single chromosome containing 3.5 Mb and a circular plasmid of 134 kb. This effort, started in 1992, began with a fine-structure restriction map of an overlapping set of cosmids that covered the genome. Cosmid sequencing led to a gapped genome that was filled by primer walking on the chromosome and by using lambda clones. Methods had to be developed to handle strong stops in the high GC (68%) inserts. Annotation was done with the ERGO system at Integrated Genomics, as was the reconstruction of the cell's metabolism. It was possible to recognize 3709 orfs of which functional assignments could be made with high confidence to 2392 (65%). Unusual features include the presence of numerous cryptic phage genomes embedded in the chromosome. This revised version was published online in June 2006 with corrections to the Cover Date. |
| Keywords: | annotation comparative genomics DNA sequence metabolic reconstruction |
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