title: The genome structure of Pseudomonas putida: high-resolution mapping and microarray analysis.
abstract: As part of a collaborative project aimed at sequencing and functionally analysing the entire genome of Pseudomonas putida strain KT2440, a physical clone map was produced as an initial resource. To this end, a high-coverage cosmid library was arrayed and ordered by clone hybridizations. Restriction fragments generated by rare-cutting enzymes and plasmids containing the rrn operon and 23S rDNA of Pseudomonas aeruginosa were used as probes and, parts of the cosmids were end-sequenced. This provided the information necessary for merging and comparing the macro-restriction map, cosmid clone order and sequence information, thereby assuring co-linearity of the eventual sequence assembly with the actual genome. A tiling path of clones was selected, from the shotgun clones used for sequencing, for the production of DNA microarrays that represent the entire genome including its non-coding portions.
authors.affiliation: Functional Genome Analysis, Deutsches Krebsforschungszentrum, Im Neuenheimer Feld 506, D-69120 Heidelberg, Germany. d.stjepandic@dkz.de
authors.forename: Diana
authors.initials: D
authors.lastname: Stjepandić
authors.forename: Christian
authors.initials: C
authors.lastname: Weinel
authors.forename: Helmut
authors.initials: H
authors.lastname: Hilbert
authors.forename: Hean L
authors.initials: HL
authors.lastname: Koo
authors.forename: Frank
authors.initials: F
authors.lastname: Diehl
authors.forename: Karen E
authors.initials: KE
authors.lastname: Nelson
authors.forename: Burkhard
authors.initials: B
authors.lastname: Tümmler
authors.forename: Jörg D
authors.initials: JD
authors.lastname: Hoheisel
mesh_terms: D003001:Cloning, Molecular; D020451:Contig Mapping; D003360:Cosmids / Q000235:genetics*; D004269:DNA, Bacterial / Q000235:genetics*; D015723:Gene Library; D016680:Genome, Bacterial; D009693:Nucleic Acid Hybridization; D020411:Oligonucleotide Array Sequence Analysis; D016958:Pseudomonas putida / Q000235:genetics*; D012407:rRNA Operon / Q000235:genetics
chemical_list: D004269:DNA, Bacterial