title: Description and characterization of IS994, a putative IS3 family insertion sequence from the salmon pathogen, Renibacterium salmoninarum.
abstract: Renibacterium salmoninarum, a slowly growing, Gram-positive bacterium, is responsible for bacterial kidney disease in salmonid fishes world-wide. To date, no mobile genetic elements have been reported for this pathogen. Here, we describe the first insertion sequence (IS) identified from R. salmoninarum. This element, IS994, has a significant predicted amino acid sequence homology (64.8 and 71.9%) to the two open reading frames encoding the transposase of IS6110 of Mycobacterium tuberculosis. Protein parsimony and protein distance matrix analyses show that IS994 is a member of group IS51 of the IS3 family. From a conservative estimate, there are at least 17 chromosomal insertions of IS994 or closely related elements. Sequence analysis of seven of these loci reveals single nucleotide polymorphisms throughout the element (including the terminal inverted repeats), a 15bp insertion in three of the seven loci, and an absence of flanking direct repeats or conserved insertion site. Restriction fragment length polymorphism analysis of XbaI-digested chromosomal DNA shows variations among European and North American isolates, indicating that IS994 may be a useful molecular marker for epizootiological studies.
authors.affiliation: REUT Division, Northwest Fisheries Science Center, NMFS, NOAA, US Department of Commerce, Seattle, WA 98112, USA.
authors.forename: L D
authors.initials: LD
authors.lastname: Rhodes
authors.forename: T H
authors.initials: TH
authors.lastname: Grayson
authors.forename: S M
authors.initials: SM
authors.lastname: Alexander
authors.forename: M S
authors.initials: MS
authors.lastname: Strom
mesh_terms: D000595:Amino Acid Sequence; D000818:Animals; D001483:Base Sequence; D004251:DNA Transposable Elements / Q000235:genetics*; D004269:DNA, Bacterial / Q000737:chemistry / Q000235:genetics; D005393:Fish Diseases / Q000382:microbiology*; D014644:Genetic Variation; D005843:Geography; D006094:Gram-Positive Bacteria / Q000737:chemistry / Q000235:genetics* / Q000302:isolation & purification; D016908:Gram-Positive Bacterial Infections / Q000382:microbiology / Q000662:veterinary; D008969:Molecular Sequence Data; D016366:Open Reading Frames; D010802:Phylogeny; D012150:Polymorphism, Restriction Fragment Length; D012474:Salmon / Q000382:microbiology; D016415:Sequence Alignment; D017422:Sequence Analysis, DNA; D017386:Sequence Homology, Amino Acid; D012689:Sequence Homology, Nucleic Acid; D013045:Species Specificity; D019895:Transposases / Q000235:genetics
chemical_list: D004251:DNA Transposable Elements; D004269:DNA, Bacterial; D019895:Transposases