Genes and their organization in the replication origin region of the bacterial chromosome

Ogasawara, Nagahisa; Yoshikawa, Hiroshi

doi:10.1111/j.1365-2958.1992.tb01510.x

Cited by 192 publications

(173 citation statements)

References 22 publications

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“…If this were the case also in Lactobacillus, then the results obtained in this study indicate that oriC is located within fragment CeB. This conclusion is supported by the finding that the genes gyrB and dnaA, which are usually found near the origin of replication for a wide range of bacteria (Ogasawara & Yoshikawa, 1992), are located within fragment CeB on the L. acidophilus map (Fig. 1).…”

Section: Construction Of the Genetic Map And Extension Of The Physicasupporting

confidence: 75%

Construction of a combined physical and genetic map of the chromosome of Lactobacillus acidophilus ATCC 4356 and characterization of the rRNA operons

2005

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The combination of PFGE and hybridization approaches was used to study the genome of Lactobacillus acidophilus neotype strain ATCC 4356. PFGE analysis of chromosomal DNA after digestion with each of the rare-cutting restriction enzymes I-CeuI, NotI, CspI, SmaI, ApaI and SgrAI allowed the size of the circular chromosome of L. acidophilus to be estimated at 2?061 Mbp. The physical map contained 86 restriction sites for the six enzymes employed, with intervals between the sites varying from 1 to 88 kbp (~0?05-4?3 % of the chromosome). Based on the physical map, a genetic map was constructed via Southern blot analyses of L. acidophilus DNA using specific gene probes. A total of 73 probes representing key genes, including 12 rRNA (rrn) genes, were positioned on the latter map. Mapping analysis also indicated the presence of four rrn operons (rrnA-D) on the chromosome, each containing a single copy of each of the three rrn genes 16S (rrl ), 23S (rrs) and 5S (rrf ). Operon rrnD was inverted in orientation with respect to the others and contained a long 16S-23S intergenic spacer region with tRNA Ile and tRNA Ala genes, whereas the other operons contained a short spacer lacking any tRNA genes. The high-resolution physical/genetic map constructed in this study provides a platform for genomic and genetic studies of Lactobacillus species and for improving industrial and probiotic strains.

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Section: Construction Of the Genetic Map And Extension Of The Physicasupporting

confidence: 75%

Construction of a combined physical and genetic map of the chromosome of Lactobacillus acidophilus ATCC 4356 and characterization of the rRNA operons

2005

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“…In CI, the GC skew coincides with genes common to bacterial chromosomal replication origins (e.g., dnaA and gidA; ref. 13), whereas in CII, this region is adjacent to parAB, a finding consistent with the ParAB partition proteins having a role in segregating new copies of this replicon to daughter cells (14). The CI replicons of L550 and JB197 have similar but distinct patterns of GC skew, likely because of the presence of several rearrangements.…”

Section: Resultsmentioning

confidence: 61%

Genome reduction inLeptospira borgpeterseniireflects limited transmission potential

Bulach

Zuerner

Wilson

et al. 2006

Proc. Natl. Acad. Sci. U.S.A.

345

334

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Leptospirosis is one of the most common zoonotic diseases in the world, resulting in high morbidity and mortality in humans and affecting global livestock production. Most infections are caused by either Leptospira borgpetersenii or Leptospira interrogans, bacteria that vary in their distribution in nature and rely on different modes of transmission. We report the complete genomic sequences of two strains of L. borgpetersenii serovar Hardjo that have distinct phenotypes and virulence. These two strains have nearly identical genetic content, with subtle frameshift and point mutations being a common form of genetic variation. Starkly limited regions of synteny are shared between the large chromosomes of L. borgpetersenii and L. interrogans, probably the result of frequent recombination events between insertion sequences. The L. borgpetersenii genome is Ϸ700 kb smaller and has a lower coding density than L. interrogans, indicating it is decaying through a process of insertion sequence-mediated genome reduction. Loss of gene function is not random but is centered on impairment of environmental sensing and metabolite transport and utilization. These features distinguish L. borgpetersenii from L. interrogans, a species with minimal genetic decay and that survives extended passage in aquatic environments encountering a mammalian host. We conclude that L. borgpetersenii is evolving toward dependence on a strict host-to-host transmission cycle.genome sequence ͉ leptospirosis ͉ spirochete

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“…5A, lanes 4 and 5), but the opposite was observed with the S.ynechocysti.s 6803 pre- (Morse and Schmidt, 1992), Streptomyces coelicolor (Calcutt and Schmidt, 1992), Micrococcus luteus (Fujita et al, 1990), Mycobacterium leprae (database accession number L39923), Bacillus subtilis (Ogasawara and Yoshikawa, 1992), Mycoplasnza cupricolum (Miyata et al, 1993), Mycoplasma genitalium (Fraser et al, 1995), Escherichia coli (Hansen et al, 1985), Haemophilus influenzae (Fleischmann et al, 1995). Proteus mirubilzs (Skovgaard, 1990), Pseudomonas putida (Ogasawara and Yoshikawa, 1992), Bwhnera aphidicola (Lai and Baumann, 1992), Coxiella burnetii (Suhan et al, 1994), and Synechocystis 6803 (this work).…”

Section: Enzymatic Activity Of the Purified Proteinmentioning

confidence: 96%

“…The rpmH-rpA region is transcribed divergently from the dnaA gene in most eubacteria. Except in Enterohacterictceae, the origin of chromosomal replication (oriC) is close to the dnuA gene (Ogasawara and Yoshikawa, 1992). However, in Synechocystis 6803 the dnaA gene maps in a different region of the chromosome (Richter and Messer, 1995) and oriC is not in the dnaA region.…”

Section: Rna E S E S E S E S Antibodiesmentioning

confidence: 99%

Cloning, Purification and Characterization of the Protein Subunit of Ribonuclease P from the Cyanobacterium Synechocystis sp. PCC 6803

Pascual

Vioque

1996

European Journal of Biochemistry

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The rnpA gene from the cyanobacterium Synechocystis sp. PCC 6803, which codes for the protein subunit of ribonuclease P (RNase P), has been cloned by functional complementation of an Escherichia coli mutant. This protein had previously been characterized only in proteobacteria and gram-positive bacteria. rnpA and the closely linked rpmH gene, which code for the large subunit ribosomal protein L34, have been sequenced. The Syneclzocystis 6803 L34 protein is more similar to the homologous protein from some non-green chloroplasts than to the L34 protein from other bacteria. The protein subunit of RNase P from Synechocystis 6803 has been overexpressed in E. coli and purified to homogeneity. Antibodies raised against the Synechocystis 6803 RNase P protein did not recognize the homologous protein from E. coli (C5 protein). Similarly, antibodies raised against the E. coli C5 protein did not recognize significantly the Synechocystis 6803 protein. In spite of the lack of immunological cross-reactivity and the low level of sequence identity, the E. coli and Synecfzocystis 6803 proteins are functionally interchangeable. In enzymatic assays using either an E. coli precursor tRNATy' or a Synechocystis 6803 precursor tRNAG'" as substrates, we have detected RNase P activity with holoenzymes reconstituted with the RNA subunit from E. coli and the protein subunit from Synechocystis 6803 or with the RNA subunit from Synechocystis 6803 and the protein subunit from E. coli. The relative efficiency of cleavage of the different substrates is dependent on the origin of the protein subunit used to reconstitute the holoenzyme.Keywords: ribonuclease P; Synechocystis 6803 ; protein-RNA interaction; precursor tRNA processing ; cyanobacteria.Ribonuclease P (RNase P) is an endonuclease responsible for the generation of the mature 5' end of tRNAs from precursors of tRNAs (Altman, 1989;Pace and Smith, 1990). Every cell and every cellular compartment that synthesizes tRNAs has been shown to contain an RNase P activity. The enzyme is composed of RNA and protein in most of the RNaseP activities investigated so far. In many eubacteria, the RNA component of the enzyme has been shown to be catalytically active in vitro in the absence of the protein subunit (Guerrier-Takada et al., 1983) under appropriate buffer conditions. In vivo, the protein subunit is essential. It has been proposed that the protein functions as an electrostatic shield (Reich et al., 1988) and that it also facilitates product release (Tallsjo and Kirsebom, 1993 E-mail: vioque@cica.esAbbreviations. IPTG, isopropyl thio-P-~-galactoside; C5 protein, protein subunit of Escherichia coli RNase P; M1 RNA, RNA subunit of E. coli RNase P ; pre-tRNA, precursor tRNA; RNase P, ribonuclease P; Synechocystis RNase P RNA, RNA subunit of Synechocystis 6803 RNase P; Synechocystis RNase P protein, protein subunit of Synechocysfis 6803 RNase P.Enzyme. Ribonuclease P (EC 3.1.26.5).Note. The novel nucleotide sequence data published here have been deposited with the EMBL sequence data bank and are av...

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Genes and their organization in the replication origin region of the bacterial chromosome

Cited by 192 publications

References 22 publications

Construction of a combined physical and genetic map of the chromosome of Lactobacillus acidophilus ATCC 4356 and characterization of the rRNA operons

Construction of a combined physical and genetic map of the chromosome of Lactobacillus acidophilus ATCC 4356 and characterization of the rRNA operons

Genome reduction inLeptospira borgpeterseniireflects limited transmission potential

Cloning, Purification and Characterization of the Protein Subunit of Ribonuclease P from the Cyanobacterium Synechocystis sp. PCC 6803

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