John B. Perkins
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View article: Genome of a Gut Strain of Bacillus subtilis
Genome of a Gut Strain of Bacillus subtilis Open
Bacillus subtilis is a Gram-positive, rod-shaped, spore-forming bacterium. We present the genome sequence of an undomesticated strain, BSP1, isolated from poultry. The sequence of the BSP1 genome supports the view that B. subtilis has a bi…
View article: Small Genes under Sporulation Control in the <i>Bacillus subtilis</i> genome
Small Genes under Sporulation Control in the <i>Bacillus subtilis</i> genome Open
Using an oligonucleotide microarray, we searched for previously unrecognized transcription units in intergenic regions in the genome of Bacillus subtilis , with an emphasis on identifying small genes activated during spore formation. Ninet…
View article: The Origins of 168, W23, and Other <i>Bacillus subtilis</i> Legacy Strains
The Origins of 168, W23, and Other <i>Bacillus subtilis</i> Legacy Strains Open
Bacillus subtilis is both a model organism for basic research and an industrial workhorse, yet there are major gaps in our understanding of the genomic heritage and provenance of many widely used strains. We analyzed 17 legacy strains dati…
View article: Genes for Small, Noncoding RNAs under Sporulation Control in <i>Bacillus subtilis</i>
Genes for Small, Noncoding RNAs under Sporulation Control in <i>Bacillus subtilis</i> Open
The process of sporulation in the bacterium Bacillus subtilis is known to involve the programmed activation of several hundred protein-coding genes. Here we report the discovery of previously unrecognized genes under sporulation control th…
View article: Isolation and Characterization of New Thiamine-Deregulated Mutants of <i>Bacillus subtilis</i>
Isolation and Characterization of New Thiamine-Deregulated Mutants of <i>Bacillus subtilis</i> Open
In bacteria, thiamine pyrophosphate (TPP) is an essential cofactor that is synthesized de novo. Thiamine, however, is not an intermediate in the biosynthetic pathway but is salvaged from the environment and phosphorylated to TPP. We have i…
View article: Small Untranslated RNA Antitoxin in<i>Bacillus subtilis</i>
Small Untranslated RNA Antitoxin in<i>Bacillus subtilis</i> Open
Toxin-antitoxin (TA) modules are pairs of genes in which one member encodes a toxin that is neutralized or whose synthesis is prevented by the action of the product of the second gene, an antitoxin, which is either protein or RNA. We now r…
View article: Identification of the Two Missing Bacterial Genes Involved in Thiamine Salvage: Thiamine Pyrophosphokinase and Thiamine Kinase
Identification of the Two Missing Bacterial Genes Involved in Thiamine Salvage: Thiamine Pyrophosphokinase and Thiamine Kinase Open
The genes encoding thiamine kinase in Escherichia coli ( ycfN ) and thiamine pyrophosphokinase in Bacillus subtilis ( yloS ) have been identified. This study completes the identification of the thiamine salvage enzymes in bacteria.
View article: RNA Expression Analysis Using an Antisense <i>Bacillus subtilis</i> Genome Array
RNA Expression Analysis Using an Antisense <i>Bacillus subtilis</i> Genome Array Open
We have developed an antisense oligonucleotide microarray for the study of gene expression and regulation in Bacillus subtilis by using Affymetrix technology. Quality control tests of the B. subtilis GeneChip were performed to ascertain th…
View article: Genetic engineering of Bacillus subtilis for the commercial production of riboflavin
Genetic engineering of Bacillus subtilis for the commercial production of riboflavin Open
Recombinant DNA engineering was combined with mutant selection and fermentation improvement to develop a strain of Bacillus subtilis that produces commercially attractive levels of riboflavin. The B. subtilis riboflavin production strain c…
View article: Identification and characterization of transcripts from the biotin biosynthetic operon of Bacillus subtilis
Identification and characterization of transcripts from the biotin biosynthetic operon of Bacillus subtilis Open
Northern (RNA) blot analysis of the Bacillus subtilis biotin operon, bioWAFDBIorf2, detected at least two steady-state polycistronic transcripts initiated from a putative vegetative (Pbio) promoter that precedes the operon, i.e., a full-le…
View article: Cloning and characterization of the metE gene encoding S-adenosylmethionine synthetase from Bacillus subtilis
Cloning and characterization of the metE gene encoding S-adenosylmethionine synthetase from Bacillus subtilis Open
The metE gene, encoding S-adenosylmethionine synthetase (EC 2.5.1.6) from Bacillus subtilis, was cloned in two steps by normal and inverse PCR. The DNA sequence of the metE gene contains an open reading frame which encodes a 400-amino-acid…
View article: Cloning, sequencing, and characterization of the Bacillus subtilis biotin biosynthetic operon
Cloning, sequencing, and characterization of the Bacillus subtilis biotin biosynthetic operon Open
A 10-kb region of the Bacillus subtilis genome that contains genes involved in biotin-biosynthesis was cloned and sequenced. DNA sequence analysis indicated that B. subtilis contains homologs of the Escherichia coli and Bacillus sphaericus…
View article: Cloning and characterization of the Bacillus subtilis birA gene encoding a repressor of the biotin operon
Cloning and characterization of the Bacillus subtilis birA gene encoding a repressor of the biotin operon Open
The Bacillus subtilis birA gene, which regulates biotin biosynthesis, has been cloned and characterized. The birA gene maps at 202 degrees on the B. subtilis chromosome and encodes a 36,200-Da protein that is 27% identical to Escherichia c…
View article: Transfection of Bacillus subtilis protoplasts by bacteriophage phi do7 DNA
Transfection of Bacillus subtilis protoplasts by bacteriophage phi do7 DNA Open
DNA from the Bacillus subtilis temperate bacteriophage phi do7 was found to efficiently transfect B. subtilis protoplasts; protoplast transfection was more efficient than competent cell transfection by a magnitude of 10(3). Unlike competen…
View article: Streptococcus plasmid pAM alpha 1 is a composite of two separable replicons, one of which is closely related to Bacillus plasmid pBC16
Streptococcus plasmid pAM alpha 1 is a composite of two separable replicons, one of which is closely related to Bacillus plasmid pBC16 Open
A tetracycline resistance plasmid of Streptococcus faecalis, pAM alpha 1, is shown to contain two independent sets of replication functions, separated from each other on either side by short (300- to 400-base-pair) sequences of homology. T…
View article: Genetic transposition and insertional mutagenesis in Bacillus subtilis with Streptococcus faecalis transposon Tn917.
Genetic transposition and insertional mutagenesis in Bacillus subtilis with Streptococcus faecalis transposon Tn917. Open
The Streptococcus faecalis transposon Tn917 was introduced into Bacillus subtilis by transformation of competent cells with the plasmid pAM alpha 1::Tn917 and was tested for transposition activity by selection for insertions into the tempe…
View article: Restriction endonuclease mapping of bacteriophage phi105 and closely related temperate Bacillus subtilis bacteriophages rho10 and rho14
Restriction endonuclease mapping of bacteriophage phi105 and closely related temperate Bacillus subtilis bacteriophages rho10 and rho14 Open
Cleavage maps of the three similar Bacillus subtilis temperate bacteriophages, phi105, rho10, and rho14, were constructed by partial digestion analysis utilizing the restriction endonuclease EcoRI. Comparison of the topography of these map…