@article{KoetschanFoersterKelleretal.2010, author = {Koetschan, Christian and Foerster, Frank and Keller, Alexander and Schleicher, Tina and Ruderisch, Benjamin and Schwarz, Roland and Mueller, Tobias and Wolf, Matthias and Schultz, Joerg}, title = {The ITS2 Database III-sequences and structures for phylogeny}, url = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-68390}, year = {2010}, abstract = {The internal transcribed spacer 2 (ITS2) is a widely used phylogenetic marker. In the past, it has mainly been used for species level classifications. Nowadays, a wider applicability becomes apparent. Here, the conserved structure of the RNA molecule plays a vital role. We have developed the ITS2 Database (http://its2.bioapps .biozentrum.uni-wuerzburg.de) which holds information about sequence, structure and taxonomic classification of all ITS2 in GenBank. In the new version, we use Hidden Markov models (HMMs) for the identification and delineation of the ITS2 resulting in a major redesign of the annotation pipeline. This allowed the identification of more than 160 000 correct full ength and more than 50 000 partial structures. In the web interface, these can now be searched with a modified BLAST considering both sequence and structure, enabling rapid taxon sampling. Novel sequences can be annotated using the HMM based approach and modelled according to multiple template structures. Sequences can be searched for known and newly identified motifs. Together, the database and the web server build an exhaustive resource for ITS2 based phylogenetic analyses.}, subject = {Biologie}, language = {en} } @article{AlbrechtSharmaReinhardtetal.2010, author = {Albrecht, Marco and Sharma, Cynthia M. and Reinhardt, Richard and Vogel, Joerg and Rudel, Thomas}, title = {Deep sequencing-based discovery of the Chlamydia trachomatis transcriptome}, url = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-68389}, year = {2010}, abstract = {Chlamydia trachomatis is an obligate intracellular pathogenic bacterium that has been refractory to genetic manipulations. Although the genomes of several strains have been sequenced, very little information is available on the gene structure of these bacteria. We used deep sequencing to define the transcriptome of purified elementary bodies (EB) and reticulate bodies (RB) of C. trachomatis L2b, respectively. Using an RNAseq approach, we have mapped 363 transcriptional start sites (TSS) of annotated genes. Semiquantitative analysis of mapped cDNA reads revealed differences in the RNA levels of 84 genes isolated from EB and RB, respectively. We have identified and in part confirmed 42 genome- and 1 plasmid-derived novel non-coding RNAs. The genome encoded non-coding RNA, ctrR0332 was one of the most abundantly and differentially expressed RNA in EB and RB, implying an important role in the developmental cycle of C. trachomatis. The detailed map of TSS in a thus far unprecedented resolution as a complement to the genome sequence will help to understand the organization, control and function of genes of this important pathogen.}, subject = {Biologie}, language = {en} } @article{GoebelKreft1972, author = {Goebel, Werner and Kreft, J{\"u}rgen}, title = {Accumulation of replicative intermediates and catenated forms of the colicinogenic factor E\(_1\) in E. coli during the replication at elevated temperatures}, url = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-60625}, year = {1972}, abstract = {No abstract available}, subject = {Biologie}, language = {en} } @article{HaertleinSchiesslWagneretal.1983, author = {H{\"a}rtlein, Michael and Schiessl, Sigrid and Wagner, Wilma and Rdest, Ursula and Kreft, J{\"u}rgen and Goebel, Werner}, title = {Transport of hemolysin by Escherichia coli}, url = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-60619}, year = {1983}, abstract = {No abstract available}, subject = {Biologie}, language = {en} } @article{KreftBurgerGoebel1983, author = {Kreft, J{\"u}rgen and Burger, Klaus J. and Goebel, Werner}, title = {Expression of antibiotic resistance genes from Escherichia coli in Bacillus subtilis}, url = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-60600}, year = {1983}, abstract = {Bifunctional recombinant plasmids were constructed, comprised of the E. coli vectors pBR322, pBR325 and pACYC184 and different plasmids from Gram-positive bacteria, e.g. pBSU161-1 of B. subtilis and pUB110 and pC221 of S. aureus. The beta-lactamase (bla) gene and the chloramphenicol acetyltransferase (cat) gene from the E. coli plasmids were not transcribed and therefore not expressed in B. subtilis. However, tetracycline resistance from the E. coli plasmids was expressed in B. subtilis. Transcription of the tetracycline resistance gene(s) started in B. subtilis at or near the original E. coli promoter, the sequence of which is almost identical with the sequence recognized by σ55 of B. subtilis RNA polymerase.}, subject = {Biologie}, language = {en} } @article{KreftBergerHaertleinetal.1983, author = {Kreft, J{\"u}rgen and Berger, Harald and H{\"a}rtlein, Michael and M{\"u}ller, Bodo and Weidinger, Gerhard and Goebel, Werner}, title = {Cloning and expression in Escherichia coli and Bacillus subtilis of the hemolysin (cereolysin) determinant from Bacillus cereus}, url = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-60596}, year = {1983}, abstract = {From a cosmid gene bank of Bacillus cereus GP4 in Escherichia coli we isolated clones which, after several days of incubation, formed hemolysis zones on erythrocyte agar plates. These clones contained recombinant cosmids with B. cereus DNA insertions of varying lengths which shared some common restriction fragments. The smallest insertionwas recloned as aPstl fragment into pJKK3-1, a shuttle vector which rep{\"u}cates in Bacillus subtilis and E. coli. When this recombinant plasmid (pJKK3-1 hly-1) was transformed into E. coli, it caused hemolysis on erythrocyte agar plates, but in liquid assays no extemal or intemal hemolytic activity could be detected with the E. coli transformants. B. subtilis carrying the same plasmid exhibited hemolytic activity at Ievels comparable to those ofthe B. cereus donor strain. The hemolysin produced in B. subtilis seemed to be indistinguishable from cereolysin in its sensitivity to cholesterol, activation by dithiothreitol, and inactivation by antibodies raised against cereolysin. When the recombinant DNA carrying the cereolysin gene was used as a probe in hybridization experiments with chromosomal DNA from a streptolysin 0-producing strain of Streptococcus pyogenes or from {\"u}steriolysin-producing strains of Usteria monoeytogenes, no positive hybridization signals were obtained. These data soggest that the genes for these three SH-activated cytolysins do not have extended sequence homology.}, subject = {Biologie}, language = {en} } @article{GilmoreCruzRodzLeimeisterWaechteretal.1989, author = {Gilmore, Michael S. and Cruz-Rodz, Armando L. and Leimeister-W{\"a}chter, Michaela and Kreft, J{\"u}rgen and Goebel, Werner}, title = {A Bacillus cereus cytolytic determinant, cereolysin AB, which comprises the phospholipase C and sphingomyelinase genes: nucleotide sequence and genetic linkage}, url = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-60588}, year = {1989}, abstract = {A cloned cytolytic determinant from the genome of Bacillus cereus GP-4 has been characterized at the molecular Ievel. Nucleotide sequence determination revealed the presence of two open reading frames. 8oth open reading frames were found by deletion and complementation analysis to be necessary for expression of the hemolytic phenotype by Bacillus subtilis and Escherichia coli hosts. The 5' open reading frame was found to be nearly identical to a recently reported phospholipase C gene derived from a mutant B. cereus strain which overexpresses the respective protein, and it conferred a lecithinase-positive phenotype to the B. subtilis host. The 3' open reading frame encoded a sphingomyelinase. The two tandemly encoded activities, phospholipase C and sphingomyelinase, constitute a biologically functional cytolytic determinant of B. cereus termed cereolysin AB.}, subject = {Biologie}, language = {en} } @article{SchueleinKreftGonskietal.1991, author = {Sch{\"u}lein, Ralf and Kreft, J{\"u}rgen and Gonski, Sigrid and Goebel, Werner}, title = {Preprosubtilisin Carlsberg processing and secretion is blocked after deletion of amino acids 97-101 in the mature part of the enzyme}, url = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-60577}, year = {1991}, abstract = {During an investigation into the substrate specificity and processing of subtilisin Carlsberg from Bacillus licheniformis, two major independent findings were made: (i) as has been shown previously, a stretch of five amino acids (residues 97-101 of the mature enzyme) that loops out into the binding cleft is involved in substrate binding by subtilisin Carlsberg. In order to see whether this loop element also determines substrate specificity, the coding region for these five amino acids was deleted from the cloned gene for subtilisin Carlsberg by site-directed mutagenesis. Unexpectedly the resulting mutant preproenzyme (P42c, Mr=42 kDa) was not processed to the mature form (Mr = 30 kDa) and was not released into the medium by a proteasedeficient B. subtilis host strain; rather, it accumulated in the cell membrane. This result demonstrates that the integrity of this loop element, which is very distant from the processing cleavage sites in the preproenzyme, is required for secretion of subtilisin Carlsberg. (ii) In culture supernatants from B. subtilis harbouring the cloned wild-type subtilisin Carlsberg gene the transient appearance (at 0-3 h after onset of stationary phase) of a processing intermediate (P38c, Mr = 38 kDa) oftbis protease could be demonstrated. P38c very probably represents a genuine proform of subtilisin Carlsberg.}, subject = {Biologie}, language = {en} } @article{GoebelKathariouKuhnetal.1988, author = {Goebel, Werner and Kathariou, S. and Kuhn, M. and Sokolovic, Z. and Kreft, J{\"u}rgen and K{\"o}hler, S. and Funke, D. and Chakraborty, T. and Leimeister-W{\"a}chter, M.}, title = {Hemolysin from Listeria-biochemistry, genetics and function in pathogenesis}, url = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-60563}, year = {1988}, abstract = {No abstract available}, subject = {Biologie}, language = {en} } @article{GoebelChakrabortyKreft1988, author = {Goebel, Werner and Chakraborty, T. and Kreft, J{\"u}rgen}, title = {Bacterial hemolysins as virulence factors}, url = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-60553}, year = {1988}, abstract = {No abstract available}, subject = {Biologie}, language = {en} }