Journal: BMC Genomics

Article Title: Random mutagenesis in Corynebacterium glutamicum ATCC 13032 using an IS 6100 -based transposon vector identified the last unknown gene in the histidine biosynthesis pathway

doi: 10.1186/1471-2164-7-205

Figure Lengend Snippet: Distribution of transposon insertions on a circular plot of the C. glutamicum ATCC 13032 genome [GenBank: BX927147 ]. Coloured bars of the outer circle pointing inward and outward show the orientation of the cointegrates with respect to the genome in clockwise and counterclockwise direction, respectively. Red bars indicate the integration positions mapped for randomly selected clones and black bars map those investigated by auxotrophy analysis. Additional circles (from inward to outward) represent relative G+C content and coding regions transcribed in clockwise and counterclockwise direction, respectively. A positive deviation in G+C content from the average (53.8%) is shown by bars pointing outward and a negative deviation by bars pointing inward. Annotated genes are coloured according to the colour scheme of the functional classes system COG (cluster of orthologous groups) [89]. The plot was generated with GenDB version 2.2 [90].

Article Snippet: For instance, seven copies of IS L3 family-like sequences in the ATCC 13032 genome prevent the usage of IS 31831 [ ] and related elements (e.g. IS 1207 ) [ ] as well as their derived transposons (e.g. Tn 5531 ) [ ].

Techniques: Clone Assay, Functional Assay, Generated

Journal: BMC Genomics

Article Title: Random mutagenesis in Corynebacterium glutamicum ATCC 13032 using an IS 6100 -based transposon vector identified the last unknown gene in the histidine biosynthesis pathway

doi: 10.1186/1471-2164-7-205

Figure Lengend Snippet: Physical map of the tryptophan gene cluster in C. glutamicum ATCC 13032. Within the trpPEGDCFBA genes, indicated by blue arrows, the coloured bars denote the mapped integrations of 43 independent tryptophan auxotrophic mutants. The two orientations with respect to the genome are indicated in black (clockwise) and green (counterclockwise direction). The transposon integration identified by PCR screening is also marked (orange bar). The left stem-loop symbol denotes the transcriptional attenuator involved in the regulation of the tryptophan biosynthesis [43] and the right loop a Rho-independent transcriptional terminator structure.

Article Snippet: For instance, seven copies of IS L3 family-like sequences in the ATCC 13032 genome prevent the usage of IS 31831 [ ] and related elements (e.g. IS 1207 ) [ ] as well as their derived transposons (e.g. Tn 5531 ) [ ].

Techniques:

Journal: BMC Genomics

Article Title: Random mutagenesis in Corynebacterium glutamicum ATCC 13032 using an IS 6100 -based transposon vector identified the last unknown gene in the histidine biosynthesis pathway

doi: 10.1186/1471-2164-7-205

Figure Lengend Snippet: Dendrogram showing the relationship of inositol monophosphatase family proteins (IMP) in Actinobacteria and E. coli K-12. A multiple alignment with amino acid sequences of proteins with high similarity to the C. glutamicum IMPs was generated with the use of the DIALIGN2 software. Based on this alignment an unrooted phylogenetic tree was constructed using the neighbour-joining algorithm integrated in the CLUSTALX package and visualized as a radial tree by the TreeTool software. The branches were combined to classes that delivered within the bootstrapping analyses in at least two thirds of the cases the same subtree. These classes, marked by different colours, were named according to the designations in the boxed leaves. The locus tags (leaves) were obtained from the GenBank genome entries. C. glutamicum proteins are printed in bold letters. Locus tag prefixes denote following organisms (c, complete genome sequence; da, draft assembly): Arth ( Arthrobacter sp . FB24; da), BL ( Bifidobacterium longum NCC2705; c), BLinB01 ( Brevibacterium linens BL2; da), DIP ( Corynebacterium diphtheriae NCTC13129; c), CE ( C. efficiens YS-314; c), cg ( C. glutamicum ATCC 13032; c), jk ( C. jeikeium K411; c), Ecoli ( Escherichia coli K-12; c), Francci3 ( Frankia sp . CcI3; c), Franean1 ( Frankia sp . EAN1pec; da), JNB ( Janibacter sp . HTCC2649; da), Krad ( Kineococcus radiotolerans SRS30216; da), Lxx ( Leifsonia xyli subsp. xyli str. CTCB07; c), Micol ( Micromonospora olivasterospora ; da), MAP ( Mycobacterium avium subsp. paratuberculosis K-10; c), ML ( M. leprae TN; c), Rv ( M. tuberculosis H37Rv; c), Mycsm ( Mycobacterium smegmatis str . MC2 155; da), nfa ( Nocardia farcinica IFM 10152; c), Noca ( Nocardioides sp . JS614; da), PPA ( Propionibacterium acnes KPA171202; c), RhoDS7 ( Rhodococcus sp . DS7; da), Rxyl ( Rubrobacter xylanophilus DSM 9941; da), SAV ( Streptomyces avermitilis MA-4680; c), SCO ( S. coelicolor A3(2); c) and Tfu ( Thermobifida fusca YX; c).

Article Snippet: For instance, seven copies of IS L3 family-like sequences in the ATCC 13032 genome prevent the usage of IS 31831 [ ] and related elements (e.g. IS 1207 ) [ ] as well as their derived transposons (e.g. Tn 5531 ) [ ].

Techniques: Generated, Software, Construct, Sequencing