Within CYANOTOX we focused our effort on obtaining the complete sequences of genes involved in microcystin production (mcy genes) of a Planktothrix strain. We could use our experience obtained by isolating and sequencing the mcy genes of Microcystis aeruginosa strain PCC 7806 (Tillett et al., 2000).
We performed PCR with the primer pairs MTF2 and MTR2 (Neilan et al., 1999) using total genomic DNA of the microcystin producing strain P. agardhii CYA 126/8 as template. The resulting amplicon was cloned in the pGEM-T vector and 20 clones were randomly sequenced. Four different peptide synthetase gene fragments were obtained, one of which showed 75% homology on amino acid level to McyA of M. aeruginosa.
This fragment was used to screen a genomic library of P. agardhii CYA 126/8. The initial phagemid clone encoded a protein with homology to a larger part of McyA from M. aeruginosa, including the very characteristic condensation domain. Subsequently 60kb were sequenced from overlapping phagemid clones spanning the putative microcystin biosynthesis gene cluster and flanking regions The sequence has been deposited in the database (EMBL).
Sequence analysis of the mcy region revealed a cluster of 9 genes that are, according to the results of gene mutation involved in microcystin biosynthesis in P. agardhii. Eight of these genes (mcyA, B, C, D, E, G, H, J) show significant similarity to mcy genes from M. aeruginosa encoding peptide synthetases, polyketide synthases and modifying enzymes.
At the 5'- end of the gene cluster and transcribed in the opposite direction, an additional ORF was found showing homology to genes and gene domains, respectively, encoding thioesterases. The ORF was designated mcyT. It is not contained in the mcy gene cluster of Microcystis. In contrast, two ORFs, present in Microcystis, are missing: the racemase gene mcyF and mcyI, an ORF, having a similarity to D-3-phosphoglycerate dehydrogenases genes.
The arrangement of the mcy genes clearly differs from that in Microcystis. In Microcystis, mcyA-C and McyD-J form two operons that are transcribed bi-directionally from an internal promoter region (Kaebernick et al. 2002). In contrast, the mcy genes of Planktothrix (except mcyT) are all on the same strand and might be transcribed into one polycistronic mRNA.
Based on the sequences of mcy genes obtained from different cyanobacterial genera by the CYANOTOX partners at Humboldt University and the University of Helsinki, primers for PCR could be designed that amplify specifically genes formicrocystin biosynthesis from these species (Neilan et al. 1999, Hisbergues et al. 2002).
For early warning it would be particularly useful to have primers that allow for the sensitive detection of mcy genes, i.e. for the discrimination by PCR between microcystin¿producing strains from non-producing-ones in any relevant genus. We found that PCR with primers designed to amplify part of the condensation domain of mcyA gene is a powerful means to detect microcystin-producing strains in the 3 major producer genera: Microcystis, Anabaena, Planktothrix but also in one microcystin-containing Nostoc strain. Moreover, RFLP analysis of the PCR products and sequencing permit undoubtedly the determination of the genus of the toxic cyanobacteria. The applicability of these primers was tested on natural samples.