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Main address: www.indkoeb.ku.dk

Acquisition of a high-throughput DNA sequencing system to the Department of Plant and Environmental Science.

Purchase of high-throughput DNA instrument for sequencing of whole genomes and transcriptomes using the sequencing by synthesis (SBS) method. A coupled system of library preparation and high-throughput sequencing will be purchased. This equipment will be used to help to gain a deeper understanding how signalling processes are encoded in the genomes of plants and bacteria.

Purchase of high-throughput DNA instrument for sequencing of whole genomes and transcriptomes using the sequencing by synthesis (SBS) method. A coupled system of library preparation and high-throughput sequencing will be purchased. This equipment will be used to help to gain a deeper understanding how signalling processes are encoded in the genomes of plants and bacteria.

Award of a contract without prior publication of a contract notice in the Official Journal of the European Union (in the cases listed in Section 2 of Annexes D1, D2 or D3 as appropriate).

Justification for the choice of the negotiated procedure without prior publication of a contract notice in the OJEU in accordance with Directive 2004/18/EC of the European Parliament and of the Council.

The products involved are manufactured purely for the purpose of research, experiment, study or development under the conditions stated in the Directive: Yes.

The works/goods/services can be provided only by a particular tenderer for reasons that are technical.

Other justification for the award of the contract without prior publication of a contract notice in the OJEU.

The contract falls outside the scope of application of the Directive.

According to the Directive 2004/18/EC of the European Parliament and of the Council, Article 31,1, Point b, the University of Copenhagen believes that this supplier is the only 1 who can meet our requirements for attaining our research strategy. In the past years, we have committed time and money into sequencing with the SBS methodology and for this reason we cannot change our strategy mid-way. Reference papers detail why the Illumina SBS is superior to other chemistries out there. Notably the output and longer read length which allows for more diverse applications and the quality of the base calling means reduced risk of multiple runs to confirm data. There are also big differences in the work flows as some of the papers mention and compare. Our requirements for a machine that suits our needs are:

— Data quality;

— Homopolymer error should be less than 10-3-automated paired end sequencing, i.e. without the need for taking libraries off the machine;

— SBS chemistry that will allow libraries prepared in the lab to be QC'ed and then used on the HiSeq as per previous experiments, thus the instrument in house instrument needs to scale to the HiSeq;

— Need long read lengths to be able to de novo sequencing, i.e. 600 bp fragments;

— Need 15 Gb output.

According to the Directive 2004/18/EC of the European Parliament and of the Council, Article 31,2, Point b, University of Copenhagen is convinced that, as mentioned above, we have committed time and money into sequencing with the SBS methodology and for this reason we cannot change our strategy mid-way. A change of supplier would largely affect the comparability of results obtained so far.

The Department of Plant and Environmental Sciences studies plant biology, from basic process to field approaches using a variety of methods.

Internet address:http://www.klfu.dk

Internet address:http://www.kfst.dk