DTMA genotyping call

The DTMA project would like to open the call for partner genotyping for 2010.

Genotyping services offered are detailed below. Any requests for genotyping need to reflect the aims of the DTMA project; materials must be DT or must be parents with high value characteristics that will be/are being used in DT breeding work.

Proposals submitted for consideration need to detail:

• the objective of the genotyping (examples could include. using genotyping for seed quality control for drought tolerant germplasm or using genotyping for genetic distance analysis in order to select parents for drought tolerant hybrid crosses, but others will be considered).
• the germplasm to be tested and characteristics (i.e. indicate the name of the line and pedigree and define known characteristics; drought tolerant, disease resistant (MSV, GLS)
• timeline for sample submission

The services provided are:

Service	Uses	Notes
SNP genotyping of up to 100 inbred lines with 50 SNP#. For each inbred line four bulk samples of eight plants per bulk will be required.	Quality control of lines. Assesses level of  uniformity and serves as a reference point for future seed generation	DT germplasm or parents used in generation of DT hybrids/OPVs. CIMMYT / IITA materials may be listed but will not be included if data are already available
SNP genotyping of up to 40 inbred lines with 200 SNP#. One bulk of eight plants will be required per inbred line.	Diversity assessment of own materials and comparison with CIMMYT/IITA materials	DT germplasm or parents used in generation of DT hybrids/OPVs. CIMMYT / IITA materials may be listed but will not be included if data is already available.
Bulk SSR genotyping of 20 samples of OPV or hybrid (these can be different materials or the same materials from different sources. 20 individual plants per sample will be required) with up to 40 SSRs (actual number will be defined by variability observed) ‡	Identify OPV and hybrid seed in market. Evaluate efficiency of OPV and hybrid production by out growers.	Registered DT materials only
# Partners will receive kits to harvest and send leaf samples to the laboratory providing the genotyping service. Partner will receive back a table detailing the SNP data calls of the materials submitted. ‡ Partners will submit seed or leaf to labs in Kenya (partners in E and S Africa) or Nigeria (partners in W and C Africa) for genotyping. Partners will receive a spreadsheet detailing the SSR data calls of the materials submitted

In addition to the services provided, we will also consider proposals from DTMA partners to conduct genotyping in their own facilities, though these proposals must be competitive with existing services. The total budget should not exceed $4000 and funds should cover laboratory and technical staff requirements, not field activities. Such proposals need to detail;

• the objective of the genotyping e.g. using genotyping for seed quality control for drought tolerant germplasm or using genotyping for genetic distance analysis in order to select parents for drought tolerant hybrid crosses
• the germplasm to be tested and characteristics (i.e. indicate the name of the line and pedigree and define known characteristics; drought tolerant, disease resistant (MSV, GLS)
• the marker system suggested (SSR, SNP)
• workplan with timeline
• budget
• the proposed location of the genotyping.

DNA extraction and genotyping facilities are available for use by DTMA partners at hubs in Kenya and Nigeria. SSR genotyping can be done at the hubs either by DTMA staff as needed or by PIs/co PIs of funded projects (lab experience required). For further information on costs please contact Sarah Hearne (shearne@cgiar.org) for information on Nigeria operations and Kassa Semagn (k.semagn@cgiar.org) for information on Kenyan operations. Only operational costs can be covered, costs for accommodation, travel and living expenses must be funded by applicants.

Responses to the call are to be submitted in electronic format to Sarah Hearne (shearne@cgiar.org). There is no closing date for the call. Projects will be funded continuously as budget allows. Proposals will be assessed by a panel of experts and judged according to their relevance to DTMA objectives. Up to 16 projects will be funded for E and S Africa and 8 projects for W and C Africa.