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Product Catalogue

The Product Catalogue is an evolving  compilation of  a diverse array of  products derived from tangible outputs of projects supported in whole or in part by the CGIAR Generation Challenge Programme.  As projects mature, more products are added. Products are listed under the specific project crop or ‘Global’.   Under each crop, you will find diverse types of products, such as  germplasm, markers, genomics resources and informatics applications.  ‘Global’ includes products  applicable to several or all crops and generally includes informatics tools and learning materials. We consider all catalogued products as useful. However, our user base is highly varied and includes upstream as well as downstream plant scientists. Not all products will be of direct interest to breeders. Consequently, a BUL (Breeding Use Level) rating has been provided to indicate the direct usefulness of products to breeders:

Breeding Use Levels
BUL Description
1 Ready to use for breeding
(I.e. predictive markers, germplasm of acceptable agronomic type containing a well-defined and characterized trait, and etc.).
2 Qualified use for breeding
(i.e germplasm in which trait genetics have not been well defined or markers that may be informative but not necessarily predictive).
3 Indirectly useful for breeding
(i.e. genomic resources from which downstream products for breeding are developed and many informatics applications).
4 Not developed for breeding, per se
(i.e. miscellaneous information as socio-economic reports).

How to use this table:

  • With the exception of BUL, you can sort by column by clickling on the title of each column
  • You can search for any term, word, or keyword by typing it into the search box above the table
  • You can export data by clicking on the CSV link on the top left-hand side of this page

Product Catalogue

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COM_FABRIK_ORDER

Crop|Area

COM_FABRIK_ORDERProduct COM_FABRIK_ORDER

Type

COM_FABRIK_ORDERDescription COM_FABRIK_ORDERAccess BUL
Groundnuts BAC libraries for wild species of Arachis representing component gemomes of A. hypogea. Genomic Resources Two large-insert libraries in Bacterial Artificial Chromosome (BAC) vector, one for each of the diploid ancestral species were constructed and characterized. The libraries (AA and BB) were respectively c. 7.4 and c. 5.3 genome equivalents with low organelle contamination and average insert sizes of ... (read more) Contact: José Valls, EMBRAPA, Brazil or
David Bertioli, Universidade Catolica de Brasilia, Brazil or Patricia Guimaraes, EMBRAPA, Brazil.

valls@cenargen.embrapa.br
davidbertioli@unb.br messenbe@cenargen.embrapa.br
Global Crop Ontology Tool Informatics Application/Tool The Crop Ontology (CO)Tool currently comprises crop-specific traits for 9 crops. Several plant-structure and anatomy-related terms for banana (Musa spp.), wheat and maize are also included. In addition, multi-crop passport terms are included as controlled vocabularies for sharing information on germ... (read more) Available on-line.

http://www.cropontology.org/
http://koios.generationcp.org/ontology-lookup/
Global The International Treaty on Plant Genetic Resources for Food and Agriculture: Implementing the Multilateral System - Learning Module Training Materials The aim of this learning module is to develop knowledge and skills to implement the multilateral system of access and benefit-sharing of the International Treaty on Plant Genetic Resources for Food and Agriculture and to use The Treaty’s standard material transfer agreement (SMTA).

... (read more)
Bioversity International, Rome, Italy

http://www.bioversityinternational.org/training/training_materials/international_treaty.html
Groundnuts Protocol for reducing the complexity of groundnut DNA sequencing Protocol The protocol will be described as part of a tetraploid groundnut transcriptome publication Not available until October 2011.

Once published, the protocol will be accessible through public portals. The protocol can be obtained at any time from Peggy Ozias-Akins, University of Georgia

pozias@uga.edu
Groundnuts Sequence assembly Data Set Assembly of cDNA sequences from 21 tetraploid groundnut genotypes. Not available until October 2011.

Assembly is available as a fasta file upon request and will be made available for password protected download from http://www.nespal.org/oziasakinslab/index.html. The password can be obtained by e-mailing the PI (pozias@uga.edu). Finally, the assembl... (read more)
Groundnuts GoldenGate SNP array Data Set SNP file used for constructing the GoldenGate array Not available until October 2011.

Access to the SNP file will be at the site provided in the URL field.

http://www.nespal.org/oziasakinslab/index.html
Cowpea An improved cowpea consensus genetic linkage map Genomic Resources The first version of the cowpea consensus genetic linkage map, by Muchero et al. (2009), included 928 markers spanning 11 linkage groups over a total map size of 680 centimorgans (cM). The map was the result of merging genetic maps built from 6 RIL populations that had been genotyped with the 1536 G... (read more) The current SNP-based cowpea consensus genetic linkage map is included in a publicly available browser called HarvEST:Cowpea, which can be downloaded as a Windows software from http://harvest.ucr.edu or operated through an online portal is indicated in the URL field.

http://www.harves... (read more)
Cowpea Polymorphic marker finder tool for cowpea Informatics Application/Tool The “Find Polymorphic Cowpea Markers” tool (Key Product) was developed and applied to identifying the SNP sets. This tool generates a matrix summary of the polymorphic markers between any two cowpea genotypes that have been SNP-genotyped with the 1536 Illumina GG platform (Table 2). The tool a... (read more) Available as one of the utilities in the HarvEST:Cowpea website http://harvest-web.org/ ; the direct link to this site is indicated in the URL field.

http://harvest-web.org/showpoly.wc?organism=cowpea&job=select
Cassava South American drought tolerant varieties of cassava Germplasm 26 South American cassava varieties with varying drought tolerance traits. Contact. A. Alves, USDA-ARS National Center for Genetic Resources Preservation, Ft. Collins, CO, USA

Alfredo.Alves@ars.usda.gov
Cassava Phenotyping traits for drought tolerance in South American cassava Publication Report on drought tolerance traits in cassava identified from an evaluation of physiological traits in drought-tolerance contrasting varieties in multi-locational drought trials conducted in Colombia and Brazil under field and greenhouse conditions. Contact. A. Alves, USDA-ARS National Center for Genetic Resources Preservation, Ft. Collins, CO, USA

Published: Okogbenin, E.; Setter, T.L.; Ferguson, M.; Mutegi, R.; Alves, A.A.C.; Ceballos, H.; Fregene, M. Phenotyping cassava for adaptation to drought. In press. Plubisher: Generatio... (read more)
Cassava Markers for drought tolerance in South American cassava Informative Markers SSR markers for drought tolerance QTL identified from three mapping populations selected for drought tolerance in Colombia and Brazil. Contact. A. Alves, USDA-ARS National Center for Genetic Resources Preservation, Ft. Collins, CO, USA

Alfredo.Alves@ars.usda.gov
Cassava A cassava mapping population for drought tolerance in South America Germplasm A cassava mapping population genotyped with SSR markers for drought tolerance QTL. Contact. A. Alves, USDA-ARS National Center for Genetic Resources Preservation, Ft. Collins, CO, USA

Alfredo.Alves@ars.usda.gov
Wheat Wheat host and non-host genes Genomic Resources Microarray data on host and non-host resistance in wheat to Magnaporthe grisea Plant Expression Data Base, experiment TA24

http://www.plexdb.org/
Wheat SSR non-host markers in wheat Genomic Resources 26 SSR markers for non-host genes to disease in wheat. Primer lists available on request from Jean-Benoit MOREL, Agropolis-INRA

jbmorel@cirad.fr, jsalse@clermont.inra.fr
Sorghum Validated SSR marker kit for diversity analysis of sorghum germplasm collections Genomic Resources The sorghum SSR kit has been elaborated in the frame of a large genotyping project (3400 sorghum accessions x 48 SSR loci) supported by the Generation Challenge Program. It is composed of the allelic sizes of 3 controls for each of the 48 SSR locus. The 3 controls are composed of 10 DNA samples mix... (read more) Avaialble from the ICRISAT web-site: marker reference kits

http://www.icrisat.org/bt-genomics-sorghum.htm
Rice SNP markers developed for bacterial blight resistance in rice Informative Markers Gene-based SNP markers developed for bacterial blight resistrance genes Xa21, xa5 and xa13 Contact: Casiana (Nollie) M. Vera Cruz, IRRI, The Philippines

c.veracruz@cgiar.org
Maize A low-cost QPM detection assay for maize Protocol One low cost, low tech technology – dot blot detection assay – developed with reduced cost for QPM in maize. Breeders have relied on seed phenotyping for QPM selection and some errors occur. The technology provides an important check to improve the error rate for visual phenotyping. Contact: Susanne Dreisigacker, CIMMYT, Mexico

S.Dreisigacker(0)cgiar.org
Rice A laboratory manual for use of low-cost, low tech genotyping for rice breeding programs Publication A laboratory manual developed for low-cost, low tech and low cost, high throughput technologies for breeders or researchers interested in applying these technologies for marker assisted selection. Filter-based and microtiter plate-based technologies adapted for rice and maize breeding programs are d... (read more) Contact: Casiana (Nollie) M. Vera Cruz, IRRI

c.veracruz@cgiar.org
Rice A purified set of 20 lines for standardized genotyping Germplasm Genetic stocks of a genotyping reference set of 20 purified lines chosen by the rice breeding community for genome sequencing, SNP discovery, association mapping and phenotyping. Contact: R. Sackville Hamilton, International Rice Genebank, IRRI, The Philippines

r.hamilton@cgiar.org
Rice A data base of datasets for over 420,000 SNPs in rice Genomic Resources A publicly accessible database with the SNPs datasets annotated relative to the IRGSP and TIGR psuedomolecules and gene models for their annotation and visualization on the rice genome.This database shows this SNP data in the familiar gbrowse format. Users may also access query tools to retrieve SNP... (read more) Publicly assessible on-line.

http://oryzasnp.plantbiology.msu.edu/