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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





Beans A microsatellite kit for the GCP common bean reference germplasm set Genomic Resources Reference kit of 28 SSRs, with sequence list and protocol, germplasm checks, and allele sizes of microsats for those checks Contact S. Beebe, International Center for Tropical Agriculture(CIAT), Cali, Colombia

Beans Primers for genomics studies of common bean Genomic Resources Primers for over 1,500 microsatellites were designed based on 417 simple sequence repeat (SSR) loci from non-enriched genomic libraries (Blair et al., 2009b), 248 gene-based microsatellites (Blair et al. 2009c), 85 AT-rich sequences (Blair et al., 2008) and 89,000 BAC-end sequences which were screen... (read more) Contact Steve Beebe, CIAT, Colombia

Also refer to:

Refer to: 1)Blair MW, Muñoz-Torres M, Giraldo MC, Pedraza F (2009b). Development and diversity of Andean-derived, gene-based microsatellites for common bean (Phaseolus vulgaris L.). BMC Plant B... (read more)
Beans Kaspar markers for gene expression of common bean under drought Genomic Resources A set of qPCR primer pairs for 25 AP2 transcription factors was used in parental surveys to determine polymorphism and develop gene-based genetic markers. To analyse other candidate genes, a subtractive library was created for root tissue under drought versus control treatments. This produced a list... (read more) Contact B. Raatz, CIAT, Cali, Colombia at b.raatz@cgiar.org
Beans A common bean reference set of Andean germplasm Germplasm A Phaseolus reference set of 314 andean accessions genotyped with 36 SSR Contact S. Beebe, International Center of Tropical Agriculture, Kali, Colombia

Common Bean Two drought tolerant lines of common bean Germplasm Inter-genepool crosses were made from five commercial genotypes from southern Africa and ten sources of drought tolerance. Of the latter, half were Andean and half were Mesoamerican. 46 populations were advanced to the F4 generation and more than 1,500 single plant selections from the most promising... (read more) B. Raatz, CIAT, Cali, Colombia at b.raatz@cgiar.org to provide names, details.
Beans INTA Fuerte Sequía, a drought tolerant variety of common bean from Nicaragua Germplasm Inta Fuerte Sequia is recommended for zones with limited water in Nicaragua. Good yields were indicated under seasonal rainfall levels of less than 200 mm. The grain is dark and similar to others currently under cultivation locally and regionally. The variety is resistant to Bean Golden Yellow Mos... (read more) Contact, Aurelio Llano. Investigador Nacional, Instituto Nicaragüense de Tecnología Agropecuaria (INTA)
Programa de Frijol, Managua, Nicaragua

Beans A novel SNP detection technique for common bean Protocol A new SNP detection technique was developed based on heteroduplex digestion with CelI enzyme that is useful for conversion of resistance markers Galeano CH, Gomez M, Rodriguez LM, Blair MW (2009) CEL I nuclease for SNP discovery and marker development in common bean (Phaseolus vulgaris L.) Crop Science 49 381-394 (DOI: 10.2135/cropsci2008.07.0413).

Also contact S.Beebe, CIAT, Cali, Colombia
at s.beebe@cgiar.org
Beans A diversity analysis of the GCP reference collection for common bean Publication A study of genetic diversity, seed size associations and population structure of a core collection of common beans Blair MW, Díaz LM, Buendia HF, Duque MC (2009a). Genetic diversity, seed size associations and population structure of a core collection of common beans (Phaseolus vulgaris L.). Theoretical and Applied Genetics 119: 955-73. DOI: 10.1007/s00122-009-1064-8a
Chickpea A microsatellite kit for the GCP chickpea reference germplasm set Genomic Resources Reference kit of 35 SSRs, with sequence list and protocol, germplasm checks, and allele sizes of microsats for those checks Contact Jean-Francois Rami, CIRAD, Montpellier France

Chickpea DaRT marker array for chickpea Genomic Resources An array of DArT markers for chickpea discovered by screening a library of several thousand fragments from a genomic representation prepared from a pool of DNA samples that encompass the diversity of the species. The use of the microarray platform make s this tool very efficient because all markers ... (read more) Available through Diversity Arrays Technology Pty Ltd (DArT P/L)

Chickpea A validated Chickpea germplasm reference collection Genomic Resources The Chickpea Reference Set is composed of a core set of accessions representing the genetic diversity of the entirety of the ICRISAT germplasm bank collection. The reference set represents a critical resource for plant scientists to study new adaptative traits, discover new favorable alleles and als... (read more) The International Crops Research Institute for the Semi-Arid Tropics (ICRISAT) Germplasm Bank
Chickpea A SNP dataset for chickpea Genomic Resources A set of 2,005 SNPs validated and optimzed by KASPar assays (Hiremath et al. 2012, Plant Biotech Journal, in revision) Contact Rajeev Varshney, ICRISAT

Chickpea SSR markers for chickpea Genomic Resources A total of 1655 SSR markers (Table 1) were developed from enriched libraries (311; Nayak et al, 20092010, Theor Appl Genet 120: 1415-1441) and BAC-end sequences (1344, Varshney et al, 2009aThudi et al. 2011, PLoS ONE 6(11): e27275). Contact R. K. Varshney, International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Patancheru, India.

Also refer to: 1) Nayak S, Zhu H, Varghese N, Choi H-K, Datta S, Horres R, Jüngling R, Singh J, PB Kavi Kishor, Kahl G, Winter P, Cook... (read more)
Chickpea A reference genetic map for chickpea Genomic Resources A comprehensive genetic map comprising 1,291 marker loci including SSRs, DArTs and SNPs on eight linkage groups (LGs) spanning a total of 845.56 cM distance was developed The number of markers per linkage group ranged from 68 (LG 8) to 218 (LG 3) with an average inter-marker distance of 0.65 cM. Contact R. K. Varshney, International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Patancheru, India


Also refer to: Thudi M, Bohra A, Nayak SN, Varghese N, Shah TM, Penmetsa RV, Nepolean T, Srivani G, Gaur PM, Kulwal PL, Upadhyaya... (read more)
Chickpea Drought and salinity reponsive ESTs in the chickpea genome Genomic Resources A total of 20,162 (18,435 high quality) drought- and salinity- responsive ESTs were generated from ten different root tissue cDNA libraries of chickpea. Sequence editing, clustering and assembly analysis resulted in 6,404 unigenes (1,590 contigs and 4,814 singletons). Open Access - http://www.biomedcentral.com/1471-2164/10/523

Also refer to:Varshney RK, Hiremath PJ, Lekha P, Kashiwagi J, Jayashree B, Deokar AA, Vadez V, Xiao Y, Srinivasan R, Gaur PM, Siddique KHM, Town CD and Hoisington DA (2009b). A comprehensive resource of drought- and salinity-... (read more)
Chickpea Chefe: A drought tolerant chickpea cultivar for Ethiopia Germplasm Three cultivars were selected for introgression of drought avoidance root traits through marker-assisted backcrossing: ICCV 92318, ICCV 92311, and ICCV 93954. Crosses were made with the donor parent (ICC 4958), and then backcrossed. "Chefe" was derived from these backcrosses. This cultivar is expe... (read more) Contact R. K. Varshney, International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Patancheru, India

Chickpea QTL for drought tolerance in chickpea Informative Markers QTL associated with a ‘hotspot' harbouring several for root-related traits for drought tolerance contributing about 30 percent of phenotypic variation as well as for CID (60 percent of phenotypic variation) including four other minor effect QTL. Contact R. K. Varshney,International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Patancheru, India for markers..

Cowpea A major QTL for Fusarium resistance in cowpea Gene QTL marking the genomic region conferring resistance to Fusarium wilt derived from phenotyping two RIL populations. A major gene for resistance to race 3 of Fusarium wilt was mapped from RIL analysis, and confirmed by analysis of closely related cultivars that differed in resistance Contact Jeff Ehlers, Unversity of California - Riverside, Riverside, CA USA (jeff.ehlers@ucr.edu)

Manuscript submitted to PLoS ONE Aug. 2011: Pottorff M, Diop NN, Wanamaker S, Ma Y, Ta C, Ehlers JD, Roberts PA and Close TJ (2011) Genetic Mapping, Physical Location, Synteny and Candid... (read more)
Cowpea A physical genetic map of cowpea Genomic Resources The automated, high-throughput, high-information-content fingerprinting technique (Luo et al. 2003) was adopted to fingerprint 60,000 BACs from African breeding genotype IT97K-499-35. The final physical map is an assembly of 43,717 BACs with a depth of 11x genome coverage. The clones were assembled ... (read more) Contact Dr. Ming-Ching Luo, University of California (Davis) at mcluo@ucdavis.edu

URL: Http://phymap.ucdavis.edu/cowpea/
Also refer to: Muchero W, Diop NN, Bhatt PR, Fenton RD, Wanamaker S, Pottorff M, Hearne S, Cisse N, Fatokun C, Ehlers JD, Roberts PA and Close TJ (2009a).... (read more)
Cowpea HarvEST:cowpea Genomic Resources A full-function, online cowpea genomics browser Contact Jeff Ehlers, Unversity of California - Riverside, Riverside, CA USA (jeff.ehlers@ucr.edu)