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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
Global Dayhoff: A catalogue of plant gene orthologs and paralogs Informatics Application/Tool The GCP has developed Dayhoff, the ortholog gene catalogue. (http://202.123.56.214:8080/DayhoffWeb2/) Dayhoff documents stress-responsive genes comparatively across plant species. It is a compendium of protein families, phylogenetic trees and multiple sequence alignments with the associated experime... (read more) Viewable and downloadable from the Generation Challenge Programme website

http://www.generationcp.org/ready_to_use_
software_packages
Global QuLine: Software for optimizing marker-assisted breeding systems for drought tolerance in cereals Informatics Application/Tool QuLine module, maintenance and update of the breeding simulation tool (QuLine) (version 1.4 released in July 2006; a new version will be released in late 2007) can simulate all aspects of conventional and marker-assisted selection for inbreeding crops; QugMan editor, completion of a prototype editor... (read more) http://www.uq.edu.au/lcafs/index.html?page=59974

Contact:Scott Chapman, CSIRO, Australia
Scott.Chapman@csiro.au
Global Laboratory Information Management System (LIMS) for high-throughput molecular genotyping Informatics Application/Tool The LIMS developed by ICRISAT meets the needs of a moderately high-throughput molecular genotyping facility. The ICRISAT LIMS is being used at the genomics laboratory facilities in ICRISAT-Patancheru. During 2005, the existing ICRISAT MS-Windows based LIMS was recoded as a platform independent, mult... (read more) Contact Trushar Shah, International Crops Research Institute for the Semi-Arid Tropics(ICRISAT)

TM.Shah@cgiar.org
Global QU-GENEUI software for simulation of conventional and marker-assisted breeding Informatics Application/Tool QU-GENEUI is a package of tools and includes QUGENE, and it's supporting applications, QuLine, QuHybrid, QuMARS and installation and usage manuals.QU-GENE is a simulation software to investigate the characteristics of genetic material undergoing repeated cycles of selection and molecular marking. I... (read more) Directly downloadable through https://www.integratedbreeding.net/ib-tools/breeding-decision
Global Generation Atlas Informatics Application/Tool Generation Atlas is online maps and tools for researchers, students, policy analysts and others interested in crop improvement. Developed by the Generation Challenge Programme, it uses map server technology to allow users to explore constraints and opportunities of agricultural production throughout... (read more) Viewable and usable from the Generation Challenge Programme website (www.generationcp.org)

http://www.generationcp.org/gcpatlas/
Global HaploPhyle Informatics Application/Tool Haplophyle is a pipeline for the analysis of genotyping data which includes haplotype definition, haplotype network analysis and connection with external data, such as geographic origin or genetic group assessment. Direct on-line access:

http://haplophyle.cirad.fr
Global Genetics and Breeding Simulation Tools Informatics Application/Tool Tools that can be used to simulate and compare different breeding methods for both self- and cross-pollinated crops Contact Mark Dieters, UQ, Australia (m.dieters@uq.edu.au)
Jiankang Wang, CIMMYT China / CAAS, China (jkwang@cgiar.org)

http://www.uq.edu.au/lcafs/qugene/
Global QTL Mapping Software Informatics Application/Tool A software helps to build the genetic linkage map and conduct QTL mapping for many genetic populations Jiankang Wang, CIMMYT/CAAS, Beijing, China

(jkwang@cgiar.org; wangjk@caas.net.cn)

http://www.isbreeding.net/
Global GCP Molecular Marker Toolkit Informatics Application/Tool The Toolkit is a publicly available and easy accessible database for currently available and validated markers for 19 food security crops. The 19 crops currently covered are Musa spp., barley, beans, cassava, chickpea, coconut, cowpea, faba bean, groundnut, lentils, maize, millet, pigeonpea, potato,... (read more) Viewable and accessible from Generation Challenge Programme website (www.generationcp.org)

http://www.enerationcp.org/sp5/MM-Toolkit
Global Molecular Marker Toolbox Informative Markers A searchable database on molecular markers useful for marker-assisted selection in 19 food security crops. Information on molecular markers for MAS is often scattered in often difficult accessible information sources. Molecular Marker Toolkit(MM Toolkit) was developed to provide that kind of informa... (read more) Viewable and accessible from Generation Challenge Programme website (www.generationcp.org)

http://s2.generationcp.org/gcp-tmm/web/
Global Publication: Targeting and Impact Analysis of Generation Challenge Programme Technologies Publication A final technical report on GCP project no. G4006.13, Targeting and Impact Analysis of Generation Challenge Programme Technologies. Geographic distribution and the magnitude of poverty in the 14 GCP priority farming systems; Crop-specific modelling of drought severity and type; Analysis of GCP prior... (read more) Summary available from the Generation Challenge Programme, Brief no. 1, Where in the world do we start? (www.generationcp.org)

a.okono@cgiar.org
Global Publication: Ex Ante Impact Analysis of Marker-Assisted Selection Technologies Supported by the Generation Challenge Programme (GCP) Publication A final technical report for GCP project no. G4006.14,Ex Ante Impact Analysis of Marker-Assisted Selection Technologies Supported by the Generation Challenge Programme (GCP). Construct technology-impact pathways for rice and cassava molecular-assisted breeding projects; gather secondary data on pri... (read more) Summary of report available from the Generation Challenge Programme as Pathways to Impact, Brief no.3, Molecular and conventional breeding through an economic lens.(www.generationcp.org)

a.okono@cgiar.org
Global Quantitative PCR assays for key pathogens Publication RT-PCR assays for Setosphaeria turcica and Aspergillus flavus Contact R. Nelson,Cornell University, Ithaca, NY USA

jmn99@cornell.edu
Global Presentations of four workshop courses on phenotypic and marker-based analysis of multi-environment data. Training Materials Workshop courses to explore methodology based on mixed models to perform QTL mapping using multiple traits and multiple environments simultaneously. The approach allows investigating issues related to: a) the causes underlying GxE (QTLxE), b) the causes of genetic correlations between traits (pleiot... (read more) Viewable and downloadable from the Generation Challenge Programme website

http://www.generationcp.org/advanced_course_on_designanalysis_of_multienvironment_trialsqtlbasedzaragoza_sep_2005
Global A document describing the GCP product delivery strategy. Training Materials The Delivery Strategy Document resulted from a workshop following an e-forum that took place on line from April 11th to May 6th, 2005.The results of the e-forum were then synthesized and used as a starting point for the Working Group that met in Cali, Colombia, from 5-7 July 2005, to discuss the del... (read more) Viewable and downloadable from the Generation Challenge Programme website

http://www.generationcp.org/UserFiles
/File/FINAL%20Delivery%20Strategy-Nov%202005_logo.pdf
Global Powerpoint presentations on the use of plant genetic diversity and molecular marker assisted breeding - Chile Training Materials A training workshop commissioned by the Generation Challenge Programme was held in Santiago, Chile to provide both conceptual and hands-on training in the use of plant genetic diversity and molecular marker assisted breeding. Emphasis was placed on practical applied usage and improving the links bet... (read more) Viewable and downloadable from GCP web-site - Capacity Building Corner

http://www.generationcp.org/capcorner.php?da=0532932
Global Powerpoint presentations on the use of plant genetic diversity and molecular marker assisted breeding - Pretoria, SA Training Materials The objectives of this workshop were to provide both conceptual and hands-on training in the use of plant genetic diversity and molecular marker assisted breeding, with emphasis on practical applied usage and improving the links between plant breeding, germplasm management and utilization, and molec... (read more) Viewable and downloadable from GCP website - Capacity Building Corner

http://www.generationcp.org/capcorner.php?da=0645127
Global Powerpoint presentations on the use of plant genetic diversity and molecular marker assisted breeding - Thailand Training Materials All final materials used and powerpoint presentations for Plant Genetic Diversity and Molecular Marker Assisted Breeding Workshop, along with a list of participants names and contact information posted on the GCP SP5 website Viewable and downloadable from GCP website, Capacity Building Corner

http://www.generationcp.org/sp5/?da=0749140
Global Presentations on scientific project proposal writing Training Materials Workshops held in Cotonou, Benin, Kuala Lumpur, Malaysia and Quito, Ecuador. These workshops were designed to help scientists who are planning, writing, or reviewing concept notes and proposals to submit to international donors. The Generation Challenge Programme sponsored the development of the tra... (read more) Viewable and downloadable on GCP website, Capacity Building Corner

http://www.generationcp.org/capcorner.php?da=0532853
Global Training materials on plant genetic resource policy issues Training Materials A course curriculum and training materials have been developed for international/regional workshops to train research managers and scientists on plant genetic resource policy issues, with special focus on the development of institutional policies and tools for Freedom to Operate, i.e. IPR and ABS. T... (read more) The training materials are available on CD by request to the Generation Challenge Programme

a.okono@cgiar.org