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Tropical Plant Biology

, Volume 5, Issue 1, pp 140–151 | Cite as

Information Resources for Cassava Research and Breeding

  • Sarah Ayling
  • Morag Ferguson
  • Steve Rounsley
  • Peter Kulakow
Article

Abstract

Cassava is a globally important food security and industrial crop produced for food, feed, starch and biofuel. Cassava is drought-tolerant and can grow in poor soils. Roots can be stored in the ground for long periods as part of intact growing plants, allowing flexible harvest times for poor farmers in the tropics. In addition, due to cassava’s inherently high starch content, it is a popular source of carbon for industrial purposes and increasingly biofuel. It is, however, relatively low in nutrients and susceptible to several pests and diseases, including attacks from whitefly, mealybug, green mite, cassava mosaic viruses and cassava brown streak viruses. A number of groups worldwide are working to improve cassava by conventional breeding, by molecular marker-aided breeding, and through the use of transgenic approaches. To facilitate the work of these groups, easy access to up-to-date and integrated information resources are essential to enable knowledge sharing and data mining. Here we review the information resources currently available to breeders and researchers and discuss future directions for the cassava community’s data integration and curation.

Keywords

Database Informatics Manihot esculenta Genome Curation Resource Integration 

Abbreviations

AATF

African Agricultural Technology Foundation

AFLP

Amplified Fragment Length Polymorphism

CABI

Centre for Agricultural Bioscience International

CAMBIA

Center for the Application of Molecular Biology to International Agriculture

CATAS

Chinese Academy of Tropical Agricultural Sciences

CBSD

Cassava Brown Streak Disease

CBSV

Cassava Brown Streak Virus

CGIAR

Consultative Group on International Agricultural Research

CIAT

Centro Internacional de Agricultura Tropical

DMS

Data Management System

DOE JGI

Department of Energy Joint Genome Institute

EMBRAPA

Empresa Brasileira de Pesquisa Agropecuária

EST

Expressed Sequence Tag

ESTIMA

EST Information Management Application

ETH Zurich

Swiss Federal Institute of Technology Zurich

FTO

Freedom To Operate

GCP

Generation Challenge Program

GEOSHARE

Geospatial Open Source Hosting of Agriculture, Resources and Environmental Data

GIS

Geographic Information System

GMS

Geneology Management System

ICIS

International Crop Information System

IITA

International Institute of Tropical Agriculture

IP

Intellectual Property

NARS

National Agricultural Research Systems

NCBI

National Center for Biotechnology Information

NRCRI

National Root Crops Research Institute

PIPRA

Public Intellectual Property Resource for Agriculture

PlantTFDB

Plant Transcription Factor Database

PlnTFDB

Plant Transcription Factor Database

PMN

Plant Metabolic Network

QTL

Quantitative Trait Loci

RAPD

Randomly Amplified Polymorphic DNA

RFLP

Restriction fragment Length Polymorphism

RIKEN

Rikagaku Kenkyusho (Institute of Physical and Chemical Research Japan)

SCCB

Shanghai Center for Cassava Biotechnology Chinese Academy of Sciences

SINGER

System-wide Information Network for Genetic Resources

SNP

Single Nucleotide Polymorphism

SRAP

Sequence-Related Amplified Polymorphism

SSR

Simple Sequence Repeat

USDA

United States Department of Agriculture

WHO

World Health Organization

Notes

Acknowledgements

The authors would like to thank the anonymous reviewers and acknowledge contributions from a number of members of the cassava community for reviewing the white paper draft upon which this review has been based:

Olalekan Akinbo, Luis Augusto Becerra Lopez Lavalle, Luiz Carvalho, Claude Fauquet, Melaku Gedil, Clair Hershey, Glenn Hyman, Andy Jarvis, Joseph Kamau, Pheneas Ntawuruhunga, Motoaki Seki, Peng Zhang

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Copyright information

© Springer Science+Business Media, LLC 2012

Authors and Affiliations

  • Sarah Ayling
    • 1
  • Morag Ferguson
    • 2
  • Steve Rounsley
    • 3
  • Peter Kulakow
    • 4
    • 5
  1. 1.The Genome Analysis Centre (TGAC), Norwich Research ParkNorwichUK
  2. 2.International Institute of Tropical Agriculture (IITA)c/o International Livestock Research Institute (ILRI)NairobiKenya
  3. 3.Dow AgroscienceIndianapolisUSA
  4. 4.International Institute of Tropical Agriculture (IITA)IbadanNigeria
  5. 5.IITACroydonUK

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