The Arabidopsis Lipid Gene Database

The database has been designed and is updated by Fred Beisson (Laboratory of John Ohlrogge, Michigan State University)

Purposes

I) to improve the quality of the annotation of Arabidopsis genes related to acyl lipid metabolism

II) to provide the plant lipid community with a common platform of information, where new data can be collected and organized, in order to take advantage of their accumulation

III) to define gaps in the knowledge of plant lipid metabolism and highlight where additional work is needed

IV) to provide a tool for the comparison of the metabolism and the biology within the lipid field, between Arabidopsis and other plants, and between plants and non-plants

Contents

I) A catalog of Arabidopis genes known or suspected to be involved in acyl lipid metabolism with links to other databases and literature

II) Some diagrams of the various reactions of acyl lipid metabolism in Arabidopsis

III) Some data on the number of ESTs associated with each lipid gene and a statistical analysis of their distribution in organs

Contributors

The Arabidopsis Lipid Gene Database is based on the initial Lipid Gene Catalog of Sergei Mekhedov :

http://www.canr.msu.edu/lgc/

Mekhedov, S., de Ilárduya, O., and Ohlrogge., J.(2000)

TOWARDS A FUNCTIONAL CATALOG OF THE PLANT GENOME:

A SURVEY OF GENES FOR LIPID BIOSYNTHESIS, Plant Physiology 122:389-401

The Catalog has been expanded and updated by members of the Plant Lipid Metabolism lab:

Fred Beisson, Abraham J.K. Koo, Sari Ruuska, Jörg Schwender, Vandana Mhaske, Troy Paddock, Anne Milcamps, Joaquín Salas, Jay Thelen, Linda Savage, Younghee Cho, Mike Pollard and John Ohlrogge

Thanks to Drs. Vincent Arondel, Christoph Benning, John Browse, Edgar Cahoon, Kent Chapman, Margrit Frentzen, Ian Graham, Sergei Mekhedov, Martine Miquel, Hajime Wada and Xuemin Wang for giving expert advice on some gene families or suggesting gene candidates

The analysis of the distribution of ESTs in tissues has been developed by Fred Beisson

Thanks to Matt Larson and Drs. Robert Halgren, Curtis Wilkerson and Ann Jones (MSU) for their help in computing the probabilities

The updating of the database depends mainly on outside contributions. If you have recently characterized a new Arabidopsis protein involved in acyl lipid metabolism and demonstrated its molecular function, you are encouraged to submit a summary that will help us to quickly update the database. This summary should ideally include:

the Arabidopsis locus (Atxgxxxxx)

the molecular function- and subcellular localization when available (e.g. phospholipase A2, cytosolic)

the TIGR Tentative Consensus number

the reference of your publication (Pubmed # if possible) demonstrating the molecular function and/or the subcellular localization of the protein

the Genbank accession number if you have isolated a cDNA

For any contribution, as well as for questions or comments about the Arabidopsis Lipid Gene Database, please send an email to:

beisson@msu.edu

Your contribution will be gratefully acknowledged

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