Transcriptome atlas of Glycine max

Marc Libaulta, Andrew Farmerb, Trupti Joshic, Kaori Takahashia, Raymond J. Langleyb, Franklin D. Levic, Ji Hed, Dong Xuc, Gregory Mayb, Gary Staceya

aDivision of Plant Sciences, National Center for Soybean Biotechnology, C.S. Bond Life Sciences Center, University of Missouri, Columbia, MO 65211, USA.

bNational Center for Genome Resources, 2935 Rodeo Park Drive East, Santa Fe, NM 87505, USA.

cComputer Science Department, C.S. Bond Life Sciences Center, University of Missouri, Columbia, MO 65211, USA.

dPlant Biology Division, Samuel Roberts Noble Foundation, Ardmore, OK 73401, USA

Abstract

Soybean (Glycine max L.) is one of the major crops because an important source of proteins and oil and also due to its potential in producing biofuel. On a more biological aspect, soybean is an attractive model to investigate mutualistic interaction with soil bacteria, symbiosis leading to the development of a new plant organ named nodule where differentiated bacteria fix and assimilate atmospheric nitrogen for the plant. Recently, the DOI-JGI completed the first draft of soybean genome. The prediction of 69145 putative soybean transcripts associated to the development of new sequencing technologies allows a complete analysis of the expression of soybean genes. Using such advantages, we have generated a gene expression atlas of soybean by using Solexa sequencing technology. Our analysis provided an experimental support of the transcription of 55616 annotated genes among the 69145 predicted genes. On the other hand, our data suggested 13529 soybean genes are putative pseudogenes and 1736 unannotated sequences are newly annotated genes. A comprehensive analysis of this atlas reveals strong differences of the gene expression pattern through the different tissues especially between root and aerial organs but also highlighted similarities such as between flower and leaf organs.

Soybean Genome Browser

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