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Identification of tissue-specific gene clusters and orthologues of nodulation-related genes in Vigna angularis

Published online by Cambridge University Press:  16 July 2014

Yang Jae Kang ,
Jayern Lee ,
Yong Hwan Kim  and
Suk-Ha Lee
Yang Jae Kang
Affiliation:
Department of Plant Science and Research Institute for Agriculture and Life Sciences, Seoul National University, San 56-1, Sillim-dong, Gwanak-gu, Seoul151-921, Republic of Korea
Jayern Lee
Affiliation:
Department of Plant Science and Research Institute for Agriculture and Life Sciences, Seoul National University, San 56-1, Sillim-dong, Gwanak-gu, Seoul151-921, Republic of Korea
Yong Hwan Kim
Affiliation:
Korea Institute of Planning and Evaluation for Technology in Food, Agriculture, Forestry and Fisheries, Anyang-si, Republic of Korea
Suk-Ha Lee*
Affiliation:
Department of Plant Science and Research Institute for Agriculture and Life Sciences, Seoul National University, San 56-1, Sillim-dong, Gwanak-gu, Seoul151-921, Republic of Korea Plant Genomics and Breeding Research Institute, Seoul National University, Seoul151-921, Republic of Korea
*
* Corresponding author. E-mail: [email protected]
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Abstract

Nitrogen fixation in legumes is an important agricultural trait that results from symbiosis between the root and rhizobia. To understand the molecular basis of nodulation, recent research has been focused on the identification of nodulation-related genes by functional analysis using two major model legumes, Medicago truncatula and Lotus japonicus. Thus far, three important processes have been discovered, namely Nod factor (NF) perception, NF signalling and autoregulation of nodulation. Nevertheless, application of the results of these studies is limited for non-model legume crops because a reference genome is unavailable. However, because the cost of whole-transcriptome analysis has dropped dramatically due to the Next generation sequencer (NGS) technology, minor crops for which reference sequences are yet to be constructed can still be studied at the genome level. In this study, we sequenced the leaf and root transcriptomes of Vigna angularis (accession IT213134) and de novo assembled. Our results demonstrate the feasibility of using the transcriptome assembly to effectively identify tissue-specific peptide clusters related to tissue-specific functions and species-specific nodulation-related genes.

Keywords

de novo transcriptome assemblynodulationRNAseqVigna angularis
Type
Research Article
Information
Plant Genetic Resources , Volume 12 , Issue S1: Special issue on the 3rd International Symposium on “Genomics of Plant Genetic Resources” , July 2014 , pp. S21 - S26
Copyright
Copyright © NIAB 2014 

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