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The Plant Genome Abstract - Original Research

Parallel Sequencing of Expressed Sequence Tags from Two Complementary DNA Libraries for High and Low Phosphorus Adaptation in Common Beans


This article in TPG

  1. Vol. 4 No. 3, p. 204-217
    unlockOPEN ACCESS
    Received: Feb 19, 2011

    * Corresponding author(s): mwb1@cornell.edu
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  1. Matthew W. Blair ,
  2. Andrea C. Fernandez,
  3. Fabio Pedraza,
  4. Monica C. Muñoz-Torres,
  5. Nuwan Sella Kapu,
  6. Kathleen Brown and
  7. Jonathan P. Lynch
  1. M.W. Blair, A.C. Fernandez, F. Pedraza, and M.C. Muñoz-Torres, Bean Project and Biotechnology Unit, International Center for Tropical Agriculture (CIAT), A.A. 6713, Cali, Colombia; M.W. Blair, Dep. of Plant Breeding, Emerson Hall, Cornell Univ., Ithaca, NY 14853; A.C. Fernandez, current address: Department of Agronomy, Sugarbeet and Bean Research Unit, USDA-ARS, East Lansing, MI; F. Pedraza, current address: Sun Seeds, ND; M.C. Muñoz-Torres, current address: Dep. of Biology, Georgetown Univ., Washington, DC 20057; N.S. Kapu, current address: Forest Products Biotechnology/Bioenergy Group, Faculty of Forestry, The University of British Columbia, 2424 Main Mall, Forest Science Ctr., Vancouver, BC, Canada, V6T 1Z4; K. Brown and J.P. Lynch, Dep. of Horticulture, 102 Tyson Building, Pennsylvania State Univ., University Park, PA 16802


Expressed sequence tags (ESTs) have proven useful for gene discovery in many crops. In this work, our objective was to construct complementary DNA (cDNA) libraries from root tissues of common beans (Phaseolus vulgaris L.) grown under low and high P hydroponic conditions and to conduct EST sequencing and comparative analyses of the libraries. Expressed sequence tag analysis of 3648 clones identified 2372 unigenes, of which 1591 were annotated as known genes while a total of 465 unigenes were not associated with any known gene. Unigenes with hits were categorized according to biological processes, molecular function, and cellular compartmentalization. Given the young tissue used to make the root libraries, genes for catalytic activity and binding were highly expressed. Comparisons with previous root EST sequencing and between the two libraries made here resulted in a set of genes to study further for differential gene expression and adaptation to low P, such as a 14 kDa praline-rich protein, a metallopeptidase, tonoplast intrinsic protein, adenosine triphosphate (ATP) citrate synthase, and cell proliferation genes expressed in the low P treated plants. Given that common beans are often grown on acid soils of the tropics and subtropics that are usually low in P these genes and the two parallel libraries will be useful for selection for better uptake of this essential macronutrient. The importance of EST generation for common bean root tissues under low P and other abiotic soil stresses is also discussed.

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