Journal of Biosciences

, Volume 35, Issue 1, pp 49–62 | Cite as

Proteome analysis of soybean roots under waterlogging stress at an early vegetative stage

  • Iftekhar Alam
  • Dong-Gi Lee
  • Kyung-Hee Kim
  • Choong-Hoon Park
  • Shamima Akhtar Sharmin
  • Hyoshin Lee
  • Ki-Won Oh
  • Byung-Wook Yun
  • Byung-Hyun Lee
Article

Abstract

To gain better insight into how soybean roots respond to waterlogging stress, we carried out proteomic profiling combined with physiological analysis at two time points for soybean seedlings in their early vegetative stage. Seedlings at the V2 stage were subjected to 3 and 7 days of waterlogging treatments. Waterlogging stress resulted in a gradual increase of lipid peroxidation and in vivo H2O2 level in roots. Total proteins were extracted from root samples and separated by two-dimensional gel electrophoresis (2-DE). A total of 24 reproducibly resolved, differentially expressed protein spots visualized by Coomassie brilliant blue (CBB) staining were identified by matrix assisted laser desorption ionization time-of-flight (MALDI-TOF) mass spectrometry or electrospray ionization tandem mass spectrometry (ESI-MS/MS) analysis. Of these, 14 proteins were upregulated; 5 proteins were decreased; and 5 were newly induced in waterlogged roots. The identified proteins include well-known classical anaerobically induced proteins as well as novel waterlogging-responsive proteins that were not known previously as being waterlogging responsive. The novel proteins are involved in several processes, i.e. signal transduction, programmed cell death, RNA processing, redox homeostasis and metabolisms of energy. An increase in abundance of several typical anaerobically induced proteins, such as glycolysis and fermentation pathway enzymes, suggests that plants meet energy requirement via the fermentation pathway due to lack of oxygen. Additionally, the impact of waterlogging on the several programmed cell death- and signal transduction-related proteins suggest that they have a role to play during stress. RNA gel blot analysis for three programmed cell death-related genes also revealed a differential mRNA level but did not correlate well with the protein level. These results demonstrate that the soybean plant can cope with waterlogging through the management of carbohydrate consumption and by regulating programmed cell death. The identification of novel proteins such as a translation initiation factor, apyrase, auxin-amidohydrolase and coproporphyrinogen oxidase in response to waterlogging stress may provide new insight into the molecular basis of the waterlogging-stress response of soybean.

Keywords

Abiotic stress programmed cell death proteomics, soybean root waterlogging 

Abbreviations used

2-DE

two-dimensional gel electrophoresis

ACN

acetonitrile

Adh

alcohol dehydrogenase

ANP

anaerobic polypeptide

CBB

Coomassie brilliant blue

ESI-MS/MS

electrospray ionization tandem mass spectrometry

GS

glutamine synthetase

Hb

haemoglobin

IFR

isoflavone reductase

MALDI-TOF

matrix assisted laser desorption ionization time-of-flight

NO

nitrous oxide

PCD

programmed cell death

PFK

phosphofructokinase

PMF

peptide mass fingerprinting

PPi

inorganic pyrophosphate

ROS

reactive oxygen species

SAM

S-adenosyl-L-methionine synthetase

SDS-PAGE

sodium dodecylsulphate polyacrylamide gel electrophoresis

TBARS

thiobarbituric acid reactive substance

Ub

ubiquitin

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Copyright information

© Indian Academy of Sciences 2010

Authors and Affiliations

  • Iftekhar Alam
    • 1
  • Dong-Gi Lee
    • 1
  • Kyung-Hee Kim
    • 1
  • Choong-Hoon Park
    • 1
  • Shamima Akhtar Sharmin
    • 1
  • Hyoshin Lee
    • 2
  • Ki-Won Oh
    • 3
  • Byung-Wook Yun
    • 4
  • Byung-Hyun Lee
    • 1
  1. 1.Division of Applied Life Science (BK21 Program), IALS, PMBBRCGyeongsang National UniversityJinjuKorea
  2. 2.Biotechnology DivisionKorea Forest Research InstituteSuwonKorea
  3. 3.Research Policy BureauRDASuwonKorea
  4. 4.Institute of Molecular Plant SciencesUniversity of EdinburghEdinburghUK

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