Comparative transcriptome analysis of contrasting foxtail millet cultivars in response to short-term salinity stress

Journal of Plant Physiology

Volumn 168, Issue 3, 2011, Pages 280-287

  Puranik, Swati ^a,b   Jha, Sarita ^a   Srivastava, Prem S ^b   Sreenivasulu, Nese ^c   Prasad, Manoj ^a  

^a NATIONAL INSTITUTE OF PLANT GENOME RESEARCH   (India)

^b HAMDARD UNIVERSITY   (India)

^c LEIBNIZ INSTITUTE OF PLANT GENETICS AND CROP PLANT RESEARCH IPK   (Germany)

Author keywords

Foxtail millet; Macroarray; Quantitative real time PCR; Salt stress; Suppression subtractive hybridization

Indexed keywords

SODIUM CHLORIDE;

ARTICLE; DRUG EFFECT; EXPRESSED SEQUENCE TAG; GENE EXPRESSION PROFILING; GENE EXPRESSION REGULATION; GENETICS; MILLET; PHYSIOLOGICAL STRESS; REVERSE TRANSCRIPTION POLYMERASE CHAIN REACTION; SALINITY;

EXPRESSED SEQUENCE TAGS; GENE EXPRESSION PROFILING; GENE EXPRESSION REGULATION, PLANT; REVERSE TRANSCRIPTASE POLYMERASE CHAIN REACTION; SALINITY; SETARIA PLANT; SODIUM CHLORIDE; STRESS, PHYSIOLOGICAL;

SETARIA (PLANT); SETARIA ITALICA;

EID: 78650418860     PISSN: 01761617     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.jplph.2010.07.005     Document Type: Article

References (38)

1. Altschul S.F., Madden T.L., Schaffer A.A., Zhang J., Zhang Z., Miller W., et al. Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res 1997, 25:3389-3402.
2. Azevedo-Neto A.D.D., Prisco J.T., Enéas-Filho J., De Abreu C.E.B., Gomes-Filho E. Effect of salt stress on antioxidative enzymes and lipid peroxidation in leaves and roots of salt-tolerant and salt-sensitive maize genotypes. Environ Exp Bot 2006, 56:87-94.
3. Baisakh N., Subudhi P.K., Varadwaj P. Primary responses of salt stress in a halophyte, smooth cordgrass (Spartina alterniflora Loisel.). Funct Integr Genom 2008, 8:287-300.
4. Boominathan P., Shukla R., Kumar A., Manna D., Negi D., Verma P.K., et al. Long term transcript accumulation during the development of dehydration adaptation in Cicer arietinum. Plant Physiol 2004, 135:1608-1620.
5. Brown B.A., Cloix C., Jiang G.H., Kaiserli E., Herzyk P., Kliebenstein D.J., et al. A UV-B-specific signaling component orchestrates plant UV-protection. Proc Natl Acad Sci USA 2005, 102:18225-18230.
6. Dixit V., Pandey V., Shyam R. Differential antioxidative response to cadmium in roots and leaves of pea. J Exp Bot 2001, 52:1101-1109.
7. Doust A.N., Kellogg E.A., Devos K.M., Bennetzen J.L. Foxtail millet: a sequence-driven grass model system. Plant Physiol 2009, 149:137-141.
8. Flowers T.J., Yeo A.R. Breeding for salinity resistance in crop plants. Where next?. Aust J Plant Physiol 1995, 22:875-884.
9. Hasegawa B., Bressan A., Zhu J.K., Bohnert H.J. Plant cellular and molecular responses to high salinity. Annu Rev Plant Physiol Plant Mol Biol 2000, 51:463-499.
10. Hodgson R.A.J., Raison J.K. Lipid peroxidation and superoxide dismutase activity in relation to photoinhibition induced by chilling in moderate light. Planta 1991, 185:215-219.
11. Hu H., Dai M., Yao J., Xiao B., Li X., Zhang Q., et al. Overexpressing a NAM, ATAF, and CUC (NAC) transcription factor enhances drought resistance and salt tolerance in rice. Proc Natl Acad Sci USA 2006, 103:12987-12992.
12. Jain M., Khurana J.P. Transcript profiling reveals diverse roles of auxin-responsive genes during reproductive development and abiotic stresses in rice. FEBS J 2009, 276:3148-3162.
13. Jayaraman A., Puranik S., Rai N.K., Vidapu S., Sahu P.P., Lata C., et al. cDNA-AFLP analysis reveals differential gene expression in response to salt stress in foxtail millet (Setaria italica L.). Mol Biotechnol 2008, 40:241-251.
14. Kawasaki S., Borchert C., Deyholos M., Wang H., Brazille S., Kawai K., et al. Gene expression profiles during the initial phase of salt stress in rice. Plant Cell 2001, 13:889-906.
15. Kolukisaoglu U., Weinl S., Blazevic D., Batistic O., Kudla J. Calcium sensors and their interacting protein kinases: genomics of the Arabidopsis and rice CBL-CIPK signaling networks. Plant Physiol 2004, 134:43-58.
16. Lata C., Sahu P.P., Prasad M. Comparative transcriptome analysis of differentially expressed genes in foxtail millet (Setaria italica L.) during dehydration stress. Biochem Biophys Res Commun 2010, 393:720-727.
17. Li Y.M. Drought-resistant mechanism and genetic expression of foxtail millet. Foxtail millet breeding 1997, 433-434. China Agricultural Press, Beijing. Y.M. Li (Ed.).
18. Livak K.J., Schmittgen T.D. Analysis of relative gene expression data using real-time quantitative PCR and the 2-ΔΔCt method. Methods 2001, 25:402-408.
19. Logemann J., Schell J., Willmitzer L. Improved method for the isolation of RNA from plant tissues. Anal Biochem 1987, 163:16-20.
20. Ma K., Xiao J., Li X., Zhang Q., Lian X. Sequence and expression analysis of the C3HC4-RING finger gene family in rice. Gene 2009, 444:33-45.
21. Moustafa K., Vos D.L., Leprince A., Savouré A., Laurière C. Analysis of the Arabidopsis Mitogen-activated protein kinase families: organ specificity and transcriptional regulation upon water stresses. Sch Res Exch 2008, 1-12. 10.3814/2008/143656.
22. Mukhopadhyay A., Vij S., Tyagi A.K. Overexpression of a zinc-finger protein gene from rice confers tolerance to cold, dehydration and salt stress in transgenic tobacco. Proc Natl Acad Sci USA 2004, 101:6309-6314.
23. Munns R. Genes and salt tolerance: bringing them together. New Phytol 2005, 167:645-663.
24. Nguyen T.T., Klueva N., Chamareck V., Aarti A., Megapanta G., Millena A.C.N., et al. Saturation mapping of QTL regions and identification of putative candidate genes for drought tolerance in rice. Mol Genet Genom 2004, 272:35-46.
25. Ouyang B., Yang T., Li H., Zhang L., Zhang Y., Zhang J., et al. Identification of early salt stress response genes in tomato root by suppression subtractive hybridization and microarray analysis. J Exp Bot 2007, 58:507-520.
26. Richards K.D., Schott E.J., Sharma Y.K., Davis K.R., Gardner R.C. Aluminium induces oxidative stress genes in Arabidopsis thaliana L. Plant Physiol 1998, 116:409-418.
27. Rodrigues F.A., de Laia M.L., Zingaretti S.M. Analysis of gene expression profiles under water stress in tolerant and sensitive sugarcane plants. Plant Sci 2009, 176:286-302.
28. Seki M., Narusaka M., Ishida J., Nanjo T., Fujita M., Oono Y., et al. Monitoring the expression profiles of 7000 Arabidopsis genes under drought, cold, and high-salinity stresses using a full length microarray. Plant J 2002, 31:279-292.
29. Shiozaki N., Yamada M., Yoshiba Y. Analysis of salt-stress-inducible ESTs isolated by PCR-subtraction in salt-tolerant rice. Theor Appl Genet 2005, 110:1177-1186.
30. Silva P., Gerós H. Regulation by salt of vacuolar H+-ATPase and H+-pyrophosphatase activities and Na+/H+ exchange. Plant Signal Behav 2009, 4:718-726.
31. Sreenivasulu N., Grimm B., Wobus U., Weschke W. Differential response of antioxidant compounds to salinity stress in salt-tolerant and salt-sensitive seedlings of foxtail millet (Setaria italica). Physiol Plant 2000, 109:435-442.
32. Sreenivasulu N., Miranda M., Prakash H.S., Wobus U., Weschke W. Transcriptome changes in foxtail millet genotypes at high salinity: identification and characterization of a PHGPX gene specifically upregulated by NaCl in a salt-tolerant line. J Plant Physiol 2004, 161:467-477.
33. Sreenivasulu N., Sopory S.K., Kishor P.B.K. Deciphering the regulatory mechanisms of abiotic stress tolerance in plants by genomic approaches. Gene 2007, 388:1-13.
34. Talame V., Ozturk N.Z., Bohnert H.J., Tuberosa R. Barley transcript profiles under dehydration shock and drought stress treatments: a comparative analysis. J Exp Bot 2007, 58:229-240.
35. Walia H., Wilson C., Condamine P., Liu X., Ismail A.M., Zeng L., et al. Comparative transcriptional profiling of two contrasting rice genotypes under salinity stress during the vegetative growth stage. Plant Physiol 2005, 139:822-835.
36. Yang Q., Chen Z.-Z., Zhou X.-F., Yin H.-B., Li X., Xin X.-F., et al. Overexpression of SOS (Salt Overly Sensitive) genes increases salt tolerance in transgenic Arabidopsis. Mol Plant 2009, 2:22-31.
37. Zhang Y., Rouf Mian M.A., Chekhovskiy K., So S., Kupfer D., Lai H., et al. Differential gene expression in Festuca under heat stress conditions. J Exp Bot 2005, 56:897-907.
38. Zhang J., Liu T., Fu J., Zhu Y., Jia J., Zheng J., et al. Construction and application of EST library from Setaria italica in response to dehydration stress. Genomics 2007, 90:121-131.