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2012 | 34 | 1 |
Tytuł artykułu

Transcript profiling during salt stress of young cotton (Gossypium hirsutum) seedlings via Solexa sequencing

Autorzy
Warianty tytułu
Języki publikacji
EN
Abstrakty
EN
Genome-wide gene expression profiling was conducted by Solexa sequencing in order to gain insight into the transcriptome dynamics that are associated with salt stress of cotton seedlings. A total of 145,794 and 138,518 clean tags were generated from the control and salinity libraries, respectively. Of these, 75,500 (51.8%) and 72,077 (52.0%) tags were matched to the reference genes. The most differentially regulated tags with a log2ratio >2 or >-2 (P <0.001) were analyzed further, representing 125 up- and 171 down-regulated genes except for unknown transcripts, which were classified into ten functional categories. The most enriched categories were those of metabolism, signaling pathway, environmental response and transcription. Many genes or biological pathways were found to be commonly shared between salt and other abiotic stresses in plants such as genes participating in environmental response, ABA signaling JA signaling, etc. Furthermore, the expression patterns of 12 genes were assessed by quantitative real-time PCR, and the results obtained showed general agreement with the Solexa data. Further analysis indicated the important roles of selected genes in salt tolerance by comparison with the mRNA levels in salt-tolerant cotton cultivar ZM3 with that in salt-sensitive cultivar LM6. Overall, we reveal the complex changes at the transcriptional level during salt stress of cotton seedlings and provide useful starting points for more in-depth analyses of cotton’s salt tolerance.
Słowa kluczowe
EN
Wydawca
-
Rocznik
Tom
34
Numer
1
Opis fizyczny
p.107-115,fig.,ref.
Twórcy
autor
  • State Key Laboratory of Crop Biology, College of Life Sciences, Shandong Agricultural University, Taian, 271018 Shandong, People's Republic of China
autor
  • State Key Laboratory of Crop Biology, College of Life Sciences, Shandong Agricultural University, Taian, 271018 Shandong, People's Republic of China
autor
  • State Key Laboratory of Crop Biology, College of Life Sciences, Shandong Agricultural University, Taian, 271018 Shandong, People's Republic of China
autor
  • State Key Laboratory of Crop Biology, College of Life Sciences, Shandong Agricultural University, Taian, 271018 Shandong, People's Republic of China
Bibliografia
  • Arpat A, Waugh M, Sullivan JP et al (2004) Functional genomics of cell elongation in developing cotton fibers. Plant Mol Biol 54:911–929
  • Ashraf M (2001) Salt tolerance of cotton: some new advances. Crit Rev Plant Sci 21:1–32
  • Ashraf M, Foolad M (2007) Roles of glycine betaine and proline in improving plant abiotic stress resistance. Environ Exp Bot 59:206–216
  • Audic S, Claverie JM (1997) The significance of digital gene expression profiles. Genome Res 7(10):986–995
  • Buchanan CD, Lim S, Salzma RA, Kagiampakis I, Morishige DT, Weers BD, Klein RR, Prat LH, Cordonnier-Pratt MM, Klei PE, Mullet JE (2005) Sorghum bicolor’s transcriptome response to dehydration, high salinity and ABA. Plant Mol Biol 58:699–720
  • Champion A, Hebrard E, Parra B, Bournaud C, Marmey P, Tranchant C, Nicole M (2009) Molecular diversity and gene expression of cotton ERF transcription factors reveal that group Ixa members are responsive to jasmonate, ethylene and xanthomonas. Mol Plant Pathol 10(4):471–485
  • Chinnusamy V, Schumaker K, Zhu JK (2004) Molecular genetic perspectives on cross-talk and specificity in abiotic stress signalling in plants. J Exp Bot 55(395):225–236
  • Denby K, Gehring C (2005) Engineering drought and salinity tolerance in plants: lessons from genome-wide expression profiling in Arabidopsis. Trends Biotech 23:547–552
  • Ekman DR, Lorenz WW, Przybyla AE, Wolfe NL, Dean JF (2003) SAGE analysis of transcriptome responses in Arabidopsis roots exposed to 2, 4, 6-trinitrotoluene. Plant Physiol 133:1397–1406
  • Ford GD, Ford BD, Steele EC Jr, Gates A, Hood D, Matthews MAB, Mirza S, MacLeish PR (2008) Analysis of transcriptional profiles and functional clustering of global cerebellar gene expression in PCD3J mice. Biochem Biophys Res Com 377:556–561
  • Fujita M, Fujita Y, Maruyama K, Seki M, Hiratsu K, Ohme-Takagi M, Tran LS, Yamaguchi-Shinozaki K, Shinozaki K (2004) A dehydration-induced NAC protein, RD26, is involved in a novel ABA-dependent stress-signaling pathway. Plant J 39:863–876
  • Fujita Y, Fujita M, Satoh R, Maruyama K, Parvez MM, Seki M, Hiratsu K, Ohme-Takagi M, Shinozaki K, Yamaguchi-Shinozaki K (2005) AREB1 is a transcription activator of novel ABREdependent ABA signaling that enhances drought stress tolerance in Arabidopsis. Plant Cell 17:3470–3488
  • Gao SQ, Chen M, Xia LQ, Xiu HJ, Xu ZS, Li LC, Zhao CP, Cheng XG, Ma YZ (2009) A cotton (Gossypium hirsutum) DREbinding transcription factor gene, GhDREB, confers enhanced tolerance to drought, high salt, and freezing stresses in transgenic wheat. Plant Cell Rep 28(2):301–311
  • Guo YH, Yu YP, Wang D, Wu CA, Yang GD, Huang JG, Zheng CC (2009) Fungal disease resistance in transgenic tobacco by interacting with GZIRD21A and GZIPR5. New Phytol 183(1): 62–75
  • Hundertmark M, Hincha DK (2008) LEA (late embryogenesis abundant) proteins and their encoding genes in Arabidopsis thaliana. BMC genomics 9:118
  • Jin LG, Liu JY (2008) Molecular cloning, expression profile and promoter analysis of a novel ethylene responsive transcription factor gene GhERF4 from cotton (Gossypium hirstum). Plant Physiol Biochem 46(1):46–53
  • Jin LG, Li H, Liu JY (2010) Molecular characterization of three ethylene responsive element binding factor genes from cotton. J Integr Plant Biol 52(5):485–495
  • Lehmann J, Atzorn R, Bruchner C, Reinbothe S, Leoponld J, Wasternack C, Parthier B (1995) Accumulation of jasmonate, abscisic acid, specific transcripts and proteins in osmotically stressed barley leaf segments. Planta 197:156–162
  • Li YJ, Fu YR, Huang JG, Wu CA, Zheng CC (2011) Transcript profiling during the early development of the maize brace root via Solexa sequencing. FEBS J 278:156–166
  • Livak KJ, Schmittgen TD (2001) Analysis of relative gene expression data using real-time quantitative PCR and the 2[-Delta Delta C(T)] method. Methods 25:402–408
  • Moons A, Prinsen E, Bauw G, Van Montagu M (1997) Antagonistic effects of abscisic acid and jasmonates on salt stress-inducible transcripts in rice roots. Plant cell 9(12):2243–2259
  • Nakashim K, Tran LSP, Nguyen DV, Maruyamal K, Todaka D, Ito Y, Hayashi N, Shinozak K, Yamaguchi-Shinozak K (2007) Functional analysis of a NAC-type transcription factor OsNAC6 involved in abiotic and biotic stress-responsive gene expression in rice. Plant J 51:617–630
  • Ohnishi T, Sugahara S, Yamada T, Kikuchi K, Yoshiba Y, Hirano HY, Tsutsumi N (2005) OsNAC6, a member of the NAC gene family, is induced by various stresses in rice. Genes Genet Syst 80: 135–139
  • Ottow EA, Brinker M, Teichmann T, Fritz E, Kaiser W, Brosche M, Kangasjarvi J, Jiang X, Polle A (2005) Populus euphratica displays apoplastic sodium accumulation, osmotic adjustment by decreases in calcium and soluble carbohydrates, and develops leaf succulence under salt stress. Plant Physiol 139(4):1762–1772
  • Poole RL, Barker GL, Werner K, Biggi GF, Coghill J, Gibbings JG, Berry S, Dunwell JM, Edwards KJ (2008) Analysis of wheat SAGE tags reveals evidence for widespread antisense transcription. BMC Genomics 9:475
  • Qiao ZX, Huang B, Liu JY (2008) Molecular cloning and functional analysis of an ERF gene from cotton (Gossypium hirsutum). Biochimica et Biophysica Acta 1779:122–127
  • Rabbani MA, Maruyama K, Abe H, Khan MA, Katsura K, Ito Y, Yoshiwara K, Seki M, Shinozaki K, Yamaguchi-Shinozaki K (2003) Monitoring expression profiles of rice genes under cold, drought, and high-salinity stresses and abscisic acid spplication using cDNA microarray and RNA gel-blot analyses. Plant Physiol 133:1755–1767
  • Rorat T (2006) Plant dehydrins—tissue location, structure and function. Cell Mol Biol Lett 11(4):536–556
  • Shi YH, Zhu SW, Mao XZ et al (2006) Transcriptome profiling, molecular biological, and physiological studies reveal a major role for ethylene in cotton fiber cell elongation. Plant Cell 18(3):651–664
  • Taji T, Ohsumi C, Iuchi S, Seki M, Kasuga M, Kobayashi M, Yamaguchi-Shinozaki K, Shinozaki K (2002) Important roles of drought- and cold-inducible genes for galactinol synthase in stress tolerance in Arabidopsis thaliana. Plant J 29(4):417–426
  • Tran LS, Nakashima K, Sakuma Y, Osakabe Y, Qin F, Simpson SD, Maruyama K, Fujita Y, Shinozaki K, Yamaguchi-Shinozaki K (2007) Co-expression of the stress-inducible zinc finger homeodomain ZFHD1 and NAC transcription factors enhances expression of the ERD1 gene in Arabidopsis. Plant J 49:46–63
  • Ueda A, Kathiresan A, Inada M, Narita Y, Nakamura T, Shi W, Takabe T, Bennett J (2004) Osmotic stress in barley regulates expression of a different set of genes than salt stress does. J Exp Bot 55:2213–2218
  • Valliyodan B, Nguyen HT (2006) Understanding regulatory networks and engineering for enhanced drought tolerance in plants. Curr Opin Plant Biol 9:189–195
  • Walia H, Wilson C, Wahid A, Condamine P, Cui XP, Close TJ (2006) Expression analysis of barley (Hordeum vulgare L.) during salinity stress. Funct Integr Genomics 6:143–156
  • Walia H, Wilson C, Condamine P, Liu X, Ismail AM, Close TJ (2007) Large-scale expression profiling and physiological characterization of jasmonic acid-mediated adaptation of barley to salinity stress. Plant Cell Environ 30(4):410–421
  • Wang Y, Mopper S, Hasenstein KH (2001) Effects of salinity on endogenous ABA, IAA, JA, AND SA in Iris hexagona. J Chem Eco 27(2):327–342
  • Wang X, Elling AA, Li X, Li N, Peng Z, He G, Sun H, Qi Y, Liu XS, Deng XW (2009) Genome-wide and organ-specific landscapes of epigenetic modifications and their relationships to mRNA and small RNA transcriptomes in maize. Plant Cell 21:1053–1069
  • Wu CA, Yang GD, Meng QW, Zheng CC (2004) The cotton GhNHX1 gene encoding a novel putative tonoplast Na⁺/H⁺ antiporter plays an important role in salt stress. Plant Cell Physiol 45(5): 600–607
  • Wu Y, Machado AC, White RG, Llewellyn DJ, Dennis ES (2006) Expression profiling identifies gene expressed early during lint fiber initiation in cotton. Plant Cell Physiol 18:651–664
  • Xiong L, Schumaker KS, Zhu JK (2002) Cell signaling during cold, drought, and salt stress. Plant Cell Environ 14:S165–S183
  • Xue T, Li X, Zhu W, Wu C, Yang G, Zheng C (2009) Cotton metallothionein GhMT3a, a reactive oxygen species scavenger, increased tolerance against abiotic stress in transgenic tobacco and yeast. J Exp Bot 60(1):339–349
  • Yoshid T, Fujit Y, Sayam H, Kidokoro S, Maruyama F, Mizoi J, Shinozak K, Yamaguchi-Shinozaki K (2010) AREB1, AREB2, and ABF3 are master transcription factors that cooperatively regulate ABRE-dependent ABA signaling involved in drought stress tolerance and require ABA for full activation. Plant J 61:672–685
  • Zeller G, Henz SR, Widme CK, Sachsenber T, Ra¨tsch G, Weige D, Laubinge S (2009) Stress-induced changes in the Arabidopsis thaliana transcriptome analyzed using whole-genome tiling arrays. Plant J 58:1068–1082
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Bibliografia
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