ITRAQ protein profile differential analysis between somatic globular and cotyledonary embryos reveals stress, hormone, and respiration involved in increasing plantlet regeneration of Gossypium hirsutum L.

Journal of Proteome Research

Volumn 14, Issue 1, 2015, Pages 268-278

  Ge, Xiaoyang ^a   Zhang, Chaojun ^a   Wang, Qianhua ^a   Yang, Zuoren ^a   Wang, Ye ^a   Zhang, Xueyan ^a   Wu, Zhixia ^a   Hou, Yuxia ^b   Wu, Jiahe ^c   Li, Fuguang ^a  

^a INSTITUTE OF PLANT PROTECTION   (China)

^b CHINA AGRICULTURAL UNIVERSITY   (China)

^c INSTITUTE OF MICROBIOLOGY   (China)

Author keywords

Gossypium hirsutum; hormone; iTRAQ; proteomics; respiration; somatic embryo development; stress; upland cotton

Indexed keywords

ABSCISIC ACID; CARBOHYDRATE; GIBBERELLIC ACID; JASMONIC ACID; PHYTOHORMONE; PROTEOME; VEGETABLE PROTEIN;

ANALYTIC METHOD; ARTICLE; CARBOHYDRATE METABOLISM; CELL TRANSPORT; CONTROLLED STUDY; COTYLEDONARY EMBRYO; DOWN REGULATION; ENERGY METABOLISM; GENOME ANALYSIS; GOSSYPIUM HIRSUTUM; HORMONE SYNTHESIS; ISOBARIC TAGS FOR RELATIVE AND ABSOLUTE QUANTITATION; LIPID METABOLISM; MASS SPECTROMETRY; NONHUMAN; PHOTORESPIRATION; PHOTOSYNTHESIS; PLANT BREEDING; PLANT CELL; PLANT METABOLISM; PLANT REGENERATION; PLANT STRESS; PLANTLET; PROTEIN ANALYSIS; PROTEIN EXPRESSION; PROTEIN FUNCTION; PROTEIN METABOLISM; PROTEOMICS; REAL TIME POLYMERASE CHAIN REACTION; SIGNAL TRANSDUCTION; SOMATIC EMBRYOGENESIS; UPREGULATION; CLASSIFICATION; COTYLEDON; EMBRYOLOGY; GENE EXPRESSION REGULATION; GENETICS; GOSSYPIUM; METABOLISM; PHYSIOLOGY; PLANT SEED; PROCEDURES; REGENERATION;

GOSSYPIUM HIRSUTUM;

COTYLEDON; GENE EXPRESSION REGULATION, DEVELOPMENTAL; GENE EXPRESSION REGULATION, PLANT; GOSSYPIUM; PLANT PROTEINS; PROTEOMICS; REAL-TIME POLYMERASE CHAIN REACTION; REGENERATION; SEEDS;

EID: 84920263436     PISSN: 15353893     EISSN: 15353907     Source Type: Journal    
DOI: 10.1021/pr500688g     Document Type: Article

References (67)

1. Brookes, G.; Barfoot, P. GM Crops: Global Socio-Economic and Environmental Impacts 1996-2010. PG Economics, Ltd.: Dorchester, U.K., 2012. http://www.pgeconomics.co.uk/page/33/global-impact-2012 (accessed Jan 13, 2013).
2. Keller, G.; Spatola, L.; McCabe, D.; Martinell, B.; Swain, W.; John, M. E. Transgenic cotton resistant to herbicide bialaphos Transgenic Res. 1997, 6 (6) 385-392
3. James, C. Global Status of Commercialized Biotech/GM Crops, 2009; ISAAA: Ithaca, NY, 2009.
4. Wilkins, T. A.; Rajasekaran, K.; Anderson, D. M. Cotton biotechnology Crit. Rev. Plant Sci. 2000, 19 (6) 511-550
5. Zhao, X. Y.; Su, Y. H.; Cheng, Z. J.; Zhang, X. S. Cell fate switch during in vitro plant organogenesis J. Integr. Plant Biol. 2008, 50 (7) 816-824
6. Kwong, R. W.; Bui, A. Q.; Lee, H.; Kwong, L. W.; Fischer, R. L.; Goldberg, R. B.; Harada, J. J. LEAFY COTYLEDON1-LIKE defines a class of regulators essential for embryo development Plant Cell Online 2003, 15 (1) 5-18
7. Lotan, T.; Ohto, M.-a.; Yee, K. M.; West, M. A.; Lo, R.; Kwong, R. W.; Yamagishi, K.; Fischer, R. L.; Goldberg, R. B.; Harada, J. J. Arabidopsis LEAFY COTYLEDON1 Is Sufficient to Induce Embryo Development in Vegetative Cells Cell 1998, 93 (7) 1195-1205
8. Braybrook, S. A.; Stone, S. L.; Park, S.; Bui, A. Q.; Le, B. H.; Fischer, R. L.; Goldberg, R. B.; Harada, J. J. Genes directly regulated by LEAFY COTYLEDON2 provide insight into the control of embryo maturation and somatic embryogenesis Proc. Natl. Acad. Sci. U.S.A. 2006, 103 (9) 3468-3473
9. Boutilier, K.; Offringa, R.; Sharma, V. K.; Kieft, H.; Ouellet, T.; Zhang, L.; Hattori, J.; Liu, C.-M.; van Lammeren, A. A.; Miki, B. L. Ectopic expression of BABY BOOM triggers a conversion from vegetative to embryonic growth Plant Cell Online 2002, 14 (8) 1737-1749
10. Luerßen, H.; Kirik, V.; Herrmann, P.; Miséra, S. FUSCA3encodes a protein with a conserved VP1/ABI3-like B3 domain which is of functional importance for the regulation of seed maturation in Arabidopsis thaliana Plant J. 1998, 15 (6) 755-764
11. Mantiri, F. R.; Kurdyukov, S.; Lohar, D. P.; Sharopova, N.; Saeed, N. A.; Wang, X.-D.; VandenBosch, K. A.; Rose, R. J. The transcription factor MtSERF1 of the ERF subfamily identified by transcriptional profiling is required for somatic embryogenesis induced by auxin plus cytokinin in Medicago truncatula Plant Physiol. 2008, 146 (4) 1622-1636
12. Hecht, V.; Vielle-Calzada, J.-P.; Hartog, M. V.; Schmidt, E. D.; Boutilier, K.; Grossniklaus, U.; de Vries, S. C. The Arabidopsis SOMATIC EMBRYOGENESIS RECEPTOR KINASE 1 gene is expressed in developing ovules and embryos and enhances embryogenic competence in culture Plant Physiol. 2001, 127 (3) 803-816
13. Jin, F.; Hu, L.; Yuan, D.; Xu, J.; Gao, W.; He, L.; Yang, X.; Zhang, X. Comparative transcriptome analysis between somatic embryos (SEs) and zygotic embryos in cotton: evidence for stress response functions in SE development Plant Biotechnol. J. 2014, 12 (2) 161-173
14. Smertenko, A.; Bozhkov, P. V. Somatic embryogenesis: life and death processes during apical-basal patterning J. Exp. Bot. 2014, 65 (5) 1343-1360
15. Zi, J.; Zhang, J.; Wang, Q.; Zhou, B.; Zhong, J.; Zhang, C.; Qiu, X.; Wen, B.; Zhang, S.; Fu, X. Stress responsive proteins are actively regulated during rice (Oryza sativa) embryogenesis as indicated by quantitative proteomics analysis PloS One 2013, 8 (9) e74229
16. Thibaud-Nissen, F.; Shealy, R. T.; Khanna, A.; Vodkin, L. O. Clustering of microarray data reveals transcript patterns associated with somatic embryogenesis in soybean Plant Physiol. 2003, 132 (1) 118-136
17. Ammirato, P. V. The regulation of somatic embryo development in plant cell cultures: suspension culture techniques and hormone requirements Nat. Biotechnol. 1983, 1 (1) 68-73
18. Seiler, C.; Harshavardhan, V. T.; Rajesh, K.; Reddy, P. S.; Strickert, M.; Rolletschek, H.; Scholz, U.; Wobus, U.; Sreenivasulu, N. ABA biosynthesis and degradation contributing to ABA homeostasis during barley seed development under control and terminal drought-stress conditions J. Exp. Bot. 2011, 62 (8) 2615-2632
19. Rudus̈, I.; Kępczyńska, E.; Kępczyński, J. Regulation of Medicago sativa L. somatic embryogenesis by gibberellins Plant Growth Regul. 2002, 36 (1) 91-95
20. Li, L.; Qu, R. In vitro somatic embryogenesis in turf-type bermudagrass: roles of abscisic acid and gibberellic acid, and occurrence of secondary somatic embryogenesis Plant Breed. 2002, 121 (2) 155-158
21. Ross, P. L.; Huang, Y. N.; Marchese, J. N.; Williamson, B.; Parker, K.; Hattan, S.; Khainovski, N.; Pillai, S.; Dey, S.; Daniels, S. Multiplexed protein quantitation in Saccharomyces cerevisiae using amine-reactive isobaric tagging reagents Mol. Cell. Proteomics 2004, 3 (12) 1154-1169
22. Murashige, T.; Skoog, F. A revised medium for rapid growth and bio assays with tobacco tissue cultures Physiol. Plant. 1962, 15 (3) 473-497
23. Xu, Z.; Zhang, C.; Zhang, X.; Liu, C.; Wu, Z.; Yang, Z.; Zhou, K.; Yang, X.; Li, F. Transcriptome profiling reveals auxin and cytokinin regulating somatic embryogenesis in different sister lines of cotton cultivar CCRI24 J. Integr. Plant Biol. 2013, 55 (7) 631-642
24. Zheng, W.; Zhang, X.; Yang, Z.; Wu, J.; Li, F.; Duan, L.; Liu, C.; Lu, L.; Zhang, C.; Li, F. AtWuschel Promotes Formation of the Embryogenic Callus in Gossypium hirsutum PloS One 2014, 9 (1) e87502
25. Yao, Y.; Yang, Y. W.; Liu, J. Y. An efficient protein preparation for proteomic analysis of developing cotton fibers by 2-DE Electrophoresis 2006, 27 (22) 4559-4569
26. Kruger, N. J. The Bradford Method for Protein Quantitation. In The Protein Protocols Handbook; Springer: New York, 2009; pp 17-24.
27. Li, F.; Fan, G.; Wang, K.; Sun, F.; Yuan, Y.; Song, G.; Li, Q.; Ma, Z.; Lu, C.; Zou, C. Genome sequence of the cultivated cotton Gossypium arboreum Nat. Genet. 2014, 46 (6) 567-572
28. Wang, K.; Wang, Z.; Li, F.; Ye, W.; Wang, J.; Song, G.; Yue, Z.; Cong, L.; Shang, H.; Zhu, S. The draft genome of a diploid cotton Gossypium raimondii Nat. Genet. 2012, 44 (10) 1098-1103
29. Wu, Y.; Llewellyn, D. J.; Dennis, E. S. A quick and easy method for isolating good-quality RNA from cotton (Gossypium hirsutum L.) tissues Plant Mol. Biol. Rep. 2002, 20 (3) 213-218
30. Pradet-Balade, B.; Boulmé, F.; Beug, H.; Müllner, E. W.; Garcia-Sanz, J. A. Translation control: bridging the gap between genomics and proteomics? Trends Biochem. Sci. 2001, 26 (4) 225-229
31. Morel, A.; Teyssier, C.; Trontin, J. F.; Eliášová, K.; Pešek, B.; Beaufour, M.; Morabito, D.; Boizot, N.; Metté, C. L.; Belal-Bessai, L. Early molecular events involved in Pinus pinaster Ait. somatic embryo development under reduced water availability: Transcriptomic and proteomic analyses Physiol. Plant. 2014, 152 (1) 184-201
32. Teyssier, C.; Maury, S.; Beaufour, M.; Grondin, C.; Delaunay, A.; Le Metté, C.; Ader, K.; Cadene, M.; Label, P.; Lelu-Walter, M. A. In search of markers for somatic embryo maturation in hybrid larch (Larix× eurolepis): global DNA methylation and proteomic analyses Physiol. Plant. 2014, 150 (2) 271-291
33. Meyer, L. J.; Gao, J.; Xu, D.; Thelen, J. J. Phosphoproteomic analysis of seed maturation in Arabidopsis, rapeseed, and soybean Plant Physiol. 2012, 159 (1) 517-528
34. Nolan, K. E.; Irwanto, R. R.; Rose, R. J. Auxin up-regulates MtSERK1 expression in both Medicago truncatula root-forming and embryogenic cultures Plant Physiol. 2003, 133 (1) 218-230
35. Sonenberg, N.; Dever, T. E. Eukaryotic translation initiation factors and regulators Curr. Opin. Struct. Biol. 2003, 13 (1) 56-63
36. Göthel, S.; Marahiel, M. Peptidyl-prolyl cis-trans isomerases, a superfamily of ubiquitous folding catalysts Cell. Mol. Life Sci. 1999, 55 (3) 423-436
37. Cosgrove, D. J. Growth of the plant cell wall Nat. Rev. Mol. Cell Biol. 2005, 6 (11) 850-861
38. Akoh, C. C.; Lee, G.-C.; Liaw, Y.-C.; Huang, T.-H.; Shaw, J.-F. GDSL family of serine esterases/lipases Prog. Lipid Res. 2004, 43 (6) 534-552
39. Hunt, M. C.; Alexson, S. E. The role Acyl-CoA thioesterases play in mediating intracellular lipid metabolism Prog. Lipid Res. 2002, 41 (2) 99-130
40. Yang, L.-T.; Qi, Y.-P.; Lu, Y.-B.; Guo, P.; Sang, W.; Feng, H.; Zhang, H.-X.; Chen, L.-S. iTRAQ protein profile analysis of Citrus sinensis roots in response to long-term boron-deficiency J. Proteomics 2013, 93, 179-206
41. Karami, O.; Saidi, A. The molecular basis for stress-induced acquisition of somatic embryogenesis Mol. Biol. Rep. 2010, 37 (5) 2493-2507
42. Gallardo, K.; Job, C.; Groot, S. P.; Puype, M.; Demol, H.; Vandekerckhove, J.; Job, D. Proteomic analysis of Arabidopsis seed germination and priming Plant Physiol. 2001, 126 (2) 835-848
43. Huang, H.; Møller, I. M.; Song, S.-Q. Proteomics of desiccation tolerance during development and germination of maize embryos J. Proteomics 2012, 75 (4) 1247-1262
44. Dure, L., III; Crouch, M.; Harada, J.; Ho, T.-H. D.; Mundy, J.; Quatrano, R.; Thomas, T.; Sung, Z. Common amino acid sequence domains among the LEA proteins of higher plants Plant Mol. Biol. 1989, 12 (5) 475-486
45. Wise, M. J.; Tunnacliffe, A. POPP the question: what do LEA proteins do? Trends Plant Sci. 2004, 9 (1) 13-17
46. Cordova-Tellez, L.; Burris, J. S. Alignment of lipid bodies along the plasma membrane during the acquisition of desiccation tolerance in maize seed Crop Sci. 2002, 42 (6) 1982-1988
47. Agrawal, G. K.; Hajduch, M.; Graham, K.; Thelen, J. J. In-depth investigation of the soybean seed-filling proteome and comparison with a parallel study of rapeseed Plant Physiol. 2008, 148 (1) 504-518
48. Xu, H.; Zhang, W.; Gao, Y.; Zhao, Y.; Guo, L.; Wang, J. Proteomic analysis of embryo development in rice (Oryza sativa) Planta 2012, 235 (4) 687-701
49. Keskin, O.; Bahar, I.; Flatow, D.; Covell, D.; Jernigan, R. Molecular mechanisms of chaperonin GroEL-GroES function Biochemistry 2002, 41 (2) 491-501
50. Richardson, A.; Landry, S. J.; Georgopoulos, C. The ins and outs of a molecular chaperone machine Trends Biochem. Sci. 1998, 23 (4) 138-143
51. Yang, X.; Zhang, X. Regulation of somatic embryogenesis in higher plants Crit. Rev. Plant Sci. 2010, 29 (1) 36-57
52. Kevers, C.; Gaspar, T.; Dommes, J. The beneficial role of different auxins and polyamines at successive stages of somatic embryo formation and development of Panax ginseng in vitro Plant Cell, Tissue Organ Cult. 2002, 70 (2) 181-188
53. Rodriguez, A. P.; Wetzstein, H. Y. The effect of auxin type and concentration on pecan (Carya illinoinensis) somatic embryo morphology and subsequent conversion into plants Plant Cell Rep. 1994, 13 (11) 607-611
54. Chiwocha, S.; von Aderkas, P. Endogenous levels of free and conjugated forms of auxin, cytokinins and abscisic acid during seed development in Douglas fir Plant Growth Regul. 2002, 36 (3) 191-200
55. Vahdati, K.; Bayat, S.; Ebrahimzadeh, H.; Jariteh, M.; Mirmasoumi, M. Effect of exogenous ABA on somatic embryo maturation and germination in Persian walnut (Juglans regia L.) Plant Cell, Tissue Organ Cult. 2008, 93 (2) 163-171
56. White, C. N.; Proebsting, W. M.; Hedden, P.; Rivin, C. J. Gibberellins and seed development in maize. I. Evidence that gibberellin/abscisic acid balance governs germination versus maturation pathways Plant Physiol. 2000, 122 (4) 1081-1088
57. Langhansova, L.; Konradova, H.; Vaněk, T. Polyethylene glycol and abscisic acid improve maturation and regeneration of Panax ginseng somatic embryos Plant Cell Rep. 2004, 22 (10) 725-730
58. Nieves, N.; Martinez, M.; Castillo, R.; Blanco, M. A.; González-Olmedo, J. Effect of abscisic acid and jasmonic acid on partial desiccation of encapsulated somatic embryos of sugarcane Plant Cell, Tissue Organ Cult. 2001, 65 (1) 15-21
59. Von Arnold, S.; Hakman, I. Regulation of Somatic Embryo Development in Picea abies by Abscisic Acid (ABA) J. Plant Physiol. 1988, 132 (2) 164-169
60. Hutchinson, M. J.; KrishnaRaj, S.; Saxena, P. K. Inhibitory effect of GA3 on the development of thidiazuron-induced somatic embryogenesis in geranium (Pelargonium xhortorum Bailey) hypocotyl cultures Plant Cell Rep. 1997, 16 (6) 435-438
61. Giridhar, P.; Kumar, V.; Indu, E. P.; Chandrasekar, A.; Ravishankar, G. Thidiazuron induced somatic embryogenesis in Coffea arabica L. and Coffea canephora P ex Fr Acta Bot. Croat. 2004, 63 (1) 25-33
62. Afreen, F.; Zobayed, S.; Kozai, T. Photoautotrophic culture of Coffea arabusta somatic embryos: photosynthetic ability and growth of different stage embryos Ann. Bot. 2002, 90 (1) 11-19
63. Rival, A.; Beulé, T.; Lavergne, D.; Nato, A.; Havaux, M.; Puard, M. Development of photosynthetic characteristics in oil palm during in vitro micropropagation J. Plant Physiol. 1997, 150 (5) 520-527
64. Lee, J.-M.; Williams, M. E.; Tingey, S. V.; Rafalski, A. J. DNA array profiling of gene expression changes during maize embryo development Funct. Integr. Genomics 2002, 2 (1-2) 13-27
65. Fait, A.; Angelovici, R.; Less, H.; Ohad, I.; Urbanczyk-Wochniak, E.; Fernie, A. R.; Galili, G. Arabidopsis seed development and germination is associated with temporally distinct metabolic switches Plant Physiol. 2006, 142 (3) 839-854
66. Wu, G.-Z.; Xue, H.-W. Arabidopsis β-ketoacyl-[acyl carrier protein] synthase I is crucial for fatty acid synthesis and plays a role in chloroplast division and embryo development Plant Cell Online 2010, 22 (11) 3726-3744
67. Sossountzov, L.; Ruiz-Avila, L.; Vignols, F.; Jolliot, A.; Arondel, V.; Tchang, F.; Grosbois, M.; Guerbette, F.; Miginiac, E.; Delseny, M. Spatial and temporal expression of a maize lipid transfer protein gene Plant Cell Online 1991, 3 (9) 923-933