Comparison of leaf proteomes of cassava (Manihot esculenta Crantz) cultivar NZ199 diploid and autotetraploid genotypes

PLoS ONE

Volumn 9, Issue 4, 2014, Pages

  An, Feifei ^a   Fan, Jie ^a   Li, Jun ^b   Li, Qing X ^c   Li, Kaimian ^a   Zhu, Wenli ^a   Wen, Feng ^d   Carvalho, Luiz J C B ^e   Chen, Songbi ^a  

^a INSTITUTE OF TROPICAL BIOSCIENCE AND BIOTECHNOLOGY   (China)

^b JIANGSU UNIVERSITY   (China)

^c UNIVERSITY OF HAWAII   (United States)

^d Guangxi Subtropical Crop Research Institute   (China)

^e EMBRAPA RECURSOS GENÉTICOS E BIOTECNOLOGIA   (Brazil)

Author keywords

[No Author keywords available]

Indexed keywords

HYDROGEN CYANIDE; PROTEOME; VEGETABLE PROTEIN;

AMINO ACID METABOLISM; ARTICLE; AUTOTETRAPLOIDY; CASSAVA; CONTROLLED STUDY; CULTIVAR IDENTIFICATION; DIPLOIDY; DOWN REGULATION; GENOTYPE; MATRIX ASSISTED LASER DESORPTION IONIZATION TIME OF FLIGHT MASS SPECTROMETRY; NONHUMAN; NUCLEOTIDE SEQUENCE; PHOTOSYNTHESIS; PHYSICAL TOLERANCE; PLANT BREEDING; PLANT LEAF; PROTEIN DETERMINATION; PROTEIN EXPRESSION; PROTEIN ISOLATION; PROTEIN LOCALIZATION; PROTEIN PROTEIN INTERACTION; PROTEOMICS; SALT STRESS; SIGNAL TRANSDUCTION; TETRAPLOIDY; TWO DIMENSIONAL ELECTROPHORESIS; UPREGULATION; MANIHOT; METABOLISM; POLYPLOIDY;

DIPLOIDY; GENOTYPE; MANIHOT; PLANT LEAVES; PLANT PROTEINS; POLYPLOIDY; PROTEOME; PROTEOMICS;

EID: 84899630789     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0085991     Document Type: Article

References (54)

1. Raji AA, Anderson JV, Kolade OA, Ugwu CD, Dixon AG, et al. (2009) Genebased microsatellites for cassava (Manihot esculenta Crantz): prevalence, polymorphisms, and cross-taxa utility. BMC Plant Biol 9: 118.
2. Nassar NMA, Graciano-Ribeiro D, Fernandes SD, Araujo PC (2008) Anatomical alterations due to polyploidy in cassava, Manihot esculenta Crantz. Genet Mol Res 7(2): 276-283.
3. Li K, Zhu W, Zeng K, Zhang Z, Ye J, et al. (2010) Proteome Characterization of cassava (Manihot esculenta Crantz) somatic embryos, plantlets and tuberous roots. Proteome Sci 8: 10.
4. Carvalho LJ, Lippolis J, Chen S, de Souza CR, Vieira EA, et al. (2012) Characterization of Carotenoid-protein Complexes and Gene Expression Analysis Associated with Carotenoid Sequestration in Pigmented Cassava (Manihot Esculenta Crantz) Storage Root. Open Biochem J 6: 116-130.
5. Prochnik S, Marri PR, Desany B, Rabinowicz PD, Kodira C, et al. (2012) The Cassava Genome: Current Progress, Future Directions. Trop Plant Biol 5(1): 88-94.
6. Sheffield J, Taylor N, Fauquet C, Chen S (2006) The cassava (Manihot esculenta Crantz) root proteome: Protein identification and differential expression. Proteomics 6(5): 1588-1598.
7. Jellings AJ, Leech RM (1984) Anatomical variation in 1st leaves of 9 Triticum genotypes and its relationship to photosynthetic capacity. New Phytol 96: 371-382.
8. Nassar NMA (2006) The synthesis of a new cassava-derived species Manihot vieiri Nassar. Genet Mol Res 5(3): 536-541.
9. Cavalier-Smith T (1985) Cell volume and the evolution of eukaryotic genome size. In: Cavalier-Smith T, editor. The evolution of genome size. Chichester, UK: John Wiley and Sons. pp. 105-184.
10. Albertin W, Balliau T, Brabant P, Chevre AM, Eber F, et al. (2006) Numerous and rapid nonstochastic modification of gene products in newly synthesized Brassica napus Allotetraploids. Genetics 173(2): 1101-1113. (Pubitemid 43945922)
11. Cai D, Rodr?́guez F, Teng Y, Ané C, Bonierbale M, et al. (2012) Single copy nuclear gene analysis of polyploidy in wild potatoes (Solanum section Petota). BMC Evol Biol 12: 70.
12. Hu G, Houston NL, Pathak D, Schmidt L, Thelen JJ, et al. (2011) Genomically biased accumulation of seed storage proteins in allopolyploid cotton. Genetics 189(3): 1103-1115.
13. Bombarely A, Edwards KD, Sanchez-Tamburrino J, Mueller LA (2012) Deciphering the complex leaf transcriptome of the allotetraploid species Nicotiana tabacum: A phylogenomic perspective. BMC Genomics 13: 406.
14. Lehesranta SJ, Davies HV, Shepherd LV, Nunan N, McNicol JW, et al. (2005) Comparison of tuber proteome of potato varieties landraces, and genetically modified lines. Plant physiol 138(3): 1690-1699. (Pubitemid 43142112)
15. Chen M, Thelen JJ (2010) The essential role of plastidial triose phosphate isomerase in the intergration of seed reserve mobilization and seedling establishment. Plant Signal Behav 5(5): 5583-5585.
16. Albertin W, Brabant P, Catrice O, Eber F, Jenczewski E, et al. (2005) Autopolyploidy in cabbage (Brassica oleracea L.) does not alter significantly the proteomes of green tissues. Proteomics 5(8): 2131-2139. (Pubitemid 40770577)
17. Amiour N, Merlino M, Leroy P, Branlard G (2003) Chromosome mapping and identification of amphiphilic proteins of hexaploid wheat kernels. Theor Appl Genet 108(1): 62-72. (Pubitemid 38097982)
18. Islam N, Tsujimoto H, Hirano H (2003) Proteome analysis of diploid, tetraploid and hexaploid wheat: towards understanding genome interaction. Proteomics 3(4): 549-557. (Pubitemid 36428306)
19. Merlino M, Leroy P, Chambon C, Branlard G (2009) Mapping and proteomic analysis of albumin and globulin proteins in hexaploid wheat kernels (Triticum aestivum L.). Theor Appl Genet 118(7): 1321-1337.
20. Hoehenwarter W, Larhlimi A, Hummel J, Egelhofer V, Selbig J, et al. (2011) MAPA distinguishes genotype-specific variability of highly similar regulatory protein isoforms in potato tuber. J Proteome Res 10(7): 2979-2991.
21. Carpentier SC, Panis B, Renaut J, Samyn B, Vertommen A, et al. (2011) The use of 2D-electrophoresis and de novo sequencing to characterize inter-and intra-cultivar protein polymorphisms in an allopolyploid crop. Phytochemistry 72(10): 1243-1250.
22. Ng DW, Zhang C, Miller M, Shen Z, Briggs SP, et al. (2012) Proteomic divergence in Arabidopsis autopolyploids and allopolyploids and their progenitors. Heredity 108(4): 419-430.
23. Koh J, Chen S, Zhu N, Yu F, Soltis PS, et al. (2012) Comparative proteomics of the recently and recurrently formed natural allopolyploid Tragopogon mirus (Asteraceae) and its parents. New Phytol 196(1): 292-305.
24. Pfosser M, Amon A, Lelley T, Heberle-Bors E (1995) Evaluation of sensitivity of flow cytometry in detecting aneuploidy in wheat using disomic and ditelosomic wheatrye addition lines. Cytometry 21(4): 387-393.
25. Chen S, Gollop N, Heuer B (2009) Proteomic analysis of salt-stressed tomato (Solanum lycposersicum) seedlings: effect of genotype and exogenous application of glycinebetaine. J Exp Bot 60(7): 2005-2019.
26. Neuhoff V, Arold N, Taube D, Ehrhardt W (1988) Improved staining of proteins in polyacrylamide gels including isoelectric focusing gels with clear background at nanogram sensitivity using Coomassie Brilliant Blue G-250 and R-250. Electrophoresis 9(6): 255-262.
27. Behr M, Humbeck K, Hause G, Deising HB, Wirsel SGR (2010) The hemibiotroph colletotrichum graminicola locally induces photosynthetically active green islands but globally accelerates senescence on aging maize leaves. Mol Plant Microbe In 23(7): 879-892.
28. Jorgensen K, Bak S, Busk PK, Sorensen C, Olsen CE, et al. (2005) Cassava plants with a depleted cyanogenic glucoside content in leaves and tubers. Distribution of cyanogenic glucosides, their site of synthesis and transport, and blockage of the biosynthesis by RNA interference technology. Plant Physiol 139:363-374. (Pubitemid 43951619)
29. Harada E, Kim J, Meyer AJ, Hell R, Clemens S, et al. (2010) Expression profiling of tobacco leaf trichomes identifies genes for biotic and abiotic stresses. Plant Cell Physiol 51(10): 1627-1637.
30. Arve LE, Terfa MT, Gislerod HR, Olsen JE, Torre S (2013) High relative air humidity and continuous light reduce stomata functionality by affecting the ABA regulation in rose leaves. Plant Cell Environ 36(2): 382-392.
31. Pankoke H, Buschmann T, Mü ller C (2013) Role of plant b-glucosidases in the dual defense system of iridoid glycosides and their hydrolyzing enzymes in Plantago lanceolata and Plantago major. Phytochemistry 94: 99-107.
32. Broin M, Cuiné S, Peltier G, Rey P (2000) Involvement of CDSP 32, a droughtinduced thioredoxin, in the response to oxidative stress in potato plants. FEBS lett 467(2): 245-248. (Pubitemid 30081743)
33. Rey P, Cuiné S, Eymery F, Garin J, Court M, et al. (2005) Analysis of the proteins targeted by CDSP32, a plastidic thioredoxin participating in oxidative stress responses. Plant J 41(1): 31-42.
34. Achard ME, Hamilton AJ, Dankowski T, Heras B, Schembri MS, et al. (2009) A periplasmic thioredoxin-like protein plays a role in defense against oxidative stress in Neisseria gonorrhoeae. Infect Immun 77(11): 4934-4939.
35. Coll NS, Vercammen D, Smidler A, Clover C, van Breusegem F, et al. (2010) Arabidopsis type I metacaspases control cell death. Science 330(6009): 1393-1397.
36. Watanabe N, Lam E (2011) Arabidopsis metacaspase 2d is a positive mediator of cell death induced during biotic and abiotic stresses. Plant J 66(6): 969-982.
37. Vysotskii DA, de Vries-van Leeuwen IJ, Souer E, Babakov AV, de Boer AH (2012)ABF transcription factors of Thellungiella salsuginea: structure, expression profiles and interaction with 14-3-3 regulatory proteins. Plant Signal Behav 8(1):e22672.
38. Philip T, Govindaiah C, Sengup AK (1991) Anatomical nature of resistance in mulberry genotypes against Cerotelium fici causing leaf rust. Indian Phytopathol 44: 249-251.
39. Warner DA, Edwards GE (1993). Effects of polyploidy on photosynthesis. Photosynth Res 35: 135-147.
40. Coate JE, Schlueter JA, Whaley AM, Doyle JJ. (2011) Comparative evolution of photosynthetic genes in response to polyploid and nonpolyploid duplication. Plant Physiol 155(4): 2081-2095.
41. Karlin-Neumann GA, Tobin EM (1986) Transit peptides of nuclear-encoded chloroplast proteins share a common amino acid framework. The EMBO Journal 5(1): 9-13.
42. Hasan SS, Stofleth JT, Yamashita E, Cramer WA (2013) Lipid-induced conformational changes within the cytochrome b6f complex of oxygenic photosynthesis. Biochemistry 52(15): 2649-2654.
43. Kapralov MV, Smith JAC, Filatov DA (2012). Rubisco evolution in C4 eudicots: An analysis of amaranthaceae Sensu Lato. PLOS ONE 7(12): e52974.
44. Gulde PE, Christen L, Brown SV, Williams N (2013) Three distinct isoforms of ATP synthase subunit c are expressed in T.brucei and assembled into the mitochondrial ATP synthase complex. PLOS ONE 8(1): e54039.
45. Tsukamoto Y, Fukushima Y, Hara S, Hisbori T (2013) Redox control of the activity of phosphoglycerate kinase in Synechocystis sp. PCC6803. Plant cell physiol 54(4): 484-491.
46. Shi J, Chen S, Gollop N, Goren R, Goldschmidt EE, et al. (2008) Effects of anaerobic stress on the proteome of citrus fruit. Plant Science, 175: 478-486.
47. Dorion S, Clendenning A, Jeukens J, Salas JJ, Parveen N, et al. (2012) A large decreaseof cytosolic triosephosphate isomerase in transgenic potato roots affects the distribution of carbon in primary metabolism. Planta 236(4): 1177-1190.
48. Bhattacharyya M, Upadhyay R, Vishveshwara S (2012) Interaction signatures stabilizing the nad(p)-binding rossmann fold: a structure network approach. Plos ONE, 7 (12) e51676.
49. Leegood RC, Lea PJ, Adcock MD, Hausler RE (1995) The regulation and control of photorespiration. J Exp Bot 46: 1397-1414.
50. Kumagai E, Araki T, Hamaoka N, Ueno O (2011) Ammonia emission from rice leaves in relation photorespiration and genotypic differences in glutamine synthetase activity. Ann Bot 108(7): 1381-1386.
51. Trummler K, Wajant H (1997) Molecular cloning of acetone cyanohydrin lyase from flax (Linum usitatissimum). J Biol Chem 272(8): 4770-4774.
52. Narayanan NN, Ihemere U, Ellery C, Sayre RT (2011) Overexpression of hydroxynitrile lyase in cassava roots elevates protein and free amino acids while reducing residual cyanogen levels. PLOS ONE 6(7): e21996.
53. Yaakov B, Kashkush K (2011) Methylation, transcription, and rearrangements of transposable elements in synthetic allopolyploids. Int J Plant Genomics 2011: 569826.
54. Feldman M, Levy AA (2005) Allopolyploidy-a shaping force in the evolution of wheat genomes. Cytogenet Genome Res 109(1-3): 250-258. (Pubitemid 40470330)