Planta

, Volume 223, Issue 3, pp 418–432 | Cite as

Developmental and gene expression analyses of a cotton naked seed mutant

  • Jinsuk J. Lee
  • Osama S. S. Hassan
  • Wenxilang Gao
  • Ning E. Wei
  • Russell J. Kohel
  • Xiao-Ya Chen
  • Paxton Payton
  • Sing-Hoi Sze
  • David M. Stelly
  • Z. Jeffrey Chen
Original Article

Abstract

Keywords

Cotton (Gossypium hirsutum L) Fiberless mutant Fiber cell initiation Microarray Gene regulation Arabidopsis 

Abbreviations

TM-1

Texas Marker-1

DPA

Days post anthesis

qRT-PCR

Quantitative reverse-transcriptase polymerase chain reaction

Supplementary material

425_2005_98_MOESM1_ESM.pdf (489 kb)
Supplementary material

References

  1. Abe M, Takahashi T, Komeda Y (1999) Cloning and characterization of an L1 layer-specific gene in Arabidopsis thaliana. Plant Cell Physiol 40:571–580PubMedGoogle Scholar
  2. Abe M, Takahashi T, Komeda Y (2001) Identification of a cis-regulatory element for L1 layer-specific gene expression, which is targeted by an L1-specific homeodomain protein. Plant J 26:487–494CrossRefPubMedGoogle Scholar
  3. Adams KL, Cronn R, Percifield R, Wendel JF (2003) Genes duplicated by polyploidy show unequal contributions to the transcriptome and organ-specific reciprocal silencing. Proc Natl Acad Sci USA 100:4649–4654CrossRefPubMedGoogle Scholar
  4. Arabidopsis Genome Initiative (2000) Analysis of the genome sequence of the flowering plant Arabidopsis thaliana. Nature 408:796–815Google Scholar
  5. Arpat AB, Waugh M, Sullivan JP, Gonzales M, Frisch D, Main D, Wood T, Leslie A, Wing RA, Wilkins TA (2004) Functional genomics of cell elongation in developing cotton fibers. Plant Mol Biol 54:911–929CrossRefPubMedGoogle Scholar
  6. Basra A, Malik CP (1984) Development of the cotton fiber. Int Rev Cytol 89:65–113CrossRefGoogle Scholar
  7. Benedict CR, Smith RH, Kohel RJ (1973) Incorporation of 14 C-photosynthate into developing cotton balls, Gossypium hirsutum L. Crop Sci 13:88–91CrossRefGoogle Scholar
  8. Black MA, Doerge RW (2002) Calculation of the minimum number of replicate spots required for detection of significant gene expression fold change in microarray experiment. Bioinformatics 18:1609–1616CrossRefPubMedGoogle Scholar
  9. Blanc G, Wolfe KH (2004b) Widespread paleopolyploidy in model plant species inferred from age distributions of duplicate genes. Plant Cell 16:1667–1678CrossRefPubMedGoogle Scholar
  10. Blanc G, Wolfe KH (2004a) Functional divergence of duplicated genes formed by polyploidy during Arabidopsis evolution. Plant Cell 16:1679–1691CrossRefPubMedGoogle Scholar
  11. Cedroni ML, Cronn RC, Adams KL, Wilkins TA, Wendel JF (2003) Evolution and expression of MYB genes in diploid and polyploid cotton. Plant Mol Biol 51:313–325CrossRefPubMedGoogle Scholar
  12. Chen ZJ, Wang JL, Tian L, Lee HS, Wang JYJ, Chen M, Lee JSJ, Josefsson C, Madlung A, Watson B, Lippman Z, Vaughn M, Pires JC, Colot V, Doerge RW, Martienssen RA, Comai L, Osborn TC (2004) The development of an Arabidopsis model system for genome-wide analysis of polyploidy effects. Bio J Linn Soc 82:689–700CrossRefGoogle Scholar
  13. Cleveland WS (1979) Robust locally weighted regression and smoothing scatterplots. J Amer Stat Assoc 74:829–836CrossRefGoogle Scholar
  14. Endrizzi JE, Turcotte EL, Kohel RJ (1984) Qualitative genetics, cytology and cytogenetics. In: Kohel RJ, Lewis DF (eds) Agronomy: Cotton. American Society of Agronomy Inc, Madison WI, pp 59–80Google Scholar
  15. Fojtova M, Kovarik A, Votruba I, Holy A (1998) Evaluation of the impact of S-adenosylhomocysteine metabolic pools on cytosine methylation of the tobacco genome. Eur J Biochem 252:347–352CrossRefPubMedGoogle Scholar
  16. Graves DA, Stewart JM (1988) Chronology of the differentiation of cotton (Gossypium hirsutum L) fiber cells. Planta 175:254–258CrossRefGoogle Scholar
  17. Hochberg Y, Tamhane AC (1987) Multiple comparison procedures. Wiley, New York, 450 pGoogle Scholar
  18. Hulskamp M (2004) Plant trichomes: a model for cell differentiation. Nat Rev Mol Cell Biol 5:471–480CrossRefPubMedGoogle Scholar
  19. Hülskamp M, Schnittger AT (1998) Spatial regulation of trichome formation in Arabidopsis thaliana. Semin Cell Dev Biol 9:213–220CrossRefPubMedGoogle Scholar
  20. Hülskamp M, Misera S, Jurgens G (1994) Genetic dissection of trichome cell development in Arabidopsis. Cell 76:555–566CrossRefPubMedGoogle Scholar
  21. Ji SJ, Lu YC, Feng JX, Wei G, Li J, Shi YH, Fu Q, Liu D, Luo JC, Zhu YX (2003) Isolation and analyses of gene preferentially expressed during early cotton fiber development by subtractive PCR and cDNA array. Nucleic Acids Res 31:2534–2543CrossRefPubMedGoogle Scholar
  22. John ME (1996) Structural characterization of genes corresponding to cotton fiber mRNA, E6: reduced E6 protein in transgenic plants by antisense gene. Plant Mol Biol 30:297–306CrossRefPubMedGoogle Scholar
  23. John ME, Crow LJ (1992) Gene expression in cotton (Gossypium hirsutum L) fiber: cloning of the mRNAs. Proc Natl Acad Sci U S A 89:5769–5773PubMedCrossRefGoogle Scholar
  24. Kane MD, Jatkoe TA, Stumpf CR, Lu J, Thomas JD, Madore SJ (2000) Assessment of the sensitivity and specificity of oligonucleotide (50 mer) microarrays. Nucleic Acids Res 28:4552–4557PubMedCrossRefGoogle Scholar
  25. Kerr MK, Churchill GA (2001) Experimental design for gene expression microarrays. Biostatistics 2:183–201CrossRefPubMedGoogle Scholar
  26. Kim HJ, Triplett BA (2001) Cotton fiber growth in planta and in vitro: Models for plant cell elongation and cell wall biogenesis. Plant Physiol 127:1361–1366CrossRefPubMedGoogle Scholar
  27. Kohel RJ (1973) Genetic nomenclature in cotton. J Hered 64:291–295Google Scholar
  28. Lee HS, Wang JL, Tian L, Jiang HM, Black MA, Madlung A, Watson B, Lukens L, Pires JC, Wang JJ, Comai L, Osborn TC, Doerge RW, Chen ZJ (2004) Sensitivity of 70-mer oligonucleotides and cDNAs for microarray analysis of gene expression in Arabidopsis and its related species. Plant Biotechnol J 2:45–57CrossRefPubMedGoogle Scholar
  29. Li F, Stormo GD (2001) Selection of optimal DNA oligos for gene expression arrays. Bioinformatics 17:1067–1076CrossRefPubMedGoogle Scholar
  30. Li CH, Zhu YQ, Meng YL, Wang JW, Xu KX, Zhang TZ, Chen XY (2002) Isolation of genes preferentially expressed in cotton fibers by cDNA filter arrays and RT-PCR. Plant Sci 163:1113–1120CrossRefGoogle Scholar
  31. Li XB, Fan XP, Wang XL, Cai L, Yang WC (2005) The cotton ACTIN1 gene is functionally expressed in fibers and participates in fiber elongation. Plant Cell 17:859–875CrossRefPubMedGoogle Scholar
  32. Loguercio LL, Zhang JQ, Wilkins TA (1999) Differential regulation of six novel MYB-domian genes defines two distinct expression patterns in allotetraploid cotton (Gossypium hirsutum L). Mol Gen Genet 261:660–671CrossRefPubMedGoogle Scholar
  33. Lolle SJ, Cheung AY, Sussex IM (1992) Fiddlehead: an Arabidopsis mutant constitutively expressing an organ fusion program that involves interactions between epidermal cells. Dev Biol 152:383–392CrossRefPubMedGoogle Scholar
  34. Marks MD (1997) Molecular genetic analysis of trichome development in Arabidopsis. Ann Rev Plant Physiol Plant Mol Biol 48:137–163CrossRefGoogle Scholar
  35. Mauney JR (1984) Anatomy and morphology of cultivated cottons. In: Kohel RJ, Lewis DF (eds) Agronomy: cotton. pp 59–80Google Scholar
  36. Meinert MC, Delmer DP (1977) Changes in biochemical composition of cell-wall of cotton fiber during development. Plant Physiol 59:1088–1097PubMedGoogle Scholar
  37. Murai K, Takumi S, Koga H, Ogihara Y (2002) Pistillody, homoeotic transformation of stamens into pistil-like structures, caused by nuclear-cytoplasm interaction in wheat. Plant J 29:169–181CrossRefPubMedGoogle Scholar
  38. Noda K, Glover BJ, Linstead P, Martin C (1994) Flower colour intensity depends on specialized cell shape controlled by a Myb-related transcription factor. Nature 369:661–664CrossRefPubMedGoogle Scholar
  39. Payne T, Clement J, Arnold D, Lloyd A (1999) Heterologous myb genes distinct from GL1 enhance trichome production when overexpressed in Nicotiana tabacum. Development 126:671–682PubMedGoogle Scholar
  40. Pruitt RE, Vielle-Calzada JP, Ploense SE, Grossniklaus U, Lolle SJ (2000) FIDDLEHEAD, a gene required to suppress epidermal cell interactions in Arabidopsis, encodes a putative lipid biosynthetic enzyme. Proc Natl Acad Sci U S A 97:1311–1316CrossRefPubMedGoogle Scholar
  41. Quackenbush J (2002) Microarray data normalization and transformation. Nat Genet 32:496–501CrossRefPubMedGoogle Scholar
  42. Ramsey JC, Berlin JD (1976) Ultrastructure of early stages of cotton fiber differentiation. Bot Gaz 137:11–19CrossRefGoogle Scholar
  43. Rouillard JM, Herbert CJ, Zuker M (2002) OligoArray: genome-wide oligonucleotide design for microarrays. Bioinformatics 18:486–487CrossRefPubMedGoogle Scholar
  44. Ruan YL, Chourey PS (1998) A fiberless seed mutation in cotton is associated with lack of fiber cell initiation in ovule epidermis and alterations in sucrose synthase expression and carbon partitioning in developing seeds. Plant Physiol 118:399–406CrossRefPubMedGoogle Scholar
  45. Ruan YL, Llewellyn DJ, Furbank RT (2000) Pathway and control of sucrose import into initiating cotton fibers. Aust J Plant Physiol 27:795–800Google Scholar
  46. Ruan Y, Llewellyn D, Furbank R (2001) The control of single-celled cotton fiber elongation by developmentally reversible gating of plasmodesmata and coordinated expression of sucrose and k(+) transporters and expansin. Plant Cell 13:47–60CrossRefPubMedGoogle Scholar
  47. Ruan YL, Llewellyn DJ, Furbank RT (2003) Suppression of sucrose synthase gene expression represses cotton fiber cell initiation, elongation, and seed development. Plant Cell 15:952–64CrossRefPubMedGoogle Scholar
  48. Samora PJ, Stelly DM, Kohel RJ (1994) Localization and mapping of the Le1 and Gl2 of cotton (Gossypium hirsutum L). J Hered 85: 152–157Google Scholar
  49. Schubert AM, Benedict CR, Gates CE, Kohel RJ (1976) Growth and development of the lint fibers of Pima S-4 cotton. Crop Sci 16:539–543CrossRefGoogle Scholar
  50. Stewart JM (1975) Fiber initiation on the cotton ovule (G hirsutum). Amer J Bot 62:723–730CrossRefGoogle Scholar
  51. Suo J, Liang X, Pu L, Zhang Y, Xue Y (2003) Identification of GhMYB109 encoding a R2R3 MYB transcription factor that expressed specifically in fiber initials and elongating fibers of cotton (Gossypium hirsutum L). Biochim Biophys Acta 1630:25–34PubMedGoogle Scholar
  52. Szymanski DB, Lloyd AM, Marks MD (2000) Progress in the molecular genetic analysis of trichome initiation and morphogenesis in Arabidopsis. Trends Plant Sci 5:214–219CrossRefPubMedGoogle Scholar
  53. Tanaka H, Masuta C, Uehara K, Kataoka J, Koiwai A, Noma M (1997) Morphological changes and hypomethylation of DNA in transgenic tobacco expressing antisense RNA of the S-adenosyl-L-homocysteine hydrolase gene. Plant Mol Biol 35:981–986CrossRefPubMedGoogle Scholar
  54. Tian L, Wang J, Fong MP, Chen M, Cao H, Gelvin SB, Chen ZJ (2003) Genetic control of developmental changes induced by disruption of Arabidopsis histone deacetylase 1 (AtHD1) expression. Genetics 165:399–409PubMedGoogle Scholar
  55. Tian L, Fong MP, Wang JJ, Wei NE, Jiang H, Doerge RW, Chen ZJ (2005) Reversible histone acetylation and deacetylation mediate genome-wide, promoter-dependent and locus-specific changes in gene expression during plant development. Genetics 169:337–345CrossRefPubMedGoogle Scholar
  56. Tiwari SC, Wilkins TA (1995) Cotton (Gossypium hirsutum) seed trichomes expand via diffuse growing mechanism. Can J Bot 73:746–757Google Scholar
  57. Wang S, Wang JW, Yu N, Li CH, Luo B, Gou JY, Wang LJ, Chen XY (2004) Control of plant trichome development by a cotton fiber MYB gene. Plant Cell 16:2323–2334CrossRefPubMedGoogle Scholar
  58. Wang J, Lee JJ, Tian L, Lee HS, Chen M, Rao S, Wei EN, Doerge RW, Comai L, Chen ZJ (2005) Methods for genome-wide analysis of gene expression changes in polyploids. Methods Enzymol 395:570–596CrossRefPubMedGoogle Scholar
  59. Wilkins TA, Jernstedt JA (1999) Chapter 9. Molecular genetics of developing cotton fibers. In: Basra AM (ed) Cotton fibers. Hawthorne Press, New York, pp 231–267Google Scholar
  60. Yephremov A, Wisman E, Huijser P, Huijser C, Wellesen K, Saedler H (1999) Characterization of the FIDDLEHEAD gene of Arabidopsis reveals a link between adhesion response and cell differentiation in the epidermis. Plant Cell 11:2187–2201CrossRefPubMedGoogle Scholar
  61. Zhu YQ, Xu KX, Luo B, Wang JW, Chen XY (2003) An ATP-binding cassette transporter GhWBC1 from elongating cotton fibers. Plant Physiol 133: 580–588CrossRefPubMedGoogle Scholar

Copyright information

© Springer-Verlag 2005

Authors and Affiliations

  • Jinsuk J. Lee
    • 1
  • Osama S. S. Hassan
    • 1
    • 6
  • Wenxilang Gao
    • 1
    • 7
  • Ning E. Wei
    • 2
  • Russell J. Kohel
    • 3
  • Xiao-Ya Chen
    • 4
  • Paxton Payton
    • 5
  • Sing-Hoi Sze
    • 2
  • David M. Stelly
    • 1
  • Z. Jeffrey Chen
    • 1
  1. 1.Department of Soil and Crop Sciences and Intercollegiate Program in GeneticsTexas A&M UniversityCollege StationUSA
  2. 2.Departments of Computer Science and Biochemistry and BiophysicsTexas A&M UniversityCollege StationUSA
  3. 3.Crop Germplasm Research UnitUSDA-ARSCollege StationUSA
  4. 4.Institute of Plant Physiology and Ecology, Shanghai Institutes for Biological SciencesChinese Academy of SciencesShanghaiChina
  5. 5.USDA-ARS Cropping Systems Research LaboratoryLubbockUSA
  6. 6.Agricultural Genetic Engineering Research Institute (AGERI)Agricultural Research Center (ARC)GizaEgypt
  7. 7.Department of GeneticsUniversity of GeorgiaAthensUSA
  8. 8.Institute for Cellular and Molecular BiologyThe University of Texas at AustinAustinUSA

Personalised recommendations