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Genes & Genomics

, Volume 31, Issue 4, pp 325–332 | Cite as

Sequence polymorphism and chromosomal localization of 5S rDNA of three cultivated varieties of sweetpotato (Ipomoea batatas (L.) Lam.)

  • Eun Young Choi
  • Jun Hyung Seo
  • Bong Bo Seo
Article
  • 126 Downloads

Abstract

The 5S rDNA of plant is organized into clusters of tandem repeat units which include a coding region of 5S rRNA gene and variable sequences of nontranscribed spacer (NTS). In this study, we investigated sequence polymorphism and chromosomal localization of 5S rDNA in three cultivated varieties of sweet potato (Ipomoea batatas Lam.). Two different PCR products of 5S rDNA were amplified from all three varieties, as approximately 0.25 kb and 0.34 kb with multiples. In sequence analysis, the 5S rDNA ofI. batatas were discriminated from four consensus sequences by in reasonable sizes and molecular informative factors. Four consensus sequences were divided into three short sequences, including 263, 253, and 243 – 283 bp by sequence variation between 160 and 186 bp in NTS region, and one long sequence with 340 bp. To identify molecular relationship among varieties, phylogenetic analysis was applied. A total of 35 sequenced clones in this study were classified into four groups in phylogenetic tree. Interestingly, two varieties included all four groups, but one variety only two groups. To localize the physical map of 5S rDNA, fluorescencein situ hybridization (FISH) was performed in metaphase chromosomes of each varieties. In 90 chromosomes ofI. batatas, 6 loci of 5S rDNA were detected in chromosomes for all varieties. Our results will help to further more understand the genomic relationship inI. batatas, to investigate molecular relationship among varieties.

Key words

Ipomoea batatas Lam fluorescencein situ hybridization (FISH) 5S rRNA genes parsimonious study 

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Reference

  1. Austin DF (1987) The taxonomy, evolution and genetic diversity of sweet potatoes and related wild species. InProceedings of the First Planning Conference, Lima, Peru, International Potato Center (CIP), pp. 27–59.Google Scholar
  2. Becerra Lopez-Lavalle LA andOrjeda G (2002) Occurrence and cytological mechanism of 2n pollen formation in a tetraploid accession ofIpomoea batatas (Sweet Potato). J. Hered. 93: 185–192.CrossRefGoogle Scholar
  3. Do GS andSeo BB (2000) Phylogenetic relationships amongAllium subg.Rhizirideum species based on the molecular variation of 5S rRNA genes. Korean J. Biol. Sci. 4: 77–85.Google Scholar
  4. Do GS, Seo BB, Ko JM, Lee SH, Park JH, Kim IS andSong SD (1999) Analysis of somaclonal variation through tissue culture and chromosomal localization of rDNA sites by fluorescentin situ hybridization in wildAllium tuberosum and a regenerated variant. Plant Cell, Tissue and Organ Culture 57: 113–119.CrossRefGoogle Scholar
  5. Huamán Z (1999) Botany, origin, evolution and biodiversity of the sweetpotato. In Sweetpotato germplasm mangement training manual, Huaman Z, ed., Lima, Peru, International Potato Center (CIP), pp. 1–11.Google Scholar
  6. Jarret RL andAustin DF (1994) Genetic diversity and systematic relationships in sweet potato (Ipomoea batatas (L.) Lam.) and related species as revealed by RAPD analysis. Genet. Resour. Crop. Evol. 41: 165–173.CrossRefGoogle Scholar
  7. Jarret RL, Austin DF andWhittemore A (1992) Phylogenetic relationship of the sweet potato (Ipomoea batatas (L.) Lam.). J. Am. Soc. Hortic. Sci. 117: 633–637.Google Scholar
  8. Jiang J andGill BS (1994) Nonisotopicin situ hybridization and plant genome mapping: the first ten years. Genome 37: 717–725.PubMedGoogle Scholar
  9. Kellogg EA andAppels R (1995) Intraspecific and interspecific variation in 5S RNA genes are decoupled in diploid wheat relatives. Genetics 140: 325–343.PubMedGoogle Scholar
  10. Kim JH, Sohn U andLee HC (1997) Phylogenetic analysis of herbaceous peony using ribosomal DNA partial sequencing and RAPDs. Korean J. Breed 29: 349–358.Google Scholar
  11. Koo DH, Seong NS, Bang KH andBang JW (2003) Karyotype analysis and physical mapping of rDNAs in Bupleurum longeradiatum. Korean J. Medicinal Crop Sci. 11: 402–407.Google Scholar
  12. Lapitan NLV, Ganal MW andTanksley SD (1989) Somatic chromosome karyotypes of tomato based on in situ hybridization of the TAGI satellite repeat. Genome 32: 992–998.Google Scholar
  13. Lee WK, Choi HW andKim DH (2005) Meolecular cytogenetics of fivePulsatilla species to the 5S, 45S rDNA genes by fluorescencein situ hybridization. Korean J. Genetics 27: 179–185.Google Scholar
  14. Leitch IJ andHeslop-Harrison JS (1993) Physical mapping of four sites of 5S ribosomal DNA sequences and one site of the x-amylase 2 gene in barley (Hordeum vulgare). Genome 36: 517–523.CrossRefPubMedGoogle Scholar
  15. Liu ZL, Zhang D, Hong DY andWang XR (2003) Chromosomal localization of 5S and 18S-5.8S-2.5S ribosomal DNA sites in five Asian pines using fluorescence in situ hybridization. Theor. Appl. Genet. 106: 198–204.PubMedGoogle Scholar
  16. Maughan PJ, Kolano BA, Maluszynska J, Coles ND, Bonifacio A, Rojas J, Coleman CE, Stevens MR, Fairbanks DJ, Parkinson SE andJellen EN (2006) Molecular and cytological characterization of ribosomal DNAs inChenopodium quinoa andChenopodium berlandieri. Genome 49: 825–839.CrossRefPubMedGoogle Scholar
  17. Mukai Y, Endo TR andGrill BS (1991) Physical mapping of the18S-26S rRNA multigene family in common wheat. Jour. Hered. 81: 290–295.Google Scholar
  18. Nakajima G (1963) Karyotype of genusIpomoea. Cytologia 28: 351–359.Google Scholar
  19. Rajapakse S, Nilmalgoda DS, Molnar M, Ballard ER, Austin FD andBohac RJ (2004) Phylogenetic relationships of the sweet potato inIpomoea seriesBatatas (Convolvulaceae) based on β-amylase gene sequences. Mol. Phylogenet. Evol. 30: 623–632.CrossRefPubMedGoogle Scholar
  20. Rogers SO andBendich AJ (1987) Ribosomal RNA genes in plant: Variability in copy number and in the intergenic spacer. Plan. Mol. Biol. 9: 509–520.CrossRefGoogle Scholar
  21. Saranya S, Darasinh S andSonja SY (2006) The origin and evolution of sweet potato (Ipomoea batatas Lam.) and its wild relatives through the cytogenetic approaches. Plant Science 171: 424–433.CrossRefGoogle Scholar
  22. Seo JH, Lee SY andSeo BB (2007) Genome analysis using sequence variation and localization of tandem repeats of 5S rRNA gene inAllium wakegi. Kor. J. Breed Sci. 39: 70–76.Google Scholar

Copyright information

© The Genetics Society of Korea & Springer 2009

Authors and Affiliations

  1. 1.Department of BiologyKyungpook National UniversityDaeguKorea

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