Assessment of phylogenetic relationship of Jatropha based on nuclear ITS regions (ITS/5.8S) and chloroplast (cp) matK gene

Authors

  • Adreeja Basu Department of Biological Sciences, St. John’s University, Queens, New York 11439
  • Shree Rajkumar Saha Department of Mathematics, The City College of New York, New York 10031
  • Lingaraj Sahoo Department of Biotechnology, Indian Institute of Technology Guwahati, Guwahati 781039, Assam, India

DOI:

https://doi.org/10.30732/ijbbb.20190401002

Keywords:

ITS spacers, maturaseK, phylogenetics, Jatropha

Abstract

The phylogenetic relationships between the toxic and the non-toxic variety of Jatropha curcas and its sister species Jatropha podagrica and Jatropha gossypifolia from North East India were assessed using the internal transcribed spacer region of nuclear ribosomal DNA (nrDNA ITS) and the maturaseK gene (matK) of chloroplast. For both the marker system, the maximum genetic distance was maintained between J. podagrica and J. curcas. The % (G + C) content of the matK region was markedly lower than that of the ITS region.  ITS biomarkers were able to detect 111 variable sites while only 4 substitutions were detected in highly conserved matK region. The obtained results delineated that, in comparison to matK, ITS sequencing can provide valuable information during interpopulation analysis of Jatropha species.

References

[1] Dehgan B (1984) Phylogenetic significance of interspecific hybridization in Jatropha (Euphorbiaceae). Sys Bot 9: 467-478
[2] Basha SD, Sujatha M (2009) Genetic analysis of Jatropha species and interspecific hybrids of Jatropha curcas using nuclear and organelle specific markers. Euphytica 168: 197-214.
[3] Ram SG, Parthiban KT, Kumar RS, Thiruvengadam V, Paramathma M (2007) Genetic diversity among Jatropha species as revealed by RAPD markers. Genet Resour Crop Evol 55: 803-809
[4] Baldwin BG, Campbell CS, Porter JM, Sanderson MJ, Wojciechowski MF, Donoghue MJ (1995) The ITS region of nuclear ribosomal DNA: a valuable source of evidence on angiosperm phylogeny. Annals of the Missouri Botanical Garden 82: 247-277
[5] Neuhaus H, Link G (1987) The chloroplast tRNA (UUU) gene from mustard (Sinapsis alba) contains a class II intron potentially coding for a maturase-related polypeptide. Current Genetics 11: 251-257
[6] Pamidimarri DVS, Chattopadhyay B, Reddy MP (2009) Genetic divergence and phylogenetic analysis of genus Jatropha based on nuclear ribosomal DNA ITS sequence. Molecular Biology Reports 36: 1929–1935
[7] Doyle JJ, Doyle JL (1990) Isolation of plant DNA from fresh tissue. Focus 12: 13-15
[8] Tamura, K., Peterson, D., Peterson, N., Stecher, G., Nei, M., & Kumar, S. (2011). MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Molecular biology and evolution, 28(10), 2731-2739.
[9] Yang Z, Yoder AD (1999) Estimation of the transition/transversion rate bias and species sampling. J Mol Evol 48: 274-283

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Published

2019-05-07

How to Cite

Basu, A., Saha, S. R., & Sahoo, L. (2019). Assessment of phylogenetic relationship of Jatropha based on nuclear ITS regions (ITS/5.8S) and chloroplast (cp) matK gene. CSVTU International Journal of Biotechnology, Bioinformatics and Biomedical, 4(1), 13–20. https://doi.org/10.30732/ijbbb.20190401002

Issue

Vol. 4 No. 1 (2019): CSVTU IJBBB

Section

Articles

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