View More View Less
  • 1 Shahid Beheshti University, Tehran, Iran
  • 2 Islamic Azad University, Tehran, Iran
Restricted access

Purchase article

USD  $25.00

1 year subscription (Individual Only)

USD  $692.00

The genus Geranium (Geraniaceae); with about 320 species throughout the temperate regions, is chemically characterised by the presence of tannins, flavonoids, anthocyanins and essential oils which interfere with the extraction of pure genomic DNA. It is necessary to optimise the extraction protocols to reduce the effects of the presence of these compounds to the lowest level.

The present study compares the plant genomic DNA extraction Kit (DNP™ Kit), CTAB DNA extraction method by Murray and Thompson and Sahu et al., from the extracting DNA point of view Geranium species. The results showed significant differences in DNA contents between the three methods. Quantity and quality of extracted genomic DNAs were compared by employing the spectrophotometer, Nano-Drop, agarose gel electrophoresis, and polymerase chain reaction (PCR) methods and molecular marker such as (ITS and trnL-F) and ISSR. The method of Sahu et al., provided the best results (200 ng/µL) in terms of quantity and quality of DNA, therefore, this method was taken and optimised for DNA extraction. Our results proposed that this method could be effective for plants with same polysaccharides, proteins and polyphenols components. The advantage of this method is that it omits the use of liquid nitrogen and toxic phenols which are expensive. The success of this method in obtaining high-quality genomic DNA has been demonstrated in the Geranium species group and the reliability of this method has been discussed.

  • Aedo, C., Aldasoro, J. J.and Navarro, C. (1998): Taxonomic revision of Geranium L., sections Divaricata Rouy and Batrachioidea W. D. J. Koch (Geraniaceae). – Ann. Mo. Bot. Gard. 85: 594630. https://doi.org/10.2307/2992018

    • Search Google Scholar
    • Export Citation
  • Bate-Smith, E. C. (1973): Chemotaxonomy of Geranium. – Bot. J. Linn. Soc. 67: 347359. https://doi.org/10.1111/j.1095-8339.1973.tb02552.x

    • Search Google Scholar
    • Export Citation
  • Baytop, T. (1999): Therapy with medicinal plants in Turkey (past and present). 2nd ed. – Nobel Tip Kitabevleri Ltd., Istanbul, 334 pp.

    • Search Google Scholar
    • Export Citation
  • Bi, I. V., Harvengt, L., Chandelier, A., Mergeai, G. and Jardin, P. D. (1996): Improved RAPD amplification of recalcitrant plant DNA by the use of activated charcoal during DNA extraction. – Plant Breeding. 115: 205206. https://doi.org/10.1111/j.1439-0523.1996.tb00905.x

    • Search Google Scholar
    • Export Citation
  • Brondmann, P. (2008): DNA extraction from different matrices. – Molecular Biology Methods for Traceability Purposes, BfR Berlin, Germany, pp. 1819.

    • Search Google Scholar
    • Export Citation
  • Chase, M. W.and Hills, H. H. (1991): Silica gel: an ideal material for field preservation of leaf samples for DNA studies. – Taxon. 40: 215220. https://doi.org/10.2307/1222975

    • Search Google Scholar
    • Export Citation
  • Chaudhry, B., Yasmeen, A., Husnain, T. and Riazuddin, S. (1999): Mini-scale genomic DNA extraction from cotton. – Plant Mol. Biol. Rep. 17: 280. https://doi.org/10.1023/A:1007629715971

    • Search Google Scholar
    • Export Citation
  • Couch, J. A.and Fritz, P. J. (1990): Isolation of DNA from plants high in polyphenolics. – Plant Mol. Biol. Rep. 8: 812. https://doi.org/10.1007/bf02668875

    • Search Google Scholar
    • Export Citation
  • Csaikl, U., Bastian, H., Brettschneider, R., Gauch, S., Meir, A., Schauerte, M. and Ziegenhagen, B. (1998): Comparative analysis of different DNA extraction protocols: a fast, universal maxi-preparation of high quality plant DNA for genetic evaluation and phylogenetic studies. – Plant Mol. Biol. Rep. 16: 6986. https://doi.org/10.1023/A:1007428009556

    • Search Google Scholar
    • Export Citation
  • Doyle, J. J.and Doyle, J. E. (1990): Isolation of plant DNA from fresh plant tissue. – Focus 12: 1315.

  • Esfandani-Bozchaloyi, S., Sheidai, M., Keshavarzi, M. and Noormohammadi, Z. (2017a): Genetic diversity and morphological variability in Geranium purpureum Vill. (Geraniaceae) of Iran. – Genetika 49: 543557. https://doi.org/10.2298/gensr1702543b

    • Search Google Scholar
    • Export Citation
  • Esfandani-Bozchaloyi, S., Sheidai, M., Keshavarzi, M. and Noormohammadi, Z. (2017b): Species delimitation in Geranium Sect. Batrachioidea: morphological and molecular. – Acta Bot. Hung. 59 (3-4): 319334. https://doi.org/10.1556/034.59.2017.3-4.3

    • Search Google Scholar
    • Export Citation
  • Esfandani-Bozchaloyi, S., Sheidai, M., Keshavarzi, M. and Noormohammadi, Z. (2017c): Genetic and morphological diversity in Geranium dissectum (Sec. Dissecta, Geraniaceae) populations. – Biologia 72(10): 11211130. https://doi.org/10.1515/bi-olog-2017-0124

    • Search Google Scholar
    • Export Citation
  • Esfandani-Bozchaloyi, S., Sheidai, M., Keshavarzi, M. and Noormohammadi, Z. (2017d): Analysis of genetic diversity in Geranium robertianum by ISSR markers. – Phytol. Balcan. 23(2): 157166.

    • Search Google Scholar
    • Export Citation
  • Esfandani-Bozchaloyi, S., Sheidai, M., Keshavarzi, M. and Noormohammadi, Z. (2018a): Species relationship and population structure analysis in Geranium subg. Robertium (Picard) Rouy with the use of ISSR molecular markers. – Acta Bot. Hung. 60(1-2): 4765. https://doi.org/10.1556/034.60.2018.1-2.4

    • Search Google Scholar
    • Export Citation
  • Esfandani-Bozchaloyi, S., Sheidai, M., Keshavarzi, M. and Noormohammadi, Z. (2018b): Species identification and population structure analysis in Geranium subg. Geranium (Geraniaceae). – Hacquetia 17(2): 235246. https://doi.org/10.1515/hacq-2017-0007

    • Search Google Scholar
    • Export Citation
  • Esfandani-Bozchaloyi, S., Sheidai, M., Keshavarzi, M. and Noormohammadi, Z. (2018c): Morphometric and ISSR-analysis of local populations of Geranium molle L. from the southern coast of the Caspian Sea. – Cytol. Genet. 52: 309321. https://doi.org/10.3103/s0095452718040102

    • Search Google Scholar
    • Export Citation
  • Gupta, P. K., Varshney, R. K., Sharma, P. C.and Ramesh, B. (1999): Molecular markers and their applications in wheat breeding. – Plant Breeding 118: 369390. https://doi.org/10.1046/j.1439-0523.1999.00401.x

    • Search Google Scholar
    • Export Citation
  • Jenderek, M., Shierenbeck, K. and Olney, A. (1997): Development of random amplified polymorphic DNA markers characteristic of Hibiscus rosa-sinensis and H. syriacus. – Center for Irrigation Technology, California State University, USA.

    • Search Google Scholar
    • Export Citation
  • Khadivi-Khub, A., Zamani, Z. and Bouzari, N. (2008): Evaluation of genetic diversity in some Iranian and foreign sweet cherry cultivars by using RAPD molecular markers and morphological traits. – Hortic. Environ. Biotechnol. 49: 188196.

    • Search Google Scholar
    • Export Citation
  • Lodhi, M. A., Ye, G. N., Weeden, N. F.and Reisch, B. I. (1994): A simple and efficient method for DNA extraction from grapevine cultivars and Vitis species. – Plant Mol. Biol. Rep. 12: 613. https://doi.org/10.1007/bf02668658

    • Search Google Scholar
    • Export Citation
  • Loomis, W. D. (1974): Overcoming problems of phenolics and quinones in the isolation of plant enzymes and organelles. – Meth. Enzymol. 31: 528544. https://doi.org/10.1016/0076-6879(74)31057-9

    • Search Google Scholar
    • Export Citation
  • Moreira, P. A.and Oliveira, D. A. (2011): Leaf age affects the quality of DNA extracted from Dimorphandra mollis (Fabaceae), a tropical tree species from the Cerrado region of Brazil. – Genet. Mol. Res. 10: 353358. https://doi.org/10.4238/vo110-1gmr1030

    • Search Google Scholar
    • Export Citation
  • Murray, M. G.and Thompson, W. F. (1980): Rapid isolation of high molecular weight plant DNA. – Nucleic Acids Res. 8: 43214325. https://doi.org/10.1093/nar/8.19.4321

    • Search Google Scholar
    • Export Citation
  • Paterson, A. H., Brubaker, C. L.and Wendel, J. F. (1993): A rapid method for extraction of cotton (Gossypium spp.) genomic DNA suitable for RFLP or PCR analysis. – Plant Mol. Biol. Rep. 11: 122127. https://doi.org/10.1007/bf02670470

    • Search Google Scholar
    • Export Citation
  • Porebski, S., Bailey, L. G.and Baum, B. R. (1997): Modification of a CTAB DNA extraction protocol for plants containing high polysaccharide and polyphenol component. – Plant Mol. Biol. Rep. 15: 815. https://doi.org/10.1007/bf02772108

    • Search Google Scholar
    • Export Citation
  • Reichandt, M. and Rogers, S. (1994): Preparation of plant DNA using CTAB. – Curr. Protoc. Mol. Biol. 12: 233237.

  • Saghai-Maroof, M. A., Soliman, K. M., Jorgensen, R. A. and Allard, R.W. (1984): Ribosomal DNA spacer-length polymorphisms in barley: mendelian inheritance, chromosomal location, and population dynamics. – Proc. Natl. Acad. Sci. USA 81: 80148018. https://doi.org/10.1073/pnas.81.24.8014

    • Search Google Scholar
    • Export Citation
  • Sahu, S. K., Thangaraj, M. and Kathiresan, K. (2012): DNA extraction protocol for plants with high levels of secondary metabolites and polysaccharides without using liquid nitrogen and phenol. – ISRN Mol. Biol. 11: 16. https://doi.org/10.5402/2012/205049

    • Search Google Scholar
    • Export Citation
  • Sarkhosh, A., Zamani, Z., Fatahi, R. and Ebadi, A. (2006): RAPD markers reveal polymorphism among some Iranian pomegranate (Punica granatum L.) genotypes. – Sci. Hort. 111: 2429. https://doi.org/10.1016/j.scienta.2006.07.033

    • Search Google Scholar
    • Export Citation
  • Schönbeck-Temesy, E. (1970): Geraniaceae. – In Rechinger, K. H. (ed.): Flora Iranica, Vol 69. Akademische Druck, Graz, Austria, pp. 3058.

    • Search Google Scholar
    • Export Citation
  • Suman, P. S. K., Ajit, K. S., Darokar, M. P.and Sushil, K. (1999): Rapid isolation of DNA from dry and fresh samples of plants producing large amounts of secondary metabolites and essential oils. – Plant Mol. Biol. Rep. 17: 74. https://doi.org/10.1023/A:1007528101452

    • Search Google Scholar
    • Export Citation
  • Taberlet, P., Gielly, L., Pautou, G. and Bouvet, J. (1991): Universal primers for amplification of three non-coding regions of chloroplast DNA. – Plant Mol. Biol. 17: 11051109. https://doi.org/10.1007/bf00037152

    • Search Google Scholar
    • Export Citation
  • Talebi-Baddaf, M., Sharifi-Neia, B. and Bahar, M. (2003): Analysis of genetic diversity in pomegranate cultivars of Iran, using random amplified polymorphic DNA (RAPD) markers. – Proceeds., Third National Congress of Biotechnology, Iran, pp. 343345.

    • Search Google Scholar
    • Export Citation
  • Weising, K., Nybom, H., Wolff, K. and Meyer, W. (1995): DNA isolation and purification. In: DNA fingerprinting in plants and fungi. – CRC Press, Boca Raton, Florida, pp. 4459.

    • Search Google Scholar
    • Export Citation
  • White, T. J., Bruns, T., Les, S. and Taylor, J. (1990): Amplification and direct sequencing of fungal ribosomal RNA genes for phylogenetics. – In: Innis, M. A., Gelfand, D. H., Sninsky, J. J. and White, T. J. (eds): PCR protocols: a guide to methods and application. Academic Press, San Diego, pp. 315322.

    • Search Google Scholar
    • Export Citation
  • Wilmington, D. E. (2008): NanoDrop 1000 Spectrophotometer V3.7 User's Manual. – Thermo Fisher Scientific Inc., 105 pp.

  • Zamboni, A., Pierantoni, L. and De Franceschi, P. (2008): Total RNA extraction from strawberry tree (Arbutus unedo) and several other woody-plants. – IForest, Biogeosci. Forest. 1: 122125. https://doi.org/10.3832/ifor0465-0010122

    • Search Google Scholar
    • Export Citation
  • Zhang, J. and Stewart, J. M. (2000): Economical and rapid method for extracting cotton genomic DNA. – J. Cotton. Sci. 4: 193201.

 

The author instruction is available in PDF.
Please, download the file from HERE.

 

 

 

Senior editors

Editor(s)-in-Chief: Botta-Dukát, Zoltán

Honorary Editor(s)-in-Chief: Borhidi, Attila

Managing Editors

Lökős, László

Peregovits, László

Editorial Board

Botta-Dukát, Zoltán
E-mail: botta-dukat.zoltan@okologia.mta.hu

or

Lőkös, László
E-mail: acta@bot.nhmus.hu
Institute: Botanical Department, Hungarian Natural History Museum
Address: Könyves K. krt. 40. H-1097 Budapest, Hungary

Indexing and Abstracting Services:

  • Biological Abstracts
  • BIOSIS Previews
  • CAB Abstracts
  • Chemical Abstracts
  • Global Health
  • Referativnyi Zhurnal

 

2019  
Scimago
H-index
17
Scimago
Journal Rank
0,404
Scimago
Quartile Score
Plant Science Q2
Ecology, Evolution, Behavior and Systematics Q3
Scopus
Cite Score
164/91=1,8
Scopus
Cite Score Rank
Plant Science 209/431 (Q2)
Ecology, Evolution, Behavior and Systematics 358/629 (Q3)
Scopus
SNIP
0,699
Scopus
Cites
215
Scopus
Documents
23
Acceptance
Rate
30%

 

Language: English, French, German, Russian, Spanish

Founded in 1954
Publication: One volume of four issues annually
Publication Programme: 2020: Vol. 62

Subscribers can access the electronic version of every printed article.