Characterization of some upland cotton varieties using AFLP and NIR techniques

Saleh, Basel

doi:10.2478/v10207-012-0010-y

Abstract

This study was performed to assess genetic variability and chemical components of five upland cotton (Gossypium hirsutum L.) varieties grown in Syria using AFLP and NIR techniques. These varieties present considerable interest for genetic studies and plant improvement. Twenty-one AFLP PCs primer combinations yielded 1,017 discernible loci of which 495 (50.569%) were polymorphic. Selected markers/primer pairs were ranged between 22 (E-AGA/T-GAA) and 89 (E-GAA/ T-CTT) fragments with an average of 48.429 fragments per primer pair. Marker Index (MI) average for AFLP markers was estimated to be 5.036. Our data revealed that both techniques gave relatively similar results regarding the degree of relatedness among the tested varieties. The pattern generated in NIR technique partially correlated with the other one revealed by AFLP technique. Summarizing all results obtained from NIR and AFLP techniques, we could conclude that chemical structure was relatively reflected in genetic variation among the tested cotton varieties.

References

ABDALLA, A.M. - REDDY, O.U.K. - EL-ZIK, K.M. - PEPPER, A.E. 2001. Genetic diversity and relationships of diploid and tetraploid cottons revealed using10.1007/s001220051639
Search in Google Scholar
AFLP. In Theoretical and Applied Genetics, vol. 102, 2001, no. 2-3, pp. 222-229.10.1007/s001220051639
Search in Google Scholar
ADAWY, S.S. - HUSSEIN, E.H.A. - HANAIYA, A.E. 2006. Molecular characterization and genetic relationship among cotton genotypes: 2-AFLP analysis. In Arab Journal of Biotechnology, vol. 9, 2006, no. 3, pp. 478-492.
Search in Google Scholar
ADAWY, S.S. 2007. An evaluation of the utility of simple sequence repeat loci (SSR), expressed sequence tag microsatellites (EST-SSR) as molecular markers in cotton. In Journal of Applied Sciences Research, vol. 3, 2007, no. 11, pp. 1581-1588.
Search in Google Scholar
BADIGANNAVAR, A. - MYERS, G. - AGCENTER, L.S.U. - BATON-ROUGE, L.A. 2010. Genetic analysis of AFLP markers associated with seed quality traits in Upland cotton (Gossypium hirsutum). In 2010 Beltwide Cotton Conferences : proceeding from conference. New Orleans, Louisiana, January 4-7. Nat. Cotton Counc. Am., Memphis, TN.
Search in Google Scholar
BOTSTEIN, D. - WHITE, R.L. - SKOLINCK, M. - DAVIS, R.W. 1980. Constraction of a genetic linkage map in man using restriction fragment length polymorphisms. In American Journal of Human Genetics, vol. 32, 1980, no. 3, pp. 314-331.
Search in Google Scholar
CHAUDHARY, L. - SINDHU, A. - KUMAR, M. - KUMAR, R. - SAINI, M. 2010. Estimation of genetic divergence among some cotton varieties by RAPD analysis. In Journal of Plant Breeding and Crop Science, vol. 2, 2010, no. 3, pp. 39-43.
Search in Google Scholar
DOYLE, J.J. - DOYLE, J.L. 1987. A rapid DNA isolation procedure for small quantities of fresh leaf tissue. In Phytochemical Bulletin, 1987, no. 19, pp. 11-15.
Search in Google Scholar
FORTIER, C. - RODGERS, J. - FOULK, J. - WHITELOCK, D. 2012. Textile technology: Near-Infrared classification of cotton lint, botanical and field trash. In Journal of Cotton Sciences, vol. 16, 2012, no. 1, pp. 72-79.
Search in Google Scholar
HUSSEIN, E.H.A. - AL-SAID, M.S. - HANAIYA, A.E. - MADKOUR, M.A. 2002. Genotyping Egyptian cotton varieties (G. barbadense) using molecular markers. In Biotechnology and sustainable development voices of the south and north conference held at the Bibliotheca Alexandrina Conference Center, March 16-20, Alexandria, Egypt. 2002.
Search in Google Scholar
HUSSEIN, E.H.A. - MOHAMED, A.A. - ATTIA, S. - ADAWY, S.S. 2006. Molecular characterization and genetic relationships among cotton genotypes 1- RAPD, ISSR and SSR analysis. In Arab Journal of Biotechnology, vol. 9, 2006, no. 2, pp. 313-328.
Search in Google Scholar
HUSSEIN, E.H.A. - MARWA, H.A. - HUSSEIN, O.M.H. - ADAWY, S.S. 2007. Molecular characterization of cotton genotypes using PCR-based markers. In Journal of Applied Sciences Research, vol. 3, 2007, no. 10, pp. 1156-1169.
Search in Google Scholar
JACCARD, P. 1908. Nouvelles recherches sur la distribution flora. In Bulletin de la Socíeté Vaudoise des Sciences Naturelles, vol. 44, 1908, pp. 223-270.
Search in Google Scholar
KALIVAS, A. - XANTHOPOULOS, F. - KEHAGIA, O. - TSAFTARIS, A.S. 2011. Agronomic characterization, genetic diversity and association analysis of cotton cultivars using simple sequence repeat molecular markers. In Genetic and Molecular Research, vol. 10, 2011, no. 1, pp. 208-217. DOI 10.4238/vol10-1gmr99810.4238/vol10-1gmr99821341213
Search in Google Scholar
KHALIGHI, M. - ARZANI, A. - POURSIAHBIDI, M.A. 2008. Assessment of genetic diversity in Triticum spp. and Aegilops spp. using AFLP markers. In African Journal of Biotechnology, vol. 7, 2008, no. 5, pp. 546-552. DOI: 10.5897/AJB07.837
Search in Google Scholar
KOHEL, R.J. 1998. Evaluation of near infrared reflectance for oil content of cottonseed. In Journal of Cotton Sciences, vol. 2, 1998, no. 1, pp. 23-26.
Search in Google Scholar
LEWIS, H. 2001. A review of yield and fiber quality trends and components in American upland cotton. In Proceedings of the Beltwide Cotton Conference, January 9-13, Anaheim, CA. National Cotton Council of America, Memphis, TN, USA, pp. 1447-1453.
Search in Google Scholar
LORDELO, M.M. - SHAABAN, S.A. - DALE, N.M. - CALHOUN, M.C. - VENDREL, P.F. - DAVIS, A.J. 2008. Near infrared reflectance spectroscopy for the determination of free gossypol in cottonseed meal. In The Journal of Applied Poultry Research, vol. 17, 2008, no.2, pp. 243-248. DOI: 10.3382/japr.2007-0007810.3382/japr.2007-00078
Search in Google Scholar
MAY, O.L. - BOWMAN, D.T. - CALHOUN, D.S. 1995. Genetic diversity of U.S. Upland cotton cultivars released between 1980 and 1990. In Crop Sciences, vol. 35, 1995, no. 6, pp. 1570-1574. DOI:10.2135/cropsci 1995.0011183X003500060009x
Search in Google Scholar
MEREDITH, W.R. 2000. Cotton yield progress - why has it reached a plateau. In Better Crops, vol. 84, 2000, no. 4, pp. 6-9.
Search in Google Scholar
MUNCK, L. 2009. Breeding for quality traits in cereals: A revised outlook on old and new tools for integrated breeding. In “Cereals” : Handbook of Plant Breeding M.J. Carena (ed.) Springer Publishers, New York. 2009, pp. 333-366.
Search in Google Scholar
POWELL, W. - MORGANTE, M. - ANDRE, C. - HANAFEY, M. - VOGEL, J. - TINGEY, S. - RAFALSKY, A. 1996. The comparison of RFLP, RAPD, AFLP and SSR (microsatellite) markers for germplasm analysis. In Molecular Breeding, vol. 2, 1996, no. 3, pp. 225-238. DOI: 10.1007/BF0056420010.1007/BF00564200
Search in Google Scholar
RANA, M.K. - SINGH, V.P. - BHAT, K.V. 2005. Assessment of genetic diversity in upland cotton (Gossypium hirsutum L.) breeding lines by using amplified fragment length polymorphism (AFLP) markers and morphological characteristics. In Genetic Resources and Crop Evolution, vol. 52, 2005, no. 8, pp. 989-997. DOI: 10.1007/s10722-003-6113-610.1007/s10722-003-6113-6
Search in Google Scholar
SALEH, B. 2012a. Biochemical and genetic variation of some Syrian wheat varieties using NIR, RAPD and AFLPs techniques. In Journal of Plant Biology Research, vol. 1, 2012, no. 1, pp. 1-11.
Search in Google Scholar
SALEH, B. 2012b. Effect of salt stress on growth and chlorophyll content of some cultivated cotton varieties grown in Syria. In Communications in Soil Science and Plant Analysis, vol. 43, 2012, no. 15, pp. 1976-1983.
Search in Google Scholar
SHARAF, A.N. - EL-KADI, D.A. - ALATWANI, H.F. - GAMAL EL-DIN, A.Y. - ABD EL-HADI, A.A. 2009. Genetic studies on some cotton genotypes using DNA molecular markers. In 4th Conference on Recent Technologies in Agriculture, Egypt, 2009, pp. 167-177.
Search in Google Scholar
STATSOFT, 2003. Statistica (Data analysis software system), version 6. Statsoft Inc. www.statsoft.com <http://www.statsoft.com>.
Search in Google Scholar
USDA, 2011. Syria cotton and products annual cotton report, GAIN Report, (www.fas.usda.gov).
Search in Google Scholar
VOS, P. - HOGERS, R. - BLEEKER, M. - REIJANS, M. - VAN-DE LEE, T. - HORNES, M. - FRIJTERS, A. - POT, J. - PELEMAN, J. - KULPER, M. - JABEAU, M. 1995. AFLP: a new technique for DNA fingerprinting. In Nucleic Acid Research, vol. 23, 1995, pp. 4407-4414. DOI:10.1093/nar/23.21.440710.1093/nar/23.21.44073073977501463
Search in Google Scholar
WESLEY, I.J. - BRIAN, G.O. - LARROQUE, O. - BEKES, F. 2008. Measurement of the protein composition of single wheat kernels using near infrared spectroscopy. In Journal of Near Infrared Spectroscopy, vol. 16, 2008, pp. 505-518.
Search in Google Scholar
WILLIAMS, P.C. 2002. “Near infrared spectroscopy of cereals”. In J.M. Chalmers and V.R. Griffiths (Eds.), Handbook of Vibrational Spectroscopy. Wiley, Chichester, vol. 5, 2002, pp. 3693-3719.
Search in Google Scholar
WILSON, L.M. - WHIT, S.R. - IBANEZ, A.M. - ROCHEFORD, T.R. - GOODMAN, M.M. - BUCKLER, E.S.I.V. 2004. Dissection of maize kernel composition and starch production by candidate gene association. In Plant Cell, vol. 16, 2004, no. 10, pp. 2719-2733. DOI:10.1105/tpc.104.02570010.1105/tpc.104.02570052096715377761
Search in Google Scholar

Characterization of some upland cotton varieties using AFLP and NIR techniques

Abstract

Paradigm

My account