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Research paper | Open Access

Genetic diversity and DNA fingerprinting in jute (Corchorus spp.) based on SSR markers

Liwu Zhang( ), Rongrong Cai, Minhang Yuan, Aifen Tao, Jiantang Xu, Lihui Lin, Pingping Fang, Jianmin Qi( )
College of Crop Science, Fujian Agriculture and Forestry University/Key Laboratory of Ministry of Education for Genetics, Breeding and Multiple Utilization of Crops/Fujian Provincial Key Laboratory of Crop Breeding by Design, Fuzhou 350002, China

Peer review under responsibility of Crop Science Society of China and Institute of Crop Science, CAAS.

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Abstract

Genetic diversity analysis and DNA finger printing are very useful in breeding programs, seed conservation and management. Jute (Corchorus spp.) is the second most important natural fiber crop after cotton. DNA fingerprinting studies in jute using SSR markers are limited. In this study, 58 jute accessions, including two control varieties (Huangma 179 and Kuanyechangguo) from the official variety registry in China were evaluated with 28 pairs of SSR primers. A total of 184 polymorphic loci were identified. Each primer detected 3 to 15 polymorphic loci, with an average of 6.6. The 58 jute accessions were DNA-fingerprinted with 67 SSR markers from the 28 primer pairs. These markers differentiated the 58 jute accessions from one another, with CoSSR305-120 and CoSSR174-195 differentiating Huangma 179 and Kuanyechangguo, respectively. NTSYS-pc2.10 software was used to analyze the genetic diversity in the 58 jute accessions. Their genetic similarity coefficients ranged from 0.520 to 0.910 with an average of 0.749, indicating relatively great genetic diversity among them. The 58 jute accessions were divided into four groups with the coefficient 0.710 used as a value for classification, consistent with their species and pedigrees. All these results may be useful both for protection of intellectual property rights of jute accessions and for jute improvement.

Keywords

Genetic diversityJuteCorchorusSimple sequence repeatsDNA fingerprinting

References

[1]

H.P. Xiong, Breeding Sciences of Bast and Leaf Fiber Crops,First ed. China Agriculture Science and Technology Press,Beijing, 2008.
[2]

R.R. Mir, S. Rustgi, S. Sharma, R. Singh, A. Goyal, J. Kumar, A. Gaur, A.K. Tyagi, H. Khan, M.K. Sinha, H.S. Balyan, P. Gupta, A preliminary genetic analysis of fiber traits and the use of new genomic SSRs for genetic diversity in jute, Euphytica 161 (2008) 413–427.
Crossref Google Scholar
[3]

L. Zhang, M. Yuan, X. He, X. Liu, P. Fang, L. Lin, A. Tao, J. Xu, J. Qi, Development and universality evaluation of EST-SSR markers from GenBank in jute, Acta Agron. Sin. 40 (2014) 1028–1034 (in Chinese with English abstract).
Crossref Google Scholar
[4]

S. Banerjee, M. Das, R.R. Mir, A. Kundu, N. Topdar, D. Sarkar, M.K. Sinha, H.S. Balyan, P.K. Gupta, Assessment of genetic diversity and population structure in a selected germplasm collection of 292 jute genotypes by microsatellite (SSR) markers, Mol. Plant Breed. 3 (2012) 11–25.
Crossref Google Scholar
[5]

R.K. Ghosh, A. Wongkaew, T. Sreewongchai, S. Nakasathien, C. Phumichai, Assessment of genetic diversity and population structure in jute (Corchorus spp.) using simple sequence repeat (SSR) and amplified fragment length polymorphism (AFLP) markers, Kasetsart J. (Nat. Sci.) 48 (2014) 83–94.
Google Scholar
[6]

S. Huq, M.S. Islam, A.A. Sajib, N. Ashraf, S. Haque, H. Khan, Genetic diversity and relationships in jute (Corchorus spp.) revealed by SSR markers, Bangladesh J. Bot. 38 (2009) 153–161.
Crossref Google Scholar
[7]

A. Kundu, N. Topdar, D. Sarkar, M.K. Sinha, A. Ghosh, S. Banerjee, M. Das, H.S. Balyan, B.S. Mahapatra, P.K. Gupta, Origins of white (Corchorus capsularis L.) and dark (C. olitorius L.) jute: a reevaluation based on nuclear and chloroplast microsatellites, J. Plant Biochem. Biotechnol. 22 (2013) 372–381.
Crossref Google Scholar
[8]

R.R. Mir, S. Banerjee, M. Das, V. Gupta, A.K. Tyagi, M.K. Sinha, H.S. Balyan, P.K. Gupta, Development and characterization of large-scale simple sequence repeats in jute, Crop Sci. 49 (2009) 1687–1694.
Crossref Google Scholar
[9]

G. Wu, X. Xu, J. Xu, A. Tao, L. Zhang, L. Wei, M. Pan, P. Fang, L. Lin, J. Qi, Construction of molecular fingerprinting map in gene pool of jute with SRAP, ISSR and SSR markers, Acta Agron. Sin. 41 (2015) 367–377 (in Chinese with English abstract).
Crossref Google Scholar
[10]

M.K. Rana, K. Arora, S. Singh, A.K. Singh, Multi-locus DNA fingerprinting and genetic diversity in jute (Corchorus spp.) based on sequence-related amplified polymorphism, J. Plant Biochem. Biotechnol. 22 (2012) 1–8.
Crossref Google Scholar
[11]

M. Saghai-Maroof, K. Soliman, R.A. Jorgensen, R. Allard, Ribosomal DNA spacer-length polymorphisms in barley: Mendelian inheritance, chromosomal location, and population dynamics, Proc. Natl. Acad. Sci. U. S. A. 81 (1984) 8014–8018.
Crossref Google Scholar
[12]

K. Liu, S. Muse, PowerMarker: an integrated analysis environment for genetic marker analysis, Bioinformatics 21 (2005) 2128–2129.
Crossref Google Scholar
[13]
F.J. Rohlf, NTSYS-pc. Numerical taxonomy and multivariateanalysis system, version 2.10, Exeter Software, New York, 2002.
[14]

M. Das, S. Banerjee, R. Dhariwal, S. Vyas, R. Mir, N. Topdar, A. Kundu, J.P. Khurana, A. Tyagi, D. Sarkar, M. Sinha, H. Balyan, P. Gupta, Development of SSR markers and construction of a linkage map in jute, J. Genet. 91 (2012) 21–31.
Crossref Google Scholar
[15]

R. Jördens, Progress of plant variety protection based on the International Convention for the Protection of New Varieties of Plants (UPOV Convention), World Patent Inf. 27 (2005) 232–243.
Crossref Google Scholar
[16]

I. Bancroft, C. Morgan, F. Fraser, J. Higgins, R. Wells, L. Clissold, D. Baker, Y. Long, J. Meng, X. Wang, S. Liu, M. Trick, Dissecting the genome of the polyploid crop oilseed rape by transcriptome sequencing, Nat. Biotechnol. 29 (2011) 762–766.
Crossref Google Scholar
[17]

D.Q. Liu, X.P. Guo, Z.X. Lin, Y.C. Nie, X.L. Zhang, Genetic diversity of Asian cotton in China evaluated by microsatellite analysis, Genet. Resour. Crop. Evol. 53 (2006) 1145–1152.
Crossref Google Scholar
[18]

Y.L. Gao, R.S. Hu, C.Y. Liu, W.F. Li, H.W. Jiang, C.D. Li, B.C. Yao, G.H. Hu, Q.S. Chen, Establishment of molecular ID in soybean varieties in Heilongjiang, China, Acta Agron. Sin. 35 (2009) 211–218 (in Chinese with English abstract).
Crossref Google Scholar
[19]

A. Basu, M. Ghosh, R. Meyer, W. Powell, S.L. Basak, Analysis of genetic diversity in cultivated jute determined by means of SSR markers and AFLP profiling, Crop Sci. 44 (2004) 678–685.
Crossref Google Scholar
[20]

A. Roy, A. Bandyopadhyay, A.K. Mahaptra, S.K. Ghosh, N.K. Singh, K.C. Bansal, K.R. Koundal, T. Mohapatra, Evaluation of genetic diversity in jute (Corchorous species) using STMS, ISSR and RAPD markers, Plant Breed. 125 (2006) 292–297.
Crossref Google Scholar
[21]

J. Akter, M.S. Islam, A.A. Sajib, N. Ashraf, S. Haque, H. Khan, Microsatellite markers for determining genetic identities and genetic diversity among jute cultivars, Aust. J. Crop. Sci. 1 (2008) 97–107.
Google Scholar
[22]

G.I. Patel, R.M. Datta, Interspecific hybridization between Corchorus olitorius and C. capsularis and the cytogenetical basis of incompatibility between them, Euphytica 9 (1960) 89–110.
Crossref Google Scholar
The Crop Journal
Volume 3 Issue 5,
October 2015
Pages 416-422
DOI: 10.1016/j.cj.2015.05.005
Cite this article:
Zhang L, Cai R, Yuan M, et al. Genetic diversity and DNA fingerprinting in jute (Corchorus spp.) based on SSR markers. The Crop Journal, 2015, 3(5): 416-422. https://doi.org/10.1016/j.cj.2015.05.005

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Received: 09 February 2015
Revised: 17 May 2015
Accepted: 23 June 2015
Published: 02 July 2015
© 2015 Crop Science Society of China and Institute of Crop Science, CAAS.

This is an open access article under the CC BY-NC-ND license (http://creativecommons.org/licenses/by-nc-nd/4.0/).
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