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Determination of genetic
variability of Asian rice (Oryza sativa L.) varieties
using microsatellite markers
Zahida H. Pervaiz1*,
Malik A. Rabbani2, Stephen R. Pearce3
and Salman A. Malik1
1Department
of Biochemistry, Quaid-i-Azam University,
Islamabad, Pakistan.
2Institute
of Agri-Biotechnology and Genetic Resources, National
Agricultural Research Center, Park Road, Islamabad,
Pakistan.
3School
of life sciences, University of Sussex, Brighton, UK.
*Corresponding author.
E-mail:
zahidahasan82pk@hotmail.com.
Abbreviations:
AREF,
Agricultural Research Endowment Fund; SSR, simple
sequence repeats.
Accepted 31 August, 2009 |
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The microsatellite or simple sequence repeat (SSR) marker
analysis was done to determine the allelic diversity and
relationship among thirty-five Asian cultivars of rice
including 19 aromatic, 13 non-aromatic and 3 japonica type
cultivars. A total of 144 alleles were detected at the 32
SSR loci,
of which 141 (98%) were polymorphic. The number
of alleles generated by each marker ranged from 2 to 13 with
an average of 4.5 alleles per marker.
The size of smallest and largest allele ranged from 8
(RM122) to as high as 71 (RM302). Polymorphism information
content (PIC) values ranged between 0.157 (RM19, RM55) and
0.897 (RM70), with an average of 0.603 per marker. Basmati
rice varieties amplified different alleles at 15 of the SSR
loci than those in the japonica and/ or
indica rice varieties. A number of SSRs were identified
that could be utilized to differentiate between basmati and
other non-basmati rice varieties. The RM252 and RM310 showed
a clear differentiation of japonica cultivars from
other ones.
Pair-wise Nei and Li’s similarity coefficients ranged from
0.19 to 0.90.
The dendrogram based on the cluster analysis by
microsatellite polymorphism, grouped 35 rice cultivars into
two major groups effectively differentiating the tall, late
maturing and slender aromatic cultivars from the short
statured, early, short bold and long bold non-aromatic
cultivars. These results could be useful
for monitoring purity, genotype identification and for plant
variety protection.
Key
words:
Genetic diversity, Oryza sativa, Asian rice,
microsatellites. |
