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IDENTIFICATION OF READY TO USE SSR MARKERS FOR BACKGROUND SELECTION OF POPULAR VARIETIES OF RICE (Oryza sativa L.)

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Title IDENTIFICATION OF READY TO USE SSR MARKERS FOR BACKGROUND SELECTION OF POPULAR VARIETIES OF RICE (Oryza sativa L.)
 
Creator SHILPA HANMANTRAO, TARTE
 
Contributor REDDY, V.L.N.
 
Subject rice, genetics, selection, polymorphism, genetic structures, genomes, genes, genotypes, tolerance, dna
 
Description Marker assisted breeding (MAB) involves transfer of a specific allele at the target
locus from a donor source to a recipient line and selection against introduced gene across
the genome of the recipient parent (background selection). In molecular assisted backcross
breeding programme for transfer of a desirable trait to a well adapted high yielding recipient
variety, background selection for the genotype of the recipient parent has to be carried out
using the markers evenly distributed throughout the genome of the recipient parent.
Identification of polymorphic markers for each pair of donor and recipient is indeed a
herculean task for a breeder in MAB. Hence, the present investigation was initiated to
identify the ready to use molecular markers for background selection in MAB of rice. Forty
seven rice genotypes, including 25 popular donor rice varieties, which were exhibiting
important traits such as tolerance to biotic, abiotic stresses and grain quality traits along
with 22 high yielding and popular recipient varieties were screened employing 100 hyper
variable SSR markers distributed evenly on all the 12 rice chromosomes throughout the
genome of particular pair of donor and recipient varieties.
Of 100 SSR loci, 86 were found to be polymorphic, while 14 loci were monomorphic.
Average number of alleles per locus was 3.81, ranging from 2 to 4, with product size
ranging from 110 to 540 bp. A total of 183 alleles were identified from 86 polymorphic
loci. All the 86 markers revealed high level of PIC values the range being from 0.53
(RM17611) to 0.89 (RM15580). The average number of ready to use polymorphic markers
between each pair of donor and recipient line was 63.04. Screening of all 47 donor and
recipient varieties with 86 polymorphic markers resulted in polymorphic markers between
each possible pair of donor and recipient with the range of 11 (TKM6-Saket 4) to 85
(Abhaya-BPT 5204). There existed significant difference in SSR allelic diversity between
three different groups in present study i.e. abiotic stress resistance, biotic stress resistance
and quality. The number of common SSR primers polymoprhic between abiotic stress,
biotic stress and quality group and all recipients were 16, 17 and 20, respectively. First
abiotic group and second biotic group showed notably more number of polymorphic
markers i.e. 7 (RM11313, RM20710, RM12253, RM17405, RM6917, RM22925 and
RM22168), biotic and quality group showed 6 (RM12253, RM23362, RM7051, RM16592,
RM6374 and RM23374) abiotic and quality group showed less number i.e. 3 (RM12253,
RM20429 and RM10615) of polymorphic markers. Primer RM12253 showed
polymorphism for all the three groups. The Nei's genetic diversity index (He) values varied
considerably among the loci from 0.272 at RM20710 to 0.728 at RM12548 with an average
of 0.467.
Cluster analysis grouped the rice genotypes into different classes in which Principal
component analysis was done to visualize genetic relationships among the elite breeding
lines. The results were similar to UPGMA results. Based on this study, 47 genotypes were
grouped into two major clusters with a genetic similarity range of 25% to 91%. The larger
range of similarity values for related cultivars using microsatellites provides greater
confidence for the assessment of genetic diversity and relationships. The information
obtained from the DNA fingerprinting studies helps to distinctly identify and characterize
47 varieties using 100 different RM primers. This information can be used in background
selections during backcross breeding programs.
 
Date 2016-06-23T09:17:30Z
2016-06-23T09:17:30Z
2012
 
Type Thesis
 
Identifier http://krishikosh.egranth.ac.in/handle/1/67768
 
Language en
 
Relation D9137;
 
Format application/pdf
 
Publisher ACHARYA N.G. RANGA AGRICULTURAL UNIVERSITY