Genetic purity analysis of cotton (Gossypium spp.,) hybrids using SSR markers

Seed Science and Technology (Impact Factor: 0.48). 07/2010; 38(2):358-366. DOI: 10.15258/sst.2010.38.2.09


Use of morphological differences, between true hybrids and off types in grow out test (GOT) for genetic purity analysis, are not always apparent and cannot be recognised easily. Further, morphological traits are costly, tedious to score and environment sensitive. Alternatively, it is
suggested that recent breakthrough in molecular markers can be employed in genetic purity analysis. The genetic purity of three cotton hybrids (TCHB 4510, TCHB 2310 and TCHB 213) that are widely cultivated in Tamil Nadu, India were assessed by GOT and molecular markers. A total of 400 individuals
from each one of the three hybrids were raised in the field and morphological traits were recorded. Results of this GOT have shown that TCHB 2310 had lowest genetic purity (62.5%) followed by TCHB 4510 (78.2%) and TCHB 213 (95.2%). Simple sequence repeats (SSR) marker analysis of parents that
were involved in the production of all the three hybrids have shown that 45 out of 150 SSRs were polymorphic among the parents. From this set of polymorphic SSRs, BNL686, BNL1679, BNL3971, BNL3955, CIR407 and CIR413 were selected to test the genetic purity of hybrid seeds since they have produced
clear, scorable and unambiguous polymorphic bands among the parents. All the three hybrids were clearly distinguished from their selfed females and off types using these six SSRs. Hence, it is proposed that these SSR markers can be used in efficient analysis of hybrid seed purity since this
technique is simple to use, more accurate and not affected by environment when compared with GOT.

Download full-text


Available from: Ravikesavan Rajasekaran,
  • Source
    • "They are already a proven tool for hybrid authentication or hybrid purity assessment and parentage confirmation in many crop species (Bohra et al. 2011). Indeed, molecular markers-based hybrid purity tests have been developed and are in routine use in many crop species such as rice (Yashitola et al. 2002; Sundaram et al. 2008), maize (Asif et al. 2006), cotton (Selvakumar et al. 2010) and safflower (Naresh et al. 2009). Similar to food crops, in forest trees also inter-specific hybrids are generated routinely through hybridization and the heterotic individuals are selected for clonal propagation and mass multiplication (Nikles and Griffin 1992; Stanton et al. 2010). "
    [Show abstract] [Hide abstract]
    ABSTRACT: The worldwide expansion of hybrid breeding and clonal forestry is to meet the demands of paper pulp and bioenergy. Although India was one of the pioneers in hybrid production of eucalypts only recently the hybrid clonal forestry is gaining momentum. Inter-specific hybrids are being produced to exploit the hybrid vigor of F1 individuals. Quality control genotyping for hybrid purity and parentage confirmation at the early stage is one of the essential criteria for clonal propagation and field trails for the assessment of growth performance. Eucalyptus being a obligatory outcrossed species with potential to self pollination, possibilities of pollen contamination are high. Hence, in the present study, Eucalyptus camaldulensis × E. tereticornis inter-specific hybrids were genotyped using 25 fluorescent labeled microsatellite markers available in public domain. Multiplex loading of PCR products was performed successfully for most of the microsatellite loci. Hybrid purity index was calculated and parentage was confirmed. Hybrid purity values ranged from 85 to 100 % showed the efficiency of controlled pollination techniques. A subset of six fully informative simple sequence repeats was identified for routine quality control genotyping for these hybrids. Detection of non-essential genotypes observed among the hybrid seedlings proved the significance of hybrid purity tests and the false hybrids were removed at the seedling stage. The hybrids with proven hybridity will be used for generation of genetic linkage, discovery of quantitative trait loci and the individuals with high productivity can enter into mass clonal multiplication.
    08/2013; 4(4):367-373. DOI:10.1007/s13205-013-0161-1
  • [Show abstract] [Hide abstract]
    ABSTRACT: Loose-curd cauliflower is a special style of cauliflower and widely cultivated in southeast China. To ensure the supply of good quality hybrid seeds to the market, a commercially important loose-curd cauliflower cultivar derived from two double haploid (DH) lines was subjected to genetic purity assessment using a grow out test (GOT) and Simple Sequence Repeat (SSR markers). The DNA bulks of female and male parents were detected with 96 pairs of SSR primers and seven pairs exhibited polymorphism. Two primers producing suitable male and female specific markers were chosen for purity testing of the F1-hybrid seeds. The purity level determined by SSR markers was then compared with the GOT performed on the same seed lot. Our study demonstrated that SSR markers were more reliable, accurate and efficient than the commonly used GOT. This is the first report demonstrating the genetic purity testing on hybrids derived from DH lines using molecular markers.
    Seed Science and Technology 07/2012; 40(2). DOI:10.15258/sst.2012.40.2.06 · 0.48 Impact Factor
  • Source
    [Show abstract] [Hide abstract]
    ABSTRACT: Near isogenic lines carrying large-effect QTL (qtl12.1), which has a consistent influence on grain yield under upland drought stress conditions in a wide range of environments, were evaluated under water stress in the fields. The line which gave higher yield under drought was crossed with a local elite line, PMK3, and forwarded to F2:3 generation. Significant variation was found among the F2:3 lines for agronomic traits under water stress in the fields. Low to high broad sense heritability (H) for investigated traits was also found. Water stress indicators such as leaf rolling and leaf drying were negatively correlated with plant height, biomass and grain yield under stress. Bulked segregant analysis (BSA) was performed with the markers in the vicinity of qtl12.1, and RM27933 was found to be segregated perfectly well in individual components of drought resistant and drought susceptible bulks which were bulked based on yield under water stress among F2:3 lines. Hence, this simple and breeder friendly marker, RM27933, may be useful as a potentially valuable candidate marker for the transfer of the QTL qtl12.1 in the regional breeding program. Bioinformatic analysis of the DNA sequence of the qtl12.1 region was also done to identify and analyze positional candidate genes associated with this QTL and to ascertain the putative molecular basis of qtl12.1.
    Rice Science 12/2012; 19(4):1. DOI:10.1016/S1672-6308(13)60104-3
Show more