Comparative evaluation of within-cultivar variation of rice (Oryza sativa L.) using microsatellite and RFLP markers

Genome ◽  
1997 ◽  
Vol 40 (3) ◽  
pp. 370-378 ◽  
Author(s):  
Johnson O. Olufowote ◽  
Yunbi Xu ◽  
Xiuli Chen ◽  
Mak Goto ◽  
Susan R. McCouch ◽  
...  
Keyword(s):  
Microsatellite Markers ◽  
Length Polymorphism ◽  
Oryza Sativa L ◽  
Simple Sequence Length Polymorphism ◽  
Sequence Length ◽  
Rflp Markers ◽  
Rice Varieties ◽  
Germplasm Collections ◽  
Cultivar Variation ◽  
Simple Sequence

The objective of this study was to determine an efficient way of detecting within-cultivar variation in rice varieties obtained from national and international germplasm collections. Seventy-one rice cultivars were evaluated for within-cultivar variation using a combination of phenotypic, RFLP, and microsatellite or simple sequence length polymorphism (SSLP). Variation between individuals within an accession and between duplicate accessions within a cultivar was detected even in cultivars that had been purified by phenotypic evaluation. Landrace cultivars were more heterogeneous and displayed a larger number of both RFLP and SSLP alleles than did modern cultivars. Microsatellite markers detected a greater number of alleles and were able to discriminate between even closely related individuals more efficiently than RFLPs. Some microsatellite markers were more informative than others for assessing genetic diversity. Single markers revealed 5.6–61.1% of the total variation detected by the 10 SSLP markers. Some marker combinations were complementary, providing more information than others. Several combinations of 4 SSLP markers detected as much as 94% of the total within-cultivar variation detected by the 10 SSLP markers. These results suggest that the use of four well-chosen microsatellites would be an efficient method for evaluating the heterogeneity of rice accessions.Key words: genetic variation, RFLP, microsatellite markers, simple sequence length polymorphism, SSLP, rice.

scholarly journals Validation of Simple Sequence Length Polymorphism Regions of Commonly Used Mouse Strains for Marker Assisted Speed Congenics Screening

2015 ◽  
Vol 2015 ◽  
pp. 1-17 ◽  
Author(s):  
Channabasavaiah B. Gurumurthy ◽  
Poonam S. Joshi ◽  
Scott G. Kurz ◽  
Masato Ohtsuka ◽  
Rolen M. Quadros ◽  
...  
Keyword(s):  
Length Polymorphism ◽  
Snp Array ◽  
Genetically Engineered ◽  
Simple Sequence Length Polymorphism ◽  
Sequence Length ◽  
Mouse Strains ◽  
Nucleotide Polymorphism ◽  
Single Nucleotide ◽  
Sophisticated Equipment ◽  
Simple Sequence

Marker assisted speed congenics technique is commonly used to facilitate backcrossing of mouse strains in nearly half the time it normally takes otherwise. Traditionally, the technique is performed by analyzing PCR amplified regions of simple sequence length polymorphism (SSLP) markers between the recipient and donor strains: offspring with the highest number of markers showing the recipient genome across all chromosomes is chosen for the next generation. Although there are well-defined panels of SSLP makers established between certain pairs of mice strains, they are incomplete for most strains. The availability of well-established marker sets for speed congenic screens would enable the scientific community to transfer mutations across strain backgrounds. In this study, we tested the suitability of over 400 SSLP marker sets among 10 mouse strains commonly used for generating genetically engineered models. The panel of markers presented here can readily identify the specified strains and will be quite useful in marker assisted speed congenic screens. Moreover, unlike newer single nucleotide polymorphism (SNP) array methods which require sophisticated equipment, the SSLP markers panel described here only uses PCR and agarose gel electrophoresis of amplified products; therefore it can be performed in most research laboratories.

Sign in / Sign up

Export Citation Format

Share Document