scholarly journals Detection of epistatic interactions in association mapping populations: an example from tetraploid potato

Heredity ◽  
2011 ◽  
Vol 107 (6) ◽  
pp. 537-547 ◽  
Author(s):  
B Stich ◽  
C Gebhardt
Keyword(s):  
Association Mapping ◽  
Epistatic Interactions ◽  
Tetraploid Potato ◽  
Mapping Populations

scholarly journals Association Mapping for Improvement of Quantitative Traits in Plant Breeding Populations

1970 ◽  
Vol 2 (1) ◽  
pp. 72-89
Author(s):  
Umesh R Rosyara ◽  
Bal K Joshi
Keyword(s):  
Association Mapping ◽  
Plant Breeding ◽  
Fine Mapping ◽  
Quantitative Trait ◽  
Human Genetics ◽  
Crop Improvement ◽  
Nucleotide Polymorphisms ◽  
Breeding Populations ◽  
Validation Of Results ◽  
Mapping Populations

DNA-based molecular markers have been extensively utilized for mapping of genes and quantitative trait loci (QTL) of interest based on linkage analysis in mapping populations. This is in contrast to human genetics that use of linkage disequilibrium (LD)-based mapping for fine mapping of QTLs using single nucleotide polymorphisms. LD based association mapping (AM) has promise to be used in plants. Possible use of such approach may be for fine mapping of genes / QTLs, identifying favorable alleles for marker aided selection and cross validation of results from linkage mapping for precise location of genes / QTLs of interest. In the present review, we discuss different mapping populations, approaches, prospects and limitations of using association mapping in plant breeding populations. This is expected to create awareness in plant breeders in use of AM in crop improvement activities.Key words: Association mapping; plant breeding; DNA marker; quantitative trait lociDOI: http://dx.doi.org/10.3126/njb.v2i1.5686  Nepal Journal of Biotechnology Jan.2012, Vol.2(1): 72-89

Evaluation of genome-wide selection efficiency in maize nested association mapping populations

2011 ◽  
Vol 124 (2) ◽  
pp. 261-275 ◽  
Author(s):  
Zhigang Guo ◽  
Dominic M. Tucker ◽  
Jianwei Lu ◽  
Venkata Kishore ◽  
Gilles Gay
Keyword(s):  
Association Mapping ◽  
Selection Efficiency ◽  
Nested Association Mapping ◽  
Genome Wide ◽  
Mapping Populations

scholarly journals Numerous genetic loci identified for drought tolerance in the maize nested association mapping populations

BMC Genomics ◽  
2016 ◽  
Vol 17 (1) ◽  
Author(s):  
Chunhui Li ◽  
Baocheng Sun ◽  
Yongxiang Li ◽  
Cheng Liu ◽  
Xun Wu ◽  
...  
Keyword(s):  
Drought Tolerance ◽  
Association Mapping ◽  
Genetic Loci ◽  
Nested Association Mapping ◽  
Mapping Populations

scholarly journals Allelic variation for alpha-Glucan Water Dikinase is associated with starch phosphate content in tetraploid potato

2022 ◽  
Author(s):  
J. G. A. M. L. Uitdewilligen ◽  
A. M. A. Wolters ◽  
H. J. van Eck ◽  
R. G. F. Visser
Keyword(s):  
Association Analysis ◽  
Allelic Variation ◽  
Potato Starch ◽  
Amplicon Sequencing ◽  
Pedigree Analysis ◽  
Phosphate Ester ◽  
Phosphate Content ◽  
Tetraploid Potato ◽  
Potato Germplasm ◽  
Mapping Populations

Abstract Key message Association analysis resulted in the identification of specific StGWD alleles causing either an increase or decrease in starch phosphate content which was verified in diploid and tetraploid potato mapping populations. Abstract Potatoes are grown for various purposes like French fries, table potatoes, crisps and for their starch. One of the most important aspects of potato starch is that it contains a high amount of phosphate ester groups which are considered to be important for providing improved functionalization after derivatization processes. Little is known about the variation in phosphate content as such in different potato varieties and thus we studied the genetic diversity for this trait. From other studies it was clear that the phosphate content is controlled by a quantitative trait locus (QTL) underlying the candidate gene α-Glucan Water Dikinase (StGWD) on chromosome 5. We performed direct amplicon sequencing of this gene by Sanger sequencing. Sequences of two StGWD amplicons from a global collection of 398 commercial cultivars and progenitor lines were used to identify 16 different haplotypes. By assigning tag SNPs to these haplotypes, each of the four alleles present in a cultivar could be deduced and linked to a phosphate content. A high value for intra-individual heterozygosity was observed (Ho = 0.765). The average number of different haplotypes per individual (Ai) was 3.1. Pedigree analysis confirmed that the haplotypes are identical-by-descent (IBD) and offered insight in the breeding history of elite potato germplasm. Haplotypes originating from introgression of wild potato accessions carrying resistance genes could be traced. Furthermore, association analysis resulted in the identification of specific StGWD alleles causing either an increase or decrease in starch phosphate content varying from 12 nmol PO4/mg starch to 38 nmol PO4/mg starch. These allele effects were verified in diploid and tetraploid mapping populations and offer possibilities to breed and select for this trait.

scholarly journals Genetic architecture of variation in sex-comb tooth number in Drosophila simulans

2006 ◽  
Vol 87 (2) ◽  
pp. 93-107 ◽  
Author(s):  
HARUKI TATSUTA ◽  
TOSHIYUKI TAKANO-SHIMIZU
Keyword(s):  
Interspecific Variation ◽  
Drosophila Simulans ◽  
Epistatic Interactions ◽  
The Third ◽  
Sex Comb ◽  
Tooth Number ◽  
Comb Tooth ◽  
Trait Locus ◽  
The Relationship ◽  
Mapping Populations

The sex comb on the forelegs of Drosophila males is a secondary sexual trait, and the number of teeth on these combs varies greatly within and between species. To understand the relationship between the intra- and interspecific variation, we performed quantitative trait locus (QTL) analyses of the intraspecific variation in sex-comb tooth number. We used five mapping populations derived from two inbred Drosophila simulans strains that were divergent in the number of sex-comb teeth. Although no QTLs were detected on the X chromosome, we identified four QTLs on the second chromosome and three QTLs on the third chromosome. While identification and estimated effects of the second-chromosome QTLs depend on genetic backgrounds, significant and consistent effects of the two third-chromosome QTLs were found in two genetic backgrounds. There were significant epistatic interactions between a second-chromosome QTL and a third-chromosome QTL, as well as between two second-chromosome QTLs. The third-chromosome QTLs are concordant with the locations of the QTLs responsible for the previously observed differences in sex-comb tooth number between D. simulans and D. mauritiana.

scholarly journals Linkage Disequilibrium and Evaluation of Genome-Wide Association Mapping Models in Tetraploid Potato

2018 ◽  
Vol 8 (10) ◽  
pp. 3185-3202 ◽  
Author(s):  
Sanjeev Kumar Sharma ◽  
Katrin MacKenzie ◽  
Karen McLean ◽  
Finlay Dale ◽  
Steve Daniels ◽  
...  
Keyword(s):  
Linkage Disequilibrium ◽  
Association Mapping ◽  
Genome Wide Association ◽  
Tetraploid Potato ◽  
Genome Wide ◽  
Mapping Models
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