Characterization and detection of epistatic interactions of 3 QTLs, Hd1, Hd2, and Hd3, controlling heading date in rice using nearly isogenic lines

2000 ◽  
Vol 101 (7) ◽  
pp. 1021-1028 ◽  
Author(s):  
H. X. Lin ◽  
T. Yamamoto ◽  
T. Sasaki ◽  
M. Yano
Keyword(s):  
Heading Date ◽  
Epistatic Interactions ◽  
Isogenic Lines ◽  
Nearly Isogenic Lines

scholarly journals Minor-effect QTL for heading date detected in crosses between indica rice cultivar Teqing and near isogenic lines of IR24

2018 ◽  
Vol 6 (3) ◽  
pp. 291-298 ◽  
Author(s):  
Zhichao Sun ◽  
Yujun Zhu ◽  
Junyu Chen ◽  
Hui Zhang ◽  
Zhenhua Zhang ◽  
...  
Keyword(s):  
Indica Rice ◽  
Heading Date ◽  
Rice Cultivar ◽  
Minor Effect ◽  
Near Isogenic Lines ◽  
Isogenic Lines ◽  
Indica Rice Cultivar

scholarly journals Genome-wide association study of flowering time reveals complex genetic heterogeneity and epistatic interactions in rice

2020 ◽  
Author(s):  
Chang Liu ◽  
Yuan Tu ◽  
Shiyu Liao ◽  
Xiangkui Fu ◽  
Xingming Lian ◽  
...  
Keyword(s):  
Association Study ◽  
Flowering Time ◽  
Genetic Heterogeneity ◽  
Mixed Models ◽  
Genome Wide Association Study ◽  
Heading Date ◽  
Genome Wide Association ◽  
Epistatic Interactions ◽  
Genome Wide ◽  
Wide Range

AbstractSince domestication, rice has cultivated in a wide range of latitudes with different day lengths. Selection of diverse natural variations in heading date and photoperiod sensitivity is critical for adaptation of rice to different geographical environments. To unravel the genetic architecture underlying natural variation of rice flowering time, we conducted a genome wide association study (GWAS) using several association analysis strategies with a diverse worldwide collection of 529 O. sativa accessions. Heading date was investigated in three environments under long-day or short-day conditions, and photosensitivity was evaluated. By dividing the whole association panel into subpopulations and performing GWAS with both linear mixed models and multi-locus mixed-models, we revealed hundreds of significant loci harboring novel candidate genes as well as most of the known flowering time genes. In total, 127 hotspots were detected in at least two GWAS. Universal genetic heterogeneity was found across subpopulations. We further detected abundant interactions between GWAS loci, especially in indica. Functional gene families were revealed from enrichment analysis of the 127 hotspots. The results demonstrated a rich of genetic interactions in rice flowering time genes and such epistatic interactions contributed to the large portions of missing heritability in GWAS. It suggests the increased complexity of genetic heterogeneity might discount the power of increasing the sample sizes in GWAS.

scholarly journals Detection of epistatic interaction of two QTLs, gw8.1 and gw9.1, underlying grain weight using nearly isogenic lines in rice

2011 ◽  
Vol 61 (1) ◽  
pp. 69-75 ◽  
Author(s):  
Feng-Xue Jin ◽  
Shi-Dong Ji ◽  
Xiao-Bo Xie ◽  
Ju-Won Kang ◽  
Hong-Guang Ju ◽  
...  
Keyword(s):  
Epistatic Interaction ◽  
Grain Weight ◽  
Isogenic Lines ◽  
Nearly Isogenic Lines

Identification of quantitative trait loci and epistatic interactions for plant height and heading date in rice

2002 ◽  
Vol 104 (4) ◽  
pp. 619-625 ◽  
Author(s):  
S. B. Yu ◽  
J. X. Li ◽  
C. G. Xu ◽  
Y. F. Tan ◽  
X. H. Li ◽  
...  
Keyword(s):  
Quantitative Trait Loci ◽  
Plant Height ◽  
Quantitative Trait ◽  
Heading Date ◽  
Epistatic Interactions ◽  
Trait Loci

scholarly journals Use of isogenic lines and simultaneous probing to identify DNA markers tightly linked to the tm-2a gene in tomato.

Genetics ◽  
1988 ◽  
Vol 120 (2) ◽  
pp. 579-585
Author(s):  
N D Young ◽  
D Zamir ◽  
M W Ganal ◽  
S D Tanksley
Keyword(s):  
Viral Pathogen ◽  
Genomic Clones ◽  
Isogenic Lines ◽  
Hybridization Probes ◽  
Length Polymorphisms ◽  
Short Period ◽  
Its Gene ◽  
Tight Linkage ◽  
Plant Genes ◽  
Nearly Isogenic Lines

Abstract The Tm-2a gene of tomato confers resistance to the viral pathogen, tobacco mosaic virus. Like many economically important plant genes, Tm-2a has been characterized phenotypically and by classical linkage analysis, yet nothing is known about its gene product. We report here the isolation of two DNA clones which are very tightly linked to the Tm-2a gene. These clones were identified by testing 122 genomic clones as hybridization probes against Southern blots consisting of DNA from pairs of nearly isogenic lines with or without the Tm-2a gene. Screening such a large number of clones in a short period of time was facilitated by co-labeling and simultaneous probing of sets of up to 10 random genomic clones. Tightly linked clones were distinguished by the fact that they exhibited one or more restriction fragment length polymorphisms between the nearly isogenic lines. Tight linkage of the clones with Tm-2a was verified in a segregating F(2) population. Both mapped to the same locus 0.4 +/- 0.4 centimorgans away from Tm-2a and may provide starting points for a genomic ;;walk'' to this gene. Due to the availability of isogenic lines in many plant species, the strategy outlined in this paper should be widely applicable for selecting DNA clones tightly linked to genes of interest.

A CHROMOSOMAL ANALYSIS OF EGG PRODUCTION AND ABDOMINAL CHAETA NUMBER IN DROSOPHILA MELANOGASTER

1969 ◽  
Vol 11 (3) ◽  
pp. 547-557 ◽  
Author(s):  
J. F. Kidwell
Keyword(s):  
Drosophila Melanogaster ◽  
Egg Production ◽  
Directional Selection ◽  
Chromosomal Analysis ◽  
Stabilizing Selection ◽  
Additive Effects ◽  
Epistatic Interactions ◽  
Isogenic Lines ◽  
Metric Traits

A marked-inversion-outcross technique was used to produce the 81 possible combinations of entire chromosomes (genotypes) resulting from crosses of two isogenic lines. Two metric traits, egg production during the 6th, 7th and 8th day and the number of chaeta on the fourth and fifth abdominal segments, were measured. Heterogeneity of within-genotype variance was found for both traits. There is some evidence of increasing variance with increasing homozygosity, bur it is not conclusive.Egg production is influenced largely by additive and dominance effects of chromosomes 2 and 3 and by epistatic interactions involving all four chromosomes. Chaeta number is determined largely by chromosomes with additive effects. For both traits, however, the three- and four-factor epistatic interactions contributed a real and important fraction of the total variance.The data are consistent with the view that egg production has been subjected to directional selection and that chaeta number has been subjected to stabilizing selection.

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