Intragenic recombination between two non-functional semi-dwarf 1 alleles produced a functional SD1 allele in a tall recombinant inbred line in rice

Intragenic recombination is one of the most important sources of genetic variability. In our previous study, RI92 a tall line (160 cm of plant height) was observed in the cross progeny between two semi-dwarf indica cultivars Zhenshan 97 and Minghui 63. Genome-wide genotyping and sequencing indicated...

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Bibliographic Details
Published in:PloS one 2017-12, Vol.12 (12), p.e0190116-e0190116
Main Authors: Wu, Bi, Hu, Wei, Ayaad, Mohammed, Liu, Hongbo, Xing, Yongzhong
Format: Article
Language:English
Subjects:
Agricultural production
Alleles
Analysis
Arabidopsis
Biology and Life Sciences
Constitution
Corn
Cultivars
Domestication
Gene loci
Gene sequencing
Genetic aspects
Genetic crosses
Genetic engineering
Genetic recombination
Genetic variability
Genomes
Genotyping
Green Revolution
Height
Inbreeding
Laboratories
Mutation
Offspring
Oryza
Oryza sativa indica
Parents
Physiological aspects
Population
Progeny
Recombination
Recombination hot spots
Research and Analysis Methods
Rice
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Summary:Intragenic recombination is one of the most important sources of genetic variability. In our previous study, RI92 a tall line (160 cm of plant height) was observed in the cross progeny between two semi-dwarf indica cultivars Zhenshan 97 and Minghui 63. Genome-wide genotyping and sequencing indicated that the genome constitution of RI92 was completely from both parents. Bulk segregant analysis in a BC3F2 population revealed that "green revolution gene" semi-dwarf 1 (sd1) was most likely the gene controlling the tall plant height in RI92. Sequencing analysis of SD1 revealed that an intragenic recombination occurred between two parental non-functional sd1 alleles and generated a functional SD1 in RI92. Four-fold high recombination rate in SD1 located bins to the genome-wide average was observed in two RIL populations, indicating recombination hotspot in the SD1 region. Intragenic recombination creates new alleles in the progeny distinct from parental alleles and diversifies natural variation.
ISSN:1932-6203
1932-6203
DOI:10.1371/journal.pone.0190116