ArticleTAG. Theoretical and applied genetics. Theoretische und angewandte Genetik2005
Nucleotide polymorphism in the Adh2 region of the wild rice Oryza rufipogon.
Article in TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik, 2005. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 3 papers.
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3 citing papers in PubMed, 26 citations in OpenAlex.
- Novel allelic variation in the Phospholipase D alpha1 gene (OsPLDα1) of wild Oryza species implies to its low expression in rice bran.Scientific reports · 2020Article
- Contrasting population genetic structure and gene flow between Oryza rufipogon and Oryza nivara.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2008Article
- The evolution of sex-independent transmission ratio distortion involving multiple allelic interactions at a single locus in rice.Genetics · 2008Article
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2 authors at 2 institutions in 1 country.
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Abstract
DNA variation in the alcohol dehydrogenase (Adh2) region of the wild rice Oryza rufipogon and its related species was analyzed to clarify maintenance mechanisms of the DNA variation in these species. A dimorphic pattern was detected in the Adh2 region of O. rufipogon. The silent nucleotide diversity (pi) in the Adh2 region in O. rufipogon was 0.011, which was higher than that of the Adh1 region in O. rufipogon. Especially, a high nucleotide diversity was detected at synonymous sites of the catalytic domain 1. Average nucleotide diversity at silent sites within each of the dimorphic sequence types of the Adh2 region was similar to that in the Adh1 region, indicating that the high level of silent polymorphism in the Adh2 region was caused by the difference between the dimorphic sequence types. On the other hand, the level of replacement polymorphism in the Adh2 region was as low as that in the Adh1 region. The neutrality test of Fu and Li indicated significantly negative deviation from the neutral mutation model for the replacement sites of the Adh2 region. This result suggests purifying selection on the replacement sites of the Adh2 region, as detected for the Adh1 region. Significant linkage disequilibria (16.4% of the tests) were detected between the Adh1 and Adh2 regions. Even when nonrandom association was tested for the strains belonging to one of the divergent sequence types of the Adh2 region, significant interlocus linkage disequilibria were detected. The close physical distance and/or epistasis between the two Adh regions could be invoked to explain these nonrandom associations.
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