Resequencing Reveals Different Domestication Rate for BADH1 and BADH2 in Rice (Oryza sativa)

BADH1 and BADH2 are two homologous genes, encoding betaine aldehyde dehydrogenase in rice. In the present study, we scanned BADHs sequences of 295 rice cultivars, and 10 wild rice accessions to determine the polymorphisms, gene functions and domestication of these two genes. A total of 16 alleles fo...

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Bibliographic Details
Published in:PloS one 2015-08, Vol.10 (8), p.e0134801-e0134801
Main Authors: He, Qiang, Yu, Jie, Kim, Tae-Sung, Cho, Yoo-Hyun, Lee, Young-Sang, Park, Yong-Jin
Format: Article
Language:English
Subjects:
Abiotic stress
Aldehyde dehydrogenase
Alleles
Aroma
Betaine
Betaine-Aldehyde Dehydrogenase - genetics
Bioinformatics
Breeding
Correlation analysis
Cultivars
Dehydrogenases
Domestication
Evolution, Molecular
Exons
Flowers & plants
Gene deletion
Genes
Genes, Plant
Genetic polymorphisms
Genomes
Genotype
Germination
Germplasm
Haplotypes
Heuristic
Homology
Homozygosity
Homozygote
Linkage Disequilibrium
Mutation
Oryza - enzymology
Oryza - genetics
Oryza glaberrima
Oryza sativa
Phenotype
Plant Proteins - genetics
Polymorphism, Genetic
Rice
Salt
Salt tolerance
Science
Seeds
Sequence Analysis, DNA
Single-nucleotide polymorphism
Sorghum
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Summary:BADH1 and BADH2 are two homologous genes, encoding betaine aldehyde dehydrogenase in rice. In the present study, we scanned BADHs sequences of 295 rice cultivars, and 10 wild rice accessions to determine the polymorphisms, gene functions and domestication of these two genes. A total of 16 alleles for BADH1 and 10 alleles for BADH2 were detected in transcribed region of cultivars and wild species. Association study showed that BADH1 has significant correlation with salt tolerance in rice during germination stage, the SNP (T/A) in exon 4 is highly correlated with salt tolerance index (STI) (P
ISSN:1932-6203
1932-6203
DOI:10.1371/journal.pone.0134801