Genome-Wide Analysis of Artificial Mutations Induced by Ethyl Methanesulfonate in the Eggplant (Solanum melongena L.)

Genes
Xi-Ou XiaoHuafeng Zou

Abstract

Whole-genome sequences of four EMS (ethyl methanesulfonate)-induced eggplant mutants were analyzed to identify genome-wide mutations. In total, 173.01 GB of paired-end reads were obtained for four EMS-induced mutants and (WT) wild type and 1,076,010 SNPs (single nucleotide polymorphisms) and 183,421 indels were identified. The most common mutation type was C/G to T/A transitions followed by A/T to G/C transitions. The mean densities were one SNP per 1.3 to 2.6 Mb. The effect of mutations on gene function was annotated and only 7.2% were determined to be deleterious. KEGG (Kyoto Encyclopedia of Genes and Genomes) pathway analysis showed 10 and 11 genes, which were nonsynonymous mutation or frameshift deletion in 48-5 and L6-5 involved in the anthocyanin biosynthesis or flavone and flavonol biosynthesis. QRT-PCR results showed that only the Sme2.5_06210.1_g00004.1, which was annotated as UFGT (Flavonoid galactosidase transferase), expression significantly decreased in the L6-5 mutant compared with the WT. Also, the Sme2.5_06210.1_g00004.1 expression was lower in the colorless eggplant compared with colorful eggplant in the natural eggplant cultivar. These results suggest that Sme2.5_06210.1_g00004.1 may play a key role in eggplan...Continue Reading

References

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Dec 31, 2005·Nucleic Acids Research·Minoru KanehisaMika Hirakawa
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Feb 23, 2017·Frontiers in Plant Science·Xinxin WuZhihong Gao

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Citations

Oct 14, 2020·The Plant Journal : for Cell and Molecular Biology·Shan TangLiang Guo
Jun 22, 2021·Frontiers in Plant Science·Huangkai ZhouXianzhong Feng

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Methods Mentioned

BETA
DNA Assay
PCR
genotyping

Software Mentioned

SAMtools
Wheeler Aligner
ANNOVAR
Genome Analysis Tool Kit
MutMap +
Burrows
MutMap

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