DEK605 - Plant Editosome Database - BIG Data Center

Summary

Editing Factor: DEK605
Synonym: Defective Kernel605
Description: Mitochondrial transcript analysis of dek605 revealed that loss of DEK605 impaired C-to-U editing at the nad1-608 site and fails to alter Ser203 to Phe203 in NAD1 (dehydrogenase complex I), disrupting complex I assembly and reducing NADH dehydrogenase activity; Meanwhile, complexes III and IV in the cytochrome pathway, as well as AOX2 in the alternative respiratory pathway, are dramatically increased
Protein Family: PPR
Subclass: DYW
Construct Structure: PLS-E1-E2-DYW
Gene ID & Species: GRMZM2G114241 (Zea mays)
Edited Gene(s): nad1
Editing Type(s): C-to-U (3)
Publication(s): [1] Maize Defective Kernel605 Encodes a Canonical DYW-Type PPR Protein that Edits a Conserved Site of nad1 and Is Essential for Seed Nutritional Quality., Plant & cell physiology, 2020. [PMID=32818255]

Editing Details

Species Gene ID Organelle Edited Gene Position Region Editing Type Codon Amino Acid Molecular Effect Experiment Details
Zea mays GRMZM2G114241 Mitochondrion nad1 608 CDS C-to-U UCU=>UUU S=>F Recoding
Experiment Details
Genotype (Ecotype) Allele Treatment Treatment Detail Mutant Type Phenotype Tissue Development Stage Detection Method Editing Frequency Editing Extent Mutant Effect PMID
NAWTWild TypeWild TypeNo mutantNormalSeed12 DAPRT-PCR and chromatograms of cDNA sequencing100.00%CompleteNone32818255
Ye478; Zheng58dek605-dsA spontaneous mutationSequence analysis of the 11 candidate genes revealed a 414-bp Dissociation (Ds) element inserted at 1,011 bp downstream (from start codon) of gene10 (G10: GRMZM2G114241) in dek605-ds.Recessive; HeterozygousAt maturity, dek605-ds seeds were thinner, shrunken and floury compared to corresponding WT, with decreased kernel weight; the 100-seed weight of dek605-ds was reduced by 30% compared to WT. dek605-ds exhibited a retarded embryo development during the whole growth stages observed between 14 to 20 DAP. While embryo structures, such as scutellum (SC), shoot apical meristem (SAM), root apical meristem (RAM) and leaf primordia (LP) were well established in WT, dek605-ds was delayed in development at the differentiation stage of plantule and radical at 14 DAP, longitudinal sections of dek605-ds of embryo and endosperm at 14 DAP showed structurally irregular cells in the basal endosperm transfer layer (BETL), compared to well-developed BETL-cells in WT. In addition, dek605-ds endosperm texture was softer, and starch granules were loosely arranged compared to WT.Seed12 DAPRT-PCR and chromatograms of cDNA sequencing0.00%UneditedAbsent32818255
B73; Chang7-2 (C7-2)dek605-deDeletionSequence analysis of the 0.78-Mb interval (between InDel140 and InDelM3) in dek605-de showed a large deletion from 171.5 Mb to 172.3 Mb (approximately 0.78 Mb), including the candidate gene G10.Recessive; HeterozygousSeeds and seedling development of another allele dek605-de, which is similar to dek605-ds, except that embryo development is less affected and more opaque endosperm compared to WT.Seed12 DAPRT-PCR and chromatograms of cDNA sequencing0.00%UneditedAbsent32818255
Last update: Jul 2021 (version 1.0)