DEK46 performs C‐to‐U editing of a specific site in mitochondrial <i>nad7</i> introns that is critical for intron splicing and seed development in maize

Xu, Chunhui; Song, Shu; Yang, Yan‐Zhuo; Lü, Fan; Zhang, Meng-Di; Sun, Feng; Jia, Ruxue; Song, Ruolin; Tan, Bin

doi:10.1111/tpj.14862

Cited by 24 publications

(21 citation statements)

References 97 publications

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“…One possible advantage of RNA editing is to provide an additional regulatory mechanism to organelle physiology. RNA editing was shown to play important roles in organellar tRNA maturation [ 31 ] and intron splicing [ 18 , 19 ]. Several hundreds of RNA editing sites on mitochondrial transcripts and differential RNA editing were observed in our previous study on A. thaliana [ 15 ].…”

Section: Discussionmentioning

confidence: 99%

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Differential RNA Editing and Intron Splicing in Soybean Mitochondria during Nodulation

Sun

Xie

Zhou

et al. 2020

IJMS

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Nitrogen fixation in soybean consumes a tremendous amount of energy, leading to substantial differences in energy metabolism and mitochondrial activities between nodules and uninoculated roots. While C-to-U RNA editing and intron splicing of mitochondrial transcripts are common in plant species, their roles in relation to nodule functions are still elusive. In this study, we performed RNA-seq to compare transcript profiles and RNA editing of mitochondrial genes in soybean nodules and roots. A total of 631 RNA editing sites were identified on mitochondrial transcripts, with 12% or 74 sites differentially edited among the transcripts isolated from nodules, stripped roots, and uninoculated roots. Eight out of these 74 differentially edited sites are located on the matR transcript, of which the degrees of RNA editing were the highest in the nodule sample. The degree of mitochondrial intron splicing was also examined. The splicing efficiencies of several introns in nodules and stripped roots were higher than in uninoculated roots. These include nad1 introns 2/3/4, nad4 intron 3, nad5 introns 2/3, cox2 intron 1, and ccmFc intron 1. A greater splicing efficiency of nad4 intron 1, a higher NAD4 protein abundance, and a reduction in supercomplex I + III2 were also observed in nodules, although the causal relationship between these observations requires further investigation.

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Section: Discussionmentioning

confidence: 99%

“…RNA editing has been shown to be crucial for nad1 splicing in Oenothera [ 18 ] and nad7 splicing in maize [ 19 ]. The genomes of plant mitochondria house about 20 group-II introns and their splicing requires maturases [ 20 , 21 , 22 ].…”

Section: Introductionmentioning

confidence: 99%

Differential RNA Editing and Intron Splicing in Soybean Mitochondria during Nodulation

Sun

Xie

Zhou

et al. 2020

IJMS

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“…The RNA editing percentage of nad1 transcripts was not affected, and among the nad4 transcripts, only nad4-77 transcripts decreased. Moreover, it has been reported that intron splicing can be mediated by RNA editing events in which the key sites of introns are edited [54][55][56]. The editing e ciency of two RNA editing sites (147 and 409) on nad4 intron 1 increased in dek55 (Additional le 2: Table S1), which might have resulted from the reduction in the splicing e ciency of nad4 intron 1.…”

Section: Dek55 Is Required For Maize Kernel Developmentmentioning

confidence: 99%

The novel E-subgroup pentatricopeptide repeat protein DEK55 is responsible for RNA editing at multiple sites and for the splicing of nad1 and nad4 in maize

Ren

Zhao

et al. 2020

Preprint

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Background: Pentatricopeptide repeat (PPR) proteins compose a large protein family whose members are involved in both RNA processing in organelles and plant growth. Previous reports have shown that E-subgroup PPR proteins are involved in RNA editing. However, the additional functions and roles of the E-subgroup PPR proteins are unknown. Results: In this study, we developed and identified a new maize kernel mutant with arrested embryo and endosperm development, i.e., defective kernel (dek) 55 (dek55). Genetic and molecular evidence suggested that the defective kernels resulted from a mononucleotide alteration (C to T) at +449 bp within the open reading frame (ORF) of Zm00001d014471 (hereafter referred to as DEK55). DEK55 encodes an E-subgroup PPR protein within the mitochondria. Molecular analyses showed that the editing percentage of 24 RNA editing sites decreased and that of seven RNA editing sites increased in dek55 kernels, the sites of which were distributed across 14 mitochondrial gene transcripts. Moreover, the splicing efficiency of nad1 introns 1 and 4 and nad4 intron 1 significantly decreased in dek55 compared with the wild type (WT). These results indicate that DEK55 plays a crucial role in RNA editing at multiple sites as well as in the splicing of nad1 and nad4 introns. Mutation in the DEK55 gene led to the dysfunction of mitochondrial complex I. Moreover, yeast two-hybrid assays showed that DEK55 interacts with two multiple organellar RNA-editing factors (MORFs), i.e., ZmMORF1 (Zm00001d049043) and ZmMORF8 (Zm00001d048291).Conclusions: Our results demonstrated that a mutation in the DEK55 gene affects the mitochondrial function essential for maize kernel development. Our results also provide novel insight into the molecular functions of E-subgroup PPR proteins involved in plant organellar RNA processing.

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“…The RNA editing percentage of nad1 transcripts was not affected, and among the nad4 transcripts, only nad4-77 transcripts decreased. Moreover, it has been reported that intron splicing can be mediated by RNA editing events in which the key sites of introns are edited [54][55][56]. The editing efficiency of two RNA editing sites (147 and 409) on nad4 intron 1 increased in dek55 (Additional file 2: Table S1), which might have resulted from the reduction in the splicing efficiency of nad4 intron 1.…”

Section: Dek55 Is Required For Maize Kernel Developmentmentioning

confidence: 99%

The novel E-subgroup pentatricopeptide repeat protein DEK55 is responsible for RNA editing at multiple sites and for the splicing of nad1 and nad4 in maize

Ren

Zhao

et al. 2020

BMC Plant Biol

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Background Pentatricopeptide repeat (PPR) proteins compose a large protein family whose members are involved in both RNA processing in organelles and plant growth. Previous reports have shown that E-subgroup PPR proteins are involved in RNA editing. However, the additional functions and roles of the E-subgroup PPR proteins are unknown. Results In this study, we developed and identified a new maize kernel mutant with arrested embryo and endosperm development, i.e., defective kernel (dek) 55 (dek55). Genetic and molecular evidence suggested that the defective kernels resulted from a mononucleotide alteration (C to T) at + 449 bp within the open reading frame (ORF) of Zm00001d014471 (hereafter referred to as DEK55). DEK55 encodes an E-subgroup PPR protein within the mitochondria. Molecular analyses showed that the editing percentage of 24 RNA editing sites decreased and that of seven RNA editing sites increased in dek55 kernels, the sites of which were distributed across 14 mitochondrial gene transcripts. Moreover, the splicing efficiency of nad1 introns 1 and 4 and nad4 intron 1 significantly decreased in dek55 compared with the wild type (WT). These results indicate that DEK55 plays a crucial role in RNA editing at multiple sites as well as in the splicing of nad1 and nad4 introns. Mutation in the DEK55 gene led to the dysfunction of mitochondrial complex I. Moreover, yeast two-hybrid assays showed that DEK55 interacts with two multiple organellar RNA-editing factors (MORFs), i.e., ZmMORF1 (Zm00001d049043) and ZmMORF8 (Zm00001d048291). Conclusions Our results demonstrated that a mutation in the DEK55 gene affects the mitochondrial function essential for maize kernel development. Our results also provide novel insight into the molecular functions of E-subgroup PPR proteins involved in plant organellar RNA processing.

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DEK46 performs C‐to‐U editing of a specific site in mitochondrial nad7 introns that is critical for intron splicing and seed development in maize

Cited by 24 publications

References 97 publications

Differential RNA Editing and Intron Splicing in Soybean Mitochondria during Nodulation

Differential RNA Editing and Intron Splicing in Soybean Mitochondria during Nodulation

The novel E-subgroup pentatricopeptide repeat protein DEK55 is responsible for RNA editing at multiple sites and for the splicing of nad1 and nad4 in maize

The novel E-subgroup pentatricopeptide repeat protein DEK55 is responsible for RNA editing at multiple sites and for the splicing of nad1 and nad4 in maize

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