PPR protein Early Chloroplast Development 2 is essential for chloroplast development at the early stage of Arabidopsis development

Wang, Xinwei; An, Yaqi; Qi, Zhi; Xiao, Jianwei

doi:10.1016/j.plantsci.2021.110908

Cited by 16 publications

(10 citation statements)

References 50 publications

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“…Pigment-Defective Mutant3 (PDM3) is a P-class PPR protein harbouring 12 PPR motifs, it might be involved in the intron splicing of ndhB, trnA , and clpP intron 1 in Arabidopsis [ 80 ]. Arabidopsis PDM4 is implicated in the splicing of ycf3 intron 1 and clpP intron 2 [ 81 , 82 ], Albino Cotyledon Mutant1 (ACM1) in ndhA intron, ndhB intron, clpP intron 2, and ycf3 intron 1 [ 83 ], Early Chloroplast Development 2 (ECD2) in ndhA intron, rps12 intron 2, ycf3 intron 1, and clpP intron 2 [ 84 ], rice WHITE STRIPE LEAF 4 (WSL4) in rps12 intron 2, ndhA, atpF , and rpl2 introns [ 85 ]. Another rice P-class PPR protein WHITE STRIPE LEAF 5 (WSL5) harbours 15 PPR motifs and an RRM motif at its N-terminal.…”

Section: Splicing Factors In Land Plant Chloroplastsmentioning

confidence: 99%

An overview of RNA splicing and functioning of splicing factors in land plant chloroplasts

Wang

et al. 2022

RNA Biology

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RNA splicing refers to a process by which introns of a pre-mRNA are excised and the exons at both ends are joined together. Chloroplast introns are inherently self-splicing ribozymes, but over time, they have lost self-splicing ability due to the degeneration of intronic elements. Thus, the splicing of chloroplast introns relies heavily on nuclear-encoded splicing factors, which belong to diverse protein families. Different splicing factors and their shared intron targets are supposed to form ribonucleoprotein particles (RNPs) to facilitate intron splicing. As characterized in a previous review, around 14 chloroplast intron splicing factors were identified until 2010. However, only a few genetic and biochemical evidence has shown that these splicing factors are required for the splicing of one or several introns. The roles of splicing factors are generally believed to facilitate intron folding; however, the precise role of each protein in RNA splicing remains ambiguous. This may be because the precise binding site of most of these splicing factors remains unexplored. In the last decade, several new splicing factors have been identified. Also, several splicing factors were found to bind to specific sequences within introns, which enhanced the understanding of splicing factors. Here, we summarize recent progress on the splicing factors in land plant chloroplasts and discuss their possible roles in chloroplast RNA splicing based on previous studies.

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Section: Splicing Factors In Land Plant Chloroplastsmentioning

confidence: 99%

An overview of RNA splicing and functioning of splicing factors in land plant chloroplasts

Wang

et al. 2022

RNA Biology

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“…Our ChIP‐seq and RNA‐seq results also identified active genes located in rice Cen8 , including six genes deleted in mt‐8 plants. Two of them, Os08g21561 and Os08g21700 , encoding the PPR‐domain‐containing protein and chloroplast precursor, respectively, play important roles in chloroplast development and photosynthesis (Bellaoui & Gruissem, 2004; de Longevialle et al., 2008; Keddie et al., 1996; Wang et al., 2021). Therefore, mt‐8 plants grow heterotrophically under medium culture conditions, but weakly with yellow leaves in the field.…”

Section: Discussionmentioning

confidence: 99%

“…LOC_Os08g21561 encodes a pentatricopeptide repeat (PPR) domain-containing protein, whereas LOC_Os08g21700 encodes a chloroplast precursor named DCL (defective chloroplasts and leaves). Previous studies have indicated that PPR proteins are critical for photosystem assembly and early chloroplast development in Arabidopsis (de Longevialle et al, 2008;Wang et al, 2021). Moreover, DCL orthologs in Solanum lycopersicum and Arabidopsis are required for chloroplast development (Bellaoui & Gruissem, 2004;Keddie et al, 1996).…”

Section: Determination Of Functional Genes In the Deleted Region On C...mentioning

confidence: 99%

De novo centromere formation in pericentromeric region of rice chromosome 8

et al. 2022

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Neocentromeres develop when kinetochores assemble de novo at DNA loci that are not previously associated with CenH3 nucleosomes, and can rescue rearranged chromosomes that have lost a functional centromere. The molecular mechanisms associated with neocentromere formation in plants have been elusive. Here, we developed a Xian (indica) rice line with poor growth performance in the field due to approximately 272 kb deletion that spans centromeric DNA sequences, including the centromeric satellite repeat CentO, in the centromere of chromosome 8 (Cen8). The CENH3-binding domains were expanded downstream of the original CentO position in Cen8, which revealed a de novo centromere formation in rice. The neocentromere formation avoids chromosomal regions containing functional genes. Meanwhile, canonical histone H3 was replaced by CENH3 in the regions with low CENH3 levels, and the CenH3 nucleosomes in these regions became more periodic. In addition, we identified active genes in the deleted centromeric region, which are essential for chloroplast growth and development. In summary, our results provide valuable insights into neocentromere formation and show that functional genes exist in the centromeric regions of plant chromosomes.

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“…Similar to EMB1270, several P-type PPR proteins that function as splicing factors were revealed by both genetic analysis and through their protein–RNA and/or protein–protein interaction, such as PPR4 [ 27 ], EMB2654 [ 4 , 27 ], PBF2 [ 28 ], OsCDE4 [ 29 ], and PDM4 [ 30 ]. However, most of the P-type PPR proteins that were found to be involved in chloroplast group II introns splicing were only revealed by comparison analyses of the abundance of pre-mRNA and spliced mature mRNA within ppr mutants and wild-types, such as OTP51 [ 31 , 32 ], PDM3 [ 33 ], ECD2 [ 34 ], OsSLC1 [ 35 ], OsWSL5 [ 36 ], OsWSL4 [ 37 ], and ZmEMB-7L [ 38 ].…”

Section: Splicing Factors Of Chloroplast Group II Intronsmentioning

confidence: 99%

Updated Progress on Group II Intron Splicing Factors in Plant Chloroplasts

Zeng

Jiao

Jia

et al. 2022

CIMB

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Group II introns are large catalytic RNAs (ribozymes) in the bacteria and organelle genomes of several lower eukaryotes. Many critical photosynthesis-related genes in the plant chloroplast genome also contain group II introns, and their splicing is critical for chloroplast biogenesis and photosynthesis processes. The structure of chloroplast group II introns was altered during evolution, resulting in the loss of intron self-splicing. Therefore, the assistance of protein factors was required for their splicing processes. As an increasing number of studies focus on the mechanism of chloroplast intron splicing; many new nuclear-encoded splicing factors that are involved in the chloroplast intron splicing process have been reported. This report reviewed the research progress of the updated splicing factors found to be involved in the splicing of chloroplast group II introns. We discuss the main problems that remain in this research field and suggest future research directions.

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PPR protein Early Chloroplast Development 2 is essential for chloroplast development at the early stage of Arabidopsis development

Cited by 16 publications

References 50 publications

An overview of RNA splicing and functioning of splicing factors in land plant chloroplasts

An overview of RNA splicing and functioning of splicing factors in land plant chloroplasts

De novo centromere formation in pericentromeric region of rice chromosome 8

Updated Progress on Group II Intron Splicing Factors in Plant Chloroplasts

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