PPR proteins in the tea plant (Camellia sinensis) and their potential roles in the leaf color changes

Zhang, Mengyuan; Zhao, Yiqing; Yang, Meng; Xiao, Yao; Zhao, Jingjing; Xiao, Bin; An, Chuanjing; Gao, Yuefang

doi:10.1016/j.scienta.2021.110745

Cited by 8 publications

(11 citation statements)

References 50 publications

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“…It has been well documented that cloned genes controlling maize kernel size largely encode for PPR proteins, belonging to a large family of nucleic acid binding proteins, mainly, RNA-binding proteins. PPR proteins play multiple roles in many biological processes in organelles, including transcription, RNA stabilization, RNA cleavage, translation, RNA splicing, and RNA editing, thereby affecting the expression of organelle genes [ 163 ]. Mutations in maize PPR proteins are commonly associated with severe defects in kernel development as summarized in Table 1 .…”

Section: Discussionmentioning

confidence: 99%

A Systemic Investigation of Genetic Architecture and Gene Resources Controlling Kernel Size-Related Traits in Maize

Wang

Long

et al. 2023

IJMS

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Grain yield is the most critical and complex quantitative trait in maize. Kernel length (KL), kernel width (KW), kernel thickness (KT) and hundred-kernel weight (HKW) associated with kernel size are essential components of yield-related traits in maize. With the extensive use of quantitative trait locus (QTL) mapping and genome-wide association study (GWAS) analyses, thousands of QTLs and quantitative trait nucleotides (QTNs) have been discovered for controlling these traits. However, only some of them have been cloned and successfully utilized in breeding programs. In this study, we exhaustively collected reported genes, QTLs and QTNs associated with the four traits, performed cluster identification of QTLs and QTNs, then combined QTL and QTN clusters to detect consensus hotspot regions. In total, 31 hotspots were identified for kernel size-related traits. Their candidate genes were predicted to be related to well-known pathways regulating the kernel developmental process. The identified hotspots can be further explored for fine mapping and candidate gene validation. Finally, we provided a strategy for high yield and quality maize. This study will not only facilitate causal genes cloning, but also guide the breeding practice for maize.

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Section: Discussionmentioning

confidence: 99%

A Systemic Investigation of Genetic Architecture and Gene Resources Controlling Kernel Size-Related Traits in Maize

Wang

Long

et al. 2023

IJMS

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“…Numerous studies indicate that PLS-PPR proteins are important RNA editing factors [ 2 , 3 ], and 295 PLS-CsPPR proteins were found in tea plants [ 36 ]. Therefore, we used the method of Kobayashi et al (see material and methods) to analyze the possible interactions between the PLS-CsPPR proteins and target sequences containing validated RNA editing sites.…”

Section: Resultsmentioning

confidence: 99%

“…Interaction analysis between the PLS-CsPPR protein and their target sequence was performed according to the method of Kobayashi et al [ 49 ] with minor modifications. In brief, the PPR motifs of PLS-CsPPR were obtained from our previous study [ 36 ]; the second, fifth and last amino acid residues of these PPR motifs were extracted to form 3-, 2- and 1-letter codes ( Table S5 ). The PPR code dataset of Kobayashi et al [ 49 ] was used to compose the base preference matrix of PLS-CsPPR proteins.…”

Section: Methodsmentioning

confidence: 99%

“…Numerous studies reported that loss of the RNA editing function could lead to changes in plant leaf color [ 12 , 30 ]. In our previous study, in which the PPR family proteins were systematically analyzed, 295 PLS-CsPPR subfamily members were found in the tea plant [ 36 ]. However, there are few reports on the regulatory role of RNA editing in tea plants, and it is unclear whether PLS-CsPPR proteins are involved in the RNA editing process.…”

Section: Introductionmentioning

confidence: 99%

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Exploring the RNA Editing Events and Their Potential Regulatory Roles in Tea Plant (Camellia sinensis L.)

Zhang

Wang

et al. 2022

IJMS

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RNA editing is a post-transcriptional modification process that alters the RNA sequence relative to the genomic blueprint. In plant organelles (namely, mitochondria and chloroplasts), the most common type is C-to-U, and the absence of C-to-U RNA editing results in abnormal plant development, such as etiolation and albino leaves, aborted embryonic development and retarded seedling growth. Here, through PREP, RES-Scanner, PCR and RT-PCR analyses, 38 and 139 RNA editing sites were identified from the chloroplast and mitochondrial genomes of Camellia sinensis, respectively. Analysis of the base preference around the RNA editing sites showed that in the −1 position of the edited C had more frequent occurrences of T whereas rare occurrences of G. Three conserved motifs were identified at 25 bases upstream of the RNA editing site. Structural analyses indicated that the RNA secondary structure of 32 genes, protein secondary structure of 37 genes and the three-dimensional structure of 5 proteins were altered due to RNA editing. The editing level analysis of matK and ndhD in six tea cultivars indicated that matK-701 might be involved in the color change of tea leaves. Furthermore, 218 PLS-CsPPR proteins were predicted to interact with the identified RNA editing sites. In conclusion, this study provides comprehensive insight into RNA editing events, which will facilitate further study of the RNA editing phenomenon of the tea plant.

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“…This increase in expressed PPR genes appears to correlate with phenotypes showing altered pigmentation. Prior studies in albino cultivars of Camellia sinensis(Zhang et al, 2022) and apg2, cla1 and apg3…”

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confidence: 99%

Transcriptome analysis reveals molecular mechanisms underlying chloroplast biogenesis in albino Agave angustifolia plantlets

Andrade‐Marcial,

Pacheco‐Arjona,

Hernández‐Castellano

et al. 2024

Physiologia Plantarum

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Albino plants display partial or complete loss of photosynthetic pigments and defective thylakoid membrane development, consequently impairing plastid function and development. These distinctive attributes render albino plants excellent models for investigating chloroplast biogenesis. Despite their potential, limited exploration has been conducted regarding the molecular alterations underlying these phenotypes, extending beyond photosynthetic metabolism. In this study, we present a novel de novo transcriptome assembly of an albino somaclonal variant of Agave angustifolia Haw., which spontaneously emerged during the micropropagation of green plantlets. Additionally, RT‐qPCR analysis was employed to validate the expression of genes associated with chloroplast biogenesis, and plastome copy numbers were quantified. This research aims to gain insight into the molecular disruptions affecting chloroplast development and ascertain whether the expression of critical genes involved in plastid development and differentiation is compromised in albino tissues of A. angustifolia. Our transcriptomic findings suggest that albino Agave plastids exhibit high proliferation, activation of the protein import machinery, altered transcription directed by PEP and NEP, dysregulation of plastome expression genes, reduced expression of photosynthesis‐associated nuclear genes, disruption in the tetrapyrrole and carotenoid biosynthesis pathway, alterations in the plastid ribosome, and an increased number of plastome copies, among other alterations.

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PPR proteins in the tea plant (Camellia sinensis) and their potential roles in the leaf color changes

Cited by 8 publications

References 50 publications

A Systemic Investigation of Genetic Architecture and Gene Resources Controlling Kernel Size-Related Traits in Maize

A Systemic Investigation of Genetic Architecture and Gene Resources Controlling Kernel Size-Related Traits in Maize

Exploring the RNA Editing Events and Their Potential Regulatory Roles in Tea Plant (Camellia sinensis L.)

Transcriptome analysis reveals molecular mechanisms underlying chloroplast biogenesis in albino Agave angustifolia plantlets

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