Yeast‐based reporter assay system for identifying the requirements of intramembrane proteolysis by signal peptide peptidase of <i>Arabidopsis thaliana</i>

Kusunoki, Kenta; Hoshi, Masako; Tamura, Tomoko; Maeda, Tatsuya; Abe, Keiko; Asakura, Tomiko

doi:10.1002/2211-5463.12936

Cited by 3 publications

References 30 publications

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More than meets the eye: knowns and unknowns of the trafficking of small secreted proteins in Arabidopsis

Pečenková,

Potocký,

Stegmann

2024

Journal of Experimental Botany

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Small proteins represent a significant portion of the cargo transported through plant secretory pathways, playing crucial roles in developmental processes, fertilization, and responses to environmental stresses. Despite their importance, substantial knowledge gaps persist regarding the regulatory mechanisms governing their trafficking along the secretory pathway, and ultimate localization/destination. To address these gaps, we conducted a comprehensive literature review, focusing particularly on trafficking and localization of small secreted proteins with potential biochemical and/or signaling roles in the extracellular space, typically within the size range of 101-200 amino acids. Our investigation reveals that while at least 6 members of the 21 mentioned families confirm extracellular localization, 8 of them exhibit intracellular localization (including cytoplasmic, nuclear, and chloroplastic locations, despite the presence of N-terminal signal peptides). Further investigation into the trafficking and secretion mechanisms of small protein cargo could not only deepen our understanding of plant cell biology and physiology but also provide a foundation for manipulation strategies leading to more efficient plant cultivation.

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More than meets the eye: knowns and unknowns of the trafficking of small secreted proteins in Arabidopsis

Pečenková,

Potocký,

Stegmann

2024

Journal of Experimental Botany

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Genetic dissection of maize (Zea mays L.) chlorophyll content using multi-locus genome-wide association studies

Xiong

et al. 2023

BMC Genomics

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Background The chlorophyll content (CC) is a key factor affecting maize photosynthetic efficiency and the final yield. However, its genetic basis remains unclear. The development of statistical methods has enabled researchers to design and apply various GWAS models, including MLM, MLMM, SUPER, FarmCPU, BLINK and 3VmrMLM. Comparative analysis of their results can lead to more effective mining of key genes. Results The heritability of CC was 0.86. Six statistical models (MLM, BLINK, MLMM, FarmCPU, SUPER, and 3VmrMLM) and 1.25 million SNPs were used for the GWAS. A total of 140 quantitative trait nucleotides (QTNs) were detected, with 3VmrMLM and MLM detecting the most (118) and fewest (3) QTNs, respectively. The QTNs were associated with 481 genes and explained 0.29-10.28% of the phenotypic variation. Additionally, 10 co-located QTNs were detected by at least two different models or methods, three co-located QTNs were identified in at least two different environments, and six co-located QTNs were detected by different models or methods in different environments. Moreover, 69 candidate genes within or near these stable QTNs were screened based on the B73 (RefGen_v2) genome. GRMZM2G110408 (ZmCCS3) was identified by multiple models and in multiple environments. The functional characterization of this gene indicated the encoded protein likely contributes to chlorophyll biosynthesis. In addition, the CC differed significantly between the haplotypes of the significant QTN in this gene, and CC was higher for haplotype 1. Conclusion This study’s results broaden our understanding of the genetic basis of CC, mining key genes related to CC and may be relevant for the ideotype-based breeding of new maize varieties with high photosynthetic efficiency.

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Genetic Dissection of Maize (Zea mays L.) Chlorophyll Content Using Multi-Locus Genome-Wide Association Studies

Xiong

et al. 2023

Preprint

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Background The chlorophyll content (CC) is a key factor affecting plant photosynthetic efficiency and the final yield. However, its genetic basis remains unclear. The development of statistical methods has enabled researchers to design and apply various GWAS models, including MLM, MLMM, SUPER, FarmCPU, BLINK and 3VmrMLM. Comparative analysis of their results can lead to more effective mining of key genes.Results The heritability of CC was 0.86. Six statistical models (MLM, BLINK, MLMM, FarmCPU, SUPER, and 3VmrMLM) and 1.25 million SNPs were used for the GWAS. A total of 140 quantitative trait nucleotides (QTNs) were detected, with 3VmrMLM and MLM detecting the most (118) and fewest (3) QTNs, respectively. The QTNs were associated with 481 genes and explained 0.29%-10.28% of the phenotypic variation. Additionally, 10 co-located QTNs were detected by at least two different models or methods, three co-located QTNs were identified in at least two different environments, and six co-located QTNs were detected by different models or methods in different environments. Moreover, 69 candidate genes within or near these stable QTNs were screened based on the B73 (RefGen_v2) genome. GRMZM2G110408 (ZmCCS3) was identified by multiple models and in multiple environments. The functional characterization of this gene indicated the encoded protein likely contributes to chlorophyll biosynthesis. In addition, the CC differed significantly between the haplotypes of the significant QTN in this gene, and CC was higher for haplotype 1.Conclusion This study results broaden our understanding of the genetic basis of CC, mining key genes related to CC and may be relevant for the ideotype-based breeding of new maize varieties with high photosynthetic efficiency.

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Yeast‐based reporter assay system for identifying the requirements of intramembrane proteolysis by signal peptide peptidase of Arabidopsis thaliana

Cited by 3 publications

References 30 publications

More than meets the eye: knowns and unknowns of the trafficking of small secreted proteins in Arabidopsis

More than meets the eye: knowns and unknowns of the trafficking of small secreted proteins in Arabidopsis

Genetic dissection of maize (Zea mays L.) chlorophyll content using multi-locus genome-wide association studies

Genetic Dissection of Maize (Zea mays L.) Chlorophyll Content Using Multi-Locus Genome-Wide Association Studies

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