ArticleThe Journal of biological chemistry2011
The GreenCut2 resource, a phylogenomically derived inventory of proteins specific to the plant lineage.
Article in The Journal of biological chemistry, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 78 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
78 citing papers in PubMed, 139 citations in OpenAlex.
- Two proteins co-expressed with photosynthetic regulators affect photosynthetic dynamics linked to changes in thylakoid pigment content and composition.Plant biology (Stuttgart, Germany) · 2026Article
- VIA1 is a conserved regulator of thylakoid membrane integrity that acts through VIPP1.Proceedings of the National Academy of Sciences of the United States of America · 2026Article
- Functional Genomics Screening inEnvironmental science & technology · 2026Article
- The GreenCut protein TEF6 maintains photosystem II homeostasis under high light by stabilizing FtsH accumulation in Chlamydomonas reinhardtii.Plant communications · 2026Article
- Targeted genetic manipulation and yeast-like evolutionary genomics in the green alga Auxenochlorella.The Plant cell · 2025Article
- Targeted genetic manipulation and yeast-like evolutionary genomics in the green algabioRxiv : the preprint server for biology · 2025Article
- The J-like domain CPP1-homolog CPL3 exclusively localizes in plastids and is not a key regulator of plant photomorphogenesis.Plant physiology · 2025Article
- The green algae CONature communications · 2025Article
- Pyridoxine dehydrogenase SePdx regulates photosynthesis via an association with the phycobilisome in a cyanobacterium.The Plant journal : for cell and molecular biology · 2025Article
- Chloroplast ATP synthase: From structure to engineering.The Plant cell · 2024Review
- Structure, function, and assembly of PSI in thylakoid membranes of vascular plants.The Plant cell · 2024Review
- CO-EXPRESSED WITH PSI ASSEMBLY1 (CEPA1) is a photosystem I assembly factor in Arabidopsis.The Plant cell · 2024Article
- Singlet-Oxygen-Mediated Regulation of Photosynthesis-Specific Genes: A Role for Reactive Electrophiles in Signal Transduction.International journal of molecular sciences · 2024Article
- Iron rescues glucose-mediated photosynthesis repression during lipid accumulation in the green alga Chromochloris zofingiensis.Nature communications · 2024Article
- Chloroplast Methyltransferase Homolog RMT2 is Involved in Photosystem I Biogenesis.bioRxiv : the preprint server for biology · 2024Article
- Article
- Identification and preliminary characterization of conserved uncharacterized proteins fromPlant direct · 2023Article
- Topological data analysis reveals a core gene expression backbone that defines form and function across flowering plants.PLoS biology · 2023Article
- Eukaryote-specific assembly factor DEAP2 mediates an early step of photosystem II assembly in Arabidopsis.Plant physiology · 2023Article
- Characteristics of NGenomics, proteomics & bioinformatics · 2023Article
18 more citing papers are in PubMed but not listed here.
Corrections and comments
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Authors and funding
4 authors at 3 institutions in 1 country.
Funding
Abstract
The plastid is a defining structure of photosynthetic eukaryotes and houses many plant-specific processes, including the light reactions, carbon fixation, pigment synthesis, and other primary metabolic processes. Identifying proteins associated with catalytic, structural, and regulatory functions that are unique to plastid-containing organisms is necessary to fully define the scope of plant biochemistry. Here, we performed phylogenomics on 20 genomes to compile a new inventory of 597 nucleus-encoded proteins conserved in plants and green algae but not in non-photosynthetic organisms. 286 of these proteins are of known function, whereas 311 are not characterized. This inventory was validated as applicable and relevant to diverse photosynthetic eukaryotes using an additional eight genomes from distantly related plants (including Micromonas, Selaginella, and soybean). Manual curation of the known proteins in the inventory established its importance to plastid biochemistry. To predict functions for the 52% of proteins of unknown function, we used sequence motifs, subcellular localization, co-expression analysis, and RNA abundance data. We demonstrate that 18% of the proteins in the inventory have functions outside the plastid and/or beyond green tissues. Although 32% of proteins in the inventory have homologs in all cyanobacteria, unexpectedly, 30% are eukaryote-specific. Finally, 8% of the proteins of unknown function share no similarity to any characterized protein and are plant lineage-specific. We present this annotated inventory of 597 proteins as a resource for functional analyses of plant-specific biochemistry.
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