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Miclaus M, Balacescu O, Has I, Balacescu L, Has V, Suteu D, Neuenschwander S, Keller I, Bruggmann R. Maize Cytolines Unmask Key Nuclear Genes That Are under the Control of Retrograde Signaling Pathways in Plants. Genome Biol Evol 2016; 8:3256-3270. [PMID: 27702813 PMCID: PMC5203784 DOI: 10.1093/gbe/evw245] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022] Open
Abstract
The genomes of the two plant organelles encode for a relatively small number of proteins. Thus, nuclear genes encode the vast majority of their proteome. Organelle-to-nucleus communication takes place through retrograde signaling (RS) pathways. Signals relayed through RS pathways have an impact on nuclear gene expression but their target-genes remain elusive in a normal state of the cell (considering that only mutants and stress have been used so far). Here, we use maize cytolines as an alternative. The nucleus of a donor line was transferred into two other cytoplasmic environments through at least nine back-crosses, in a time-span of > 10 years. The transcriptomes of the resulting cytolines were sequenced and compared. There are 96 differentially regulated nuclear genes in two cytoplasm-donor lines when compared with their nucleus-donor. They are expressed throughout plant development, in various tissues and organs. One-third of the 96 proteins have a human homolog, stressing their potential role in mitochondrial RS. We also identified syntenic orthologous genes in four other grasses and homologous genes in Arabidopsis thaliana. These findings contribute to the paradigm we use to describe the RS in plants. The 96 nuclear genes identified here are not differentially regulated as a result of mutation, or any kind of stress. They are rather key players of the organelle-to-nucleus communication in a normal state of the cell.
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Affiliation(s)
- Mihai Miclaus
- National Institute of Research and Development for Biological Sciences, Cluj-Napoca, Romania .,Interfaculty Bioinformatics Unit and Swiss Institute of Bioinformatics, University of Bern, Bern, Switzerland
| | - Ovidiu Balacescu
- The Oncology Institute "Prof Dr Ion Chiricuta", Cluj-Napoca, Romania.,Iuliu Hatieganu University of Medicine and Pharmacy, Cluj-Napoca, Romania
| | - Ioan Has
- Agricultural Research and Development Station, Turda, Romania
| | - Loredana Balacescu
- The Oncology Institute "Prof Dr Ion Chiricuta", Cluj-Napoca, Romania.,Iuliu Hatieganu University of Medicine and Pharmacy, Cluj-Napoca, Romania
| | - Voichita Has
- Agricultural Research and Development Station, Turda, Romania
| | - Dana Suteu
- National Institute of Research and Development for Biological Sciences, Cluj-Napoca, Romania
| | - Samuel Neuenschwander
- Interfaculty Bioinformatics Unit and Swiss Institute of Bioinformatics, University of Bern, Bern, Switzerland.,Vital-IT, Swiss Institute of Bioinformatics, University of Lausanne, Lausanne, Switzerland
| | - Irene Keller
- Interfaculty Bioinformatics Unit and Swiss Institute of Bioinformatics, University of Bern, Bern, Switzerland.,Department of Clinical Research, University of Bern, Bern, Switzerland
| | - Rémy Bruggmann
- Interfaculty Bioinformatics Unit and Swiss Institute of Bioinformatics, University of Bern, Bern, Switzerland
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Nana A, Mircioiu C, Neumann E, Uray Z, Stroila C, Suteu D. [Hepatic peri-arterial neurectomy and its effects of the course of experimental hepatitis]. Lyon Chir 1966; 62:217-28. [PMID: 5933664] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [MESH Headings] [Subscribe] [Scholar Register] [Indexed: 01/17/2023]
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Nana A, Mircioiu C, Neumann E, Stroilă C, Suteu D. [Cerebral topochemistry of the gamma-aminobutyric acid-glutamine decarboxylase system during experimental shock]. Fiziol Norm Patol 1965; 11:251-9. [PMID: 5845413] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [MESH Headings] [Subscribe] [Scholar Register] [Indexed: 01/17/2023]
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