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  • 1
    Publication Date: 2009-11-27
    Description: Light is necessary for photosynthesis, but its absorption by pigment molecules such as chlorophyll can cause severe oxidative damage and result in cell death. The excess absorption of light energy by photosynthetic pigments has led to the evolution of protective mechanisms that operate on the timescale of seconds to minutes and involve feedback-regulated de-excitation of chlorophyll molecules in photosystem II (qE). Despite the significant contribution of eukaryotic algae to global primary production, little is known about their qE mechanism, in contrast to that in flowering plants. Here we show that a qE-deficient mutant of the unicellular green alga Chlamydomonas reinhardtii, npq4, lacks two of the three genes encoding LHCSR (formerly called LI818). This protein is an ancient member of the light-harvesting complex superfamily, and orthologues are found throughout photosynthetic eukaryote taxa, except in red algae and vascular plants. The qE capacity of Chlamydomonas is dependent on environmental conditions and is inducible by growth under high light conditions. We show that the fitness of the npq4 mutant in a shifting light environment is reduced compared to wild-type cells, demonstrating that LHCSR is required for survival in a dynamic light environment. Thus, these data indicate that plants and algae use different proteins to dissipate harmful excess light energy and protect the photosynthetic apparatus from damage.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Peers, Graham -- Truong, Thuy B -- Ostendorf, Elisabeth -- Busch, Andreas -- Elrad, Dafna -- Grossman, Arthur R -- Hippler, Michael -- Niyogi, Krishna K -- England -- Nature. 2009 Nov 26;462(7272):518-21. doi: 10.1038/nature08587.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Department of Plant and Microbial Biology, University of California, Berkeley, California 94720-3102, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/19940928" target="_blank"〉PubMed〈/a〉
    Keywords: Acclimatization/radiation effects ; Algal Proteins/genetics/*metabolism ; Cell Survival/radiation effects ; Chlamydomonas reinhardtii/cytology/genetics/*metabolism/radiation effects ; Chlorophyll/metabolism ; Fluorescence ; Genetic Complementation Test ; Light-Harvesting Protein Complexes/genetics/*metabolism ; Mutation ; *Photosynthesis/radiation effects ; RNA, Messenger/genetics/metabolism ; Time Factors
    Print ISSN: 0028-0836
    Electronic ISSN: 1476-4687
    Topics: Biology , Chemistry and Pharmacology , Medicine , Natural Sciences in General , Physics
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  • 2
    Publication Date: 2015-12-18
    Description: Motivation : Phenomics is the study of the properties and behaviors of organisms (i.e. their phenotypes) on a high-throughput scale. New computational tools are needed to analyze complex phenomics data, which consists of multiple traits/behaviors that interact with each other and are dependent on external factors, such as genotype and environmental conditions, in a way that has not been well studied. Results : We deployed an efficient framework for partitioning complex and high dimensional phenotype data into distinct functional groups. To achieve this, we represented measured phenotype data from each genotype as a cloud-of-points, and developed a novel non-parametric clustering algorithm to cluster all the genotypes. When compared with conventional clustering approaches, the new method is advantageous in that it makes no assumption about the parametric form of the underlying data distribution and is thus particularly suitable for phenotype data analysis. We demonstrated the utility of the new clustering technique by distinguishing novel phenotypic patterns in both synthetic data and a high-throughput plant photosynthetic phenotype dataset. We biologically verified the clustering results using four Arabidopsis chloroplast mutant lines. Availability and implementation: Software is available at www.msu.edu/~jinchen/NPM . Supplementary information: Supplementary data are available at Bioinformatics online. Contact: jinchen@msu.edu , kramerd8@cns.msu.edu or rongjin@cse.msu.edu
    Print ISSN: 1367-4803
    Electronic ISSN: 1460-2059
    Topics: Biology , Computer Science , Medicine
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