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Project # 50969 Gene function discovery in photosynthesis: A multi-omics approach Sabeeha Merchant (PI)1, Setsuko Wakao (Co-PI)2, Crysten E. Blaby-Haas3, Krishna K. Niyogi1 1University of California, Berkeley, 2Lawrence Berkeley National Laboratory, 3Brookhaven National Laboratory Abstract: Photosynthesis is the defining characteristic of plants enabling the capture and transformation of sunlight into bioenergy and has been the focus of plant research for centuries. Remarkably, whole-genome sequencing has revealed that 40% of the proteins predicted to localize to the chloroplast are either of unknown function or the functional annotation lacks experimental evidence. This knowledge gap in gene function more often affects those processes that operate during acclimation. Indeed, while the core complexes involved in light harvesting, electron transfer and carbon fixation are well characterized, auxiliary processes involved in fine-tuning photosynthetic processes in response to fluctuating and suboptimal environmental conditions are relatively unknown. Because such processes are critical to the performance of sustainable bioenergy crops in the field, addressing the function of genes implicated in the acclimation of photosynthesis to suboptimal conditions is vital. The overarching goal of this work is to build a framework that effectively identifies functions important for photoprotection and photoacclimation for genes conserved in green algae and plants. We have generated a high-quality sequenced library of photosynthetic mutants in C. reinhardtii, a unicellular green alga and premier reference organism for photosynthesis research. Because this "single-celled plant" can grow photoautotrophically and heterotrophically with intact assembled photosystems, these mutants provide an exciting and unique opportunity to determine the role of conserved plant genes in photosynthesis. We will leverage the strengths of this experimental system to generate gene-specific functional evidence using a multi-omics approach that integrates transcriptomics and proteomics with targeted metabolomics and microscopy. We will incorporate this data into gene family level phylogenomic-assisted analyses to establish the function of the corresponding genes and establish why loss-of-function leads to photosynthetic defects..

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Co-Expressed Subunits of Dual Genetic Origin Define a Conserved Supercomplex Mediating Essential Protein Import Into Chloroplasts
bioRxiv preprint doi: https://doi.org/10.1101/2020.07.04.188128. this version posted July 6, 2020. The copyright holder for this preprint (which was not certified by peer review) is the author/funder. All rights reserved. No reuse allowed without permission. Ramundo et al. Co-expressed subunits of dual genetic origin define a conserved supercomplex mediating essential protein import into chloroplasts Silvia Ramundo (1,2), Yukari Asakura (3), Patrice A. Salomé (4), Daniela Strenkert (4,5), Morgane Boone (1), Luke C. M. Mackinder (6), Kazuaki Takafuji (7), Emine Dinc (8), Michèle Rahire(8), Michèle Crèvecoeur (8), Leonardo Magneschi (9), Olivier Schaad (10), Michael Hippler (9,11), Martin C. Jonikas (12,2), Sabeeha Merchant (4,5), Masato Nakai (3,13), Jean-David Rochaix (8,13) and Peter Walter (1,2.13) (1) Department of Biochemistry and Biophysics, University of California at San Francisco, San Francisco, USA (2) Howard Hughes Medical Institute (3) Laboratory of Organelle Biology, Institute for Protein Research, Osaka University, Osaka, Japan (4) Department of Chemistry and Biochemistry, UCLA, Los Angeles, USA (5) Present address: QB3, University of California, Berkeley, USA (6) Department of Biology, University of York, UK (7) Graduate School of Medicine, Osaka University, Osaka, Japan (8) Departments of Molecular Biology and Plant Biology, University of Geneva, Geneva, Switzerland (9) Institute of Plant Biology and Biotechnology, University of Münster, Münster, Germany (10) Department of Biochemistry, University of Geneva, Geneva, Switzerland (11) Institute of Plant Science and Resources, Okayama University, Kurashiki, Japan (12) Department of Molecular Biology, Princeton University, USA (13) Corresponding authors: [email protected]; Jean- [email protected]; [email protected] 1 bioRxiv preprint doi: https://doi.org/10.1101/2020.07.04.188128.
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1 Running Title: Manganese Deficiency in Chlamydomonas Corresponding Author: Sabeeha Merchant UCLA Department of Chemistry
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