Publications — Jonikas Lab

Jonikas Lab member names are bolded.

SAGA1 and MITH1 produce matrix-traversing membranes in the CO2-fixing pyrenoid

Hennacy JH, Atkinson N, Kayser-Browne A, Ergun SL, Franklin E, Wang L, Eicke S, Kazachkova Y, Kafri M, Fauser F, Vilarrasa-Blasi J, Jinkerson RE, Zeeman SC, McCormick AJ & Jonikas MC

Nature Plants (2024) | https://doi: 10.1038/s41477-024-01847-0

PMID: 39548241

Systematic identification and characterization of genes in the regulation and biogenesis of photosynthetic machinery

Kafri M, Patena W, Martin L, Wang L, Gomer G, Ergun SL, Sirkejyan AK, Goh A, Wilson AT, Gavrilenko SE, Breker M, Roichman A, McWhite CD, Rabinowitz JD, Cross FR, Wühr M, & Jonikas MC.

Cell (2023) 186: 5638-5655 | https://doi: 10.1016/j.cell.2023.11.007

PMID: 38065083

The pyrenoid: the eukaryotic CO2-concentrating organelle

He S, Crans VL, Jonikas MC.

Plant Cell (2023) 35:3236–3259 | https://doi.org/10.1093/plcell/koad157

PMID: 37279536

A chloroplast protein atlas reveals punctate structures and spatial organization of biosynthetic pathways

Wang L, Patena W, Van Baalen KA, Xie Y, Singer ER, Gavrilenko S, Warren-Williams M, Han L, Harrigan HR, Hartz LD, Chen V, Ton VTNP, Kyin S, Shwe HH, Cahn MH, Wilson AT, Hu J, Schnell DJ, McWhite CD, & Jonikas MC.

Cell (2023) 186:3499–3518 | https://doi.org/10.1016/j.cell.2023.06.008

PMID: 37437571

Phase-separating pyrenoid proteins form complexes in the dilute phase

He G, GrandPre T, Wilson H, Zhang Y, #Jonikas MC, #Wingreen NS, & #Wang Q.

#Corresponding authors

Communications Biology (2023) 6: 19 | https://doi.org/10.1038/s42003-022-04373-x

PMID: 36611062

Modelling the pyrenoid-based CO2-concentrating mechanism provides insights into its operating principles and a roadmap for its engineering into crops

*Fei C, *Wilson AT, #Mangan NM, #Wingreen NS, & #Jonikas MC.

*Equal contribution #Corresponding authors

Nature Plants (2022) 8:583–595

PMID: 35596080

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Systematic characterization of gene function in the photosynthetic alga Chlamydomonas reinhardtii

*Fauser F, *Vilarrasa-Blasi J, Onishi M, Ramundo S, Patena W, Millican M, Osaki J, Philp C, Nemeth M, Salomé PA, Li X, Wakao S, Kim RG, Kaye Y, Grossman AR, Niyogi KK, Merchant S, Cutler S, Walter P, #Dinneny JR, #Jonikas MC, & #Jinkerson RE.

*Equal contribution #Corresponding authors

Nature Genetics (2022) 54:705–714

PMID: 35513725

Coexpressed subunits of dual genetic origin define a conserved supercomplex mediating essential protein import into chloroplasts

Ramundo S, Asakura Y, Salomé PA, Strenkert D, Boone M, Mackinder LCM, Takafuji K, Dinc E, Rahire M, Crèvecoeur M, Magneschi L, Schaad O, Hippler M, Jonikas MC, Merchant S, #Nakai M, #Rochaix JD, & #Walter P.

#Corresponding authors

Proceedings of the National Academy of Sciences U S A (2020) 3:202014294. doi: 10.1073/pnas.2014294117.

PMID: 33273113

201115_eLife_Insights_Flamholz et al._figure_draft2 (2) copy.jpg

Increasing the uptake of carbon dioxide

Franklin E & Jonikas M.

eLife (2020) 9:e64380. doi: 10.7554/eLife.64380.

PMID: 33270556

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The structural basis of Rubisco phase separation in the pyrenoid

He S, Chou HT, Matthies D, Wunder T, Meyer MT, Atkinson N, Martinez-Sanchez A, Jeffrey PD, Port SA, Patena W, He G, Chen VK, Hughson FM, McCormick AJ, Mueller-Cajar O, Engel BD, Yu Z, & Jonikas MC.

Nature Plants (2020) 6:1480-1490.

PMID: 33230314

Assembly of the algal CO2-fixing organelle, the pyrenoid, is guided by a Rubisco-binding motif

Meyer MT, Itakura AK, Patena W, Wang L, He S, Emrich-Mills T, Lau CS, Yates G, Mackinder LCM, & Jonikas MC.

Science Advances (2020) 6:eabd2408

PMID: 33177094

The Pyrenoid

Wang L & Jonikas MC.

Current Biology (2020) 30:R456-R458

PMID: 32428480

Rigidity enhances a magic-number effect in polymer phase separation

Xu B, He G, Weiner BG, Ronceray P, Meir Y, Jonikas MC, & Wingreen NS.

Nature Communications (2020) 11:1561.

PMID: 32214099

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Prospects for Engineering Biophysical CO2 Concentrating Mechanisms into Land Plants to Enhance Yields

Hennacy JH & Jonikas MC.

Annual Review of Plant Biology (2020) 71:461-485

PMID: 32151155

A Rubisco-binding protein is required for normal pyrenoid number and starch sheath morphology in Chlamydomonas reinhardtii

*Itakura AK, *Chan KX, Atkinson N, Pallesen L, Wang L, Reeves G, Patena W, Caspari O, Roth R, Goodenough U, McCormick AJ, #Griffiths H, & #Jonikas MC.

*Equal contribution #Corresponding authors

Proceedings of the National Academy of Sciences (2019) 116: 18445-18454.

PMID: 31455733

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The Mars1 kinase confers photoprotection through signaling in the chloroplast unfolded protein response

Perlaza K, Toutkoushian H, Boone M, Lam M, Iwai M, Jonikas MC, #Walter P, & #Ramundo S.

#Corresponding authors

eLife (2019) doi: 10.7554/eLife.49577.001

PMID: 31612858

A genome-wide algal mutant library reveals a global view of genes required for eukaryotic photosynthesis

Li X, Patena W, Fauser F, Jinkerson RE, Saroussi S, Meyer MT, Ivanova N, Robertson JM, Yue R, Zhang R, Vilarrasa-Blasi J, Wittkopp TM, Ramundo S, Blum SR, Goh A, Laudon M, Srikumar T, Lefebvre PA, Grossman AR, & Jonikas MC.

Nature Genetics (2019) 51:627-635

PMID: 30886426

Phase separation in biology and disease-a symposium report

Cable J, Brangwynne C, Seydoux G, Cowburn D, Pappu RV, Castañeda CA, Berchowitz LE, Chen Z, Jonikas M, Dernburg A, Mittag T, Fawzi NL.

Annals of the New York Academy of Sciences (2019) 1452: 3-11.

PMID: 31199001

Effects of microcompartmentation on flux distribution and metabolic pools in Chlamydomonas reinhardtii chloroplasts

Küken A, Sommer F, Yaneva-Roder L, Mackinder LC, Höhne M, Geimer S, Jonikas MC, Schroda M, Stitt M, Nikoloski Z, & Mettler-Altmann T.

eLife (2018) doi: 10.7554/eLife.37960.

PMID: 30306890

A Spatial Interactome Reveals the Protein Organization of the Algal CO₂-Concentrating Mechanism

Mackinder LCM, Chen C, Leib RD, Patena W, Blum SR, Rodman M, Ramundo S, Adams CM, & Jonikas MC.

Cell (2017) 171: 133-147.

PMID: 28938113

Highlighted on the cover of Cell and in a Cell Preview by Jean-David Rochaix.

The Eukaryotic CO₂-Concentrating Organelle Is Liquid-like and Exhibits Dynamic Reorganization

Freeman ES, Xu B†, Kuhn Cuellar L†, Martinez-Sanchez A, Schaffer M, Strauss M, Cartwright HN, Ronceray P, Plitzko JM, Förster F, #Wingreen NS, #Engel BD, ‡Mackinder LCM, & ‡#Jonikas MC.

†Equal contribution ‡Equal contribution #Corresponding authors

Cell (2017) 171: 148-162.

PMID: 28938114

Highlighted in a Research Highlight in Nature Plants.

A repeat protein links Rubisco to form the eukaryotic carbon-concentrating organelle

Mackinder LCM, Meyer MT, Mettler-Altmann T, Chen VK, Mitchell MC, Caspari O, Freeman Rosensweig ES, Pallesen L, Reeves G, Itakura A, Roth R, Sommer F, Geimer S, Mühlhaus T, Schroda M, Goodenough U, Stitt M, Griffiths H, & Jonikas MC.

Proceedings of the National Academy of Sciences U S A (2016) 113: 5958-63.

PMID: 27166422

Regulation and levels of the thylakoid K+ antiporter KEA3 shape the dynamic response of photosynthesis in fluctuating light.

Armbruster U, Leonelli L, Correa Galvis V, Strand D, Quinn EH, Jonikas MC, & Niyogi KK.

Plant and Cell Physiology (2016) 57: 1557-1567

PMID: 27335350

High-throughput genetics strategies for identifying new components of lipid metabolism in the green alga Chlamydomonas reinhardtii

Li X & Jonikas MC.

Chapter 10 in Lipids in Plant and Algae Development, Y. Nakamura, Y. Li-Beisson (eds.), (2016) Springer.

PMID: 27023238

An indexed, mapped mutant library enables reverse genetics studies of biological processes in Chlamydomonas reinhardtii.

*Li X, *Zhang R, *Patena W, Gang SS, Blum SR, Ivanova N, Yue R, Robertson JM, Lefebvre P, Fitz-Gibbon ST, Grossman AR, & Jonikas MC.

*Equal contribution

The Plant Cell. (2016) 28: 367-87.

PMID: 26764374

Critical role of Chlamydomonas reinhardtii ferredoxin-5 in maintaining membrane structure and dark metabolism.

*Yang W, *Wittkopp TM, Li X, Warakanont J, Dubini A, Catalanotti C, Kim RG, Nowack EC, Mackinder LC, Aksoy M, Page MD, D'Adamo S, Saroussi S, Heinnickel M, Johnson X, Richaud P, Alric J, Boehm M, Jonikas MC, Benning C, Merchant SS, Posewitz MC, & Grossman AR.

*Equal contribution

Proceedings of the National Academy of Sciences U S A (2015) 112:14978-83.

PMID: 26627249

Introducing an algal carbon-concentrating mechanism into higher plants: location and incorporation of key components.

Atkinson N, Feike D, Mackinder LC, Meyer MT, Griffiths H, Jonikas MC, Smith AM, & McCormick AJ.

Plant Biotechnology Journal (2015) 14:1302-1315

PMID: 26538195

Molecular techniques to interrogate and edit the Chlamydomonas nuclear genome.

Jinkerson RE & Jonikas MC.
The Plant Journal (2015) 82: 393–412.

PMID: 25704665

A fluorescence-activated cell sorting-based strategy for rapid isolation of high-lipid Chlamydomonas mutants.

Terashima M, Freeman ES, Jinkerson RE, & Jonikas MC.
The Plant Journal (2015) 81: 147-59.

PMCID: PMC4280329

Ion antiport accelerates photosynthetic acclimation in fluctuating light environments.

Armbruster U, Carrillo LR, Venema K, Pavlovic L, Schmidtmann E, Kornfeld A, Jahns P, Berry JA, Kramer DM, & Jonikas MC.

Nature Communications (2014) 5: 5439.

PMCID: PMC4243252

Alternative Acetate Production Pathways in Chlamydomonas reinhardtii during Dark Anoxia and the Dominant Role of Chloroplasts in Fermentative Acetate Production.

Yang W, Catalanotti C, D'Adamo S, Wittkopp TM, Ingram-Smith CJ, Mackinder L, Miller TE, Heuberger AL, Peers G, Smith KS, Jonikas MC, Grossman AR, & Posewitz MC.

The Plant Cell (2014) 26: 4499-4518.

PMCID: PMC4277214

Waking sleeping algal cells.

Li X, Umen JG, & Jonikas MC.

Proceedings of the National Academy of Sciences U S A (2014) 111: 15610-15611.
PMCID: PMC4226088

Actin is required for IFT regulation in Chlamydomonas reinhardtii.

Avasthi P, Onishi M, Karpiak J, Yamamoto R, Mackinder L, Jonikas MC, Sale WS, Shoichet B, Pringle JR, & Marshall WF.

Current Biology. (2014) 24: 2025-2032.
PMCID: PMC4160380

High-Throughput Genotyping of Green Algal Mutants Reveals Random Distribution of Mutagenic Insertion Sites and Endonucleolytic Cleavage of Transforming DNA.

*Zhang R, *Patena W, Armbruster U, Gang SS, Blum SR, & Jonikas MC.

*Equal contribution

The Plant Cell (2014) 26: 1398-1409.

PMCID: PMC4036561

Martin's previous work:

The ER membrane protein complex interacts cotranslationally to enable biogenesis of multipass membrane proteins.

*Shurtleff MJ, *Itzhak DN, Hussmann JA, Schirle Oakdale NT, Costa EA, Jonikas M, Weibezahn J, Popova KD, Jan CH, Sinitcyn P, Vembar SS, Hernandez H, Cox J, Burlingame AL, Brodsky JL, Frost A, Borner GH, & Weissman JS.

*Equal contribution

eLife (2018) doi: 10.7554/eLife.37018.

PMID: 29809151