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Protocol for precision editing of endogenous Chlamydomonas reinhardtii genes with CRISPR-Cas

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Utilizing codon degeneracy in the design of donor DNA for CRISPR /Cas9‐mediated gene editing to streamline the screening process for single amino acid mutations

Li, X., Zhang, Y., Wen, X., & Pan, J. (2024) · The Plant Journal · doi:10.1111/tpj.16903 · Cited by 9 · see citing works

Revised annotation and extended characterizations of components of the Chlamydomonas reinhardtii SUMOylation system

Lin, Y., Chung, C., Huang, P., Chen, C., & Fang, S. (2020) · Plant Direct · doi:10.1002/pld3.266 · Cited by 9 · see citing works

Cas9 ribonucleoproteins and single-strand oligodeoxynucleotides enable targeted insertional mutagenesis in Ulva

Ichihara, K., Yamazaki, T., & Kawano, S. (2024) · Algal Research · doi:10.1016/j.algal.2024.103598 · Cited by 8 · see citing works

Efficient DNA-free co-targeting of nuclear genes in Chlamydomonas reinhardtii

Battarra, C., Angstenberger, M., Bassi, R., & Dall’Osto, L. (2024) · Biology Direct · doi:10.1186/s13062-024-00545-3 · Cited by 8 · see citing works

High‐throughput identification of novel heat tolerance genes via genome‐wide pooled mutant screens in the model green alga Chlamydomonas reinhardtii

Mattoon, E. M., McHargue, W., Bailey, C. E., Zhang, N., Chen, C., Eckhardt, J., Daum, C. G., Zane, M., Pennacchio, C., Schmutz, J., et al. (2022) · Plant Cell & Environment · doi:10.1111/pce.14507 · Cited by 8 · see citing works

Direct in situ protein tagging in Chlamydomonas reinhardtii utilizing TIM, a method for CRISPR/Cas9-based targeted insertional mutagenesis

Hou, Y., Cheng, X., & Witman, G. B. (2022) · PLoS ONE · doi:10.1371/journal.pone.0278972 · Cited by 8 · see citing works

A cyclical marker system enables indefinite series of oligonucleotide-directed gene editing in Chlamydomonas reinhardtii

Ross, I. L., Le, H. P., Budiman, S., Xiong, D., Hemker, F., Millen, E. A., Oey, M., & Hankamer, B. D. (2024) · PLANT PHYSIOLOGY · doi:10.1093/plphys/kiae427 · Cited by 8 · see citing works

Engineering microalgae for robust glycolate biosynthesis: Targeted knockout of hydroxypyruvate reductase 1 combined with optimized culture conditions enhance glycolate production in Chlamydomonas reinhardtii

Yan, S., Hou, Y., Cui, M., Cheng, T., Lu, S., Liu, Z., Deng, B., Liu, W., Shi, M., Lin, L., et al. (2024) · Bioresource Technology · doi:10.1016/j.biortech.2024.131372 · Cited by 8 · see citing works

Application of CRISPR/Cas9 gene editing system in microalgal metabolic engineering and synthetic strategies of functional food ingredients

Zhiwei, 蒲. P., Wang, X., Chen, Y.-L., Li, J., He, X., Chen, W., & Zhao, C. C. (2026) · Biotechnology Advances · doi:10.1016/j.biotechadv.2026.108796 · Cited by 6 · see citing works

Transgenesis in microalga Chlamydomonas reinhardtii: current approaches

Virolainen, P. A., & Chekunova, E. M. (2024) · Ecological genetics · doi:10.17816/ecogen624418 · Cited by 6 · see citing works

Genetic transformation of Chlamydomonas nuclear, chloroplast, and mitochondrial genomes

Weeks, D. P. (2023) · Elsevier eBooks · doi:10.1016/b978-0-12-822457-1.00018-2 · Cited by 6 · see citing works

Consolidating Ulva functional genomics: gene editing and new selection systems

Blomme, J., Ribera, J. A., Clerck, O. D., & Jacobs, T. B. (2025) · New Phytologist · doi:10.1111/nph.70068 · Cited by 5 · see citing works

Genome editing approaches applied to microalgae-based fuels

Liu, K., Chen, R., Yang, R., Chen, Y. H., Zhu, C., Tang, Y. Z., & Kong, F. (2022) · Elsevier eBooks · doi:10.1016/b978-0-323-90971-6.00013-9 · Cited by 4 · see citing works

A Rapid and Reversible Molecular “Switch” Regulating Protein Expression in Chlamydomonas reinhardtii

Li, X., Wang, S., Li, Q., Li, X., Lin, S., Zhao, W., Liu, Y., Wu, B., Huang, Y., Jia, B., et al. (2025) · Plant Cell & Environment · doi:10.1111/pce.15360 · Cited by 4 · see citing works

CRISPR-Cas Technology Turns Chlamydomonas reinhardtii into a Flagship for Algal Biotechnology

Antonacci, A., Masi, A., Vedi, V., Colella, S., Musella, F., Fiorentino, G., & Scognamiglio, V. (2025) · Marine Drugs · doi:10.3390/md24010001 · Cited by 3 · see citing works

Cilia and transcription: a mini review

Brown, J. (2025) · Frontiers in Cell and Developmental Biology · doi:10.3389/fcell.2025.1582796 · Cited by 3 · see citing works

A quick-to-implement and optimized CRISPR-Cas9 protocol to obtain insertional and small indel mutants in Chlamydomonas reinhardtii

Silvio, M. A. D., Sánchez‐Retuerta, C., Ruiz‐Sola, M. Á., Baidukova, O., & Monte, E. (2025) · MethodsX · doi:10.1016/j.mex.2025.103416 · Cited by 3 · see citing works

Reverse genetics

Baidukova, O., Kelterborn, S., Sizova, I. A., & Hegemann, P. (2023) · Elsevier eBooks · doi:10.1016/b978-0-12-822457-1.00011-x · Cited by 3 · see citing works

Generation, storage, and utilizations of mutant libraries

Wang, Y., Yang, Y., & Li, X. (2023) · Elsevier eBooks · doi:10.1016/b978-0-12-822457-1.00008-x · Cited by 2 · see citing works

Enhancing CRISPR /Cas‐Mediated Gene Knockout With Short Non‐Homologous Oligonucleotides

Chew, Y. P., Ferenczi, Á., Dannay, M., Ponce‐Lilly, C., Kovac, A., Tóth, D., Tóth, S. Z., & Molnár, A. (2026) · Plant Biotechnology Journal · doi:10.1111/pbi.70548 · Cited by 2 · see citing works

Optimization of CRISPR/Cas9 method for transgenesis of model microalgae Chlamydomonas reinhardtii

Virolainen, P. A., & Chekunova, E. M. (2022) · Ecological genetics · doi:10.17816/ecogen112332 · Cited by 2 · see citing works

Genetic control of cilia length in Chlamydomonas

Lefebvre, P. A. (2023) · Elsevier eBooks · doi:10.1016/b978-0-12-822508-0.00006-x · Cited by 2 · see citing works

Tubulin acetylation deficiency promotes axonemal turnover and increases cytoplasmic microtubules

Kubo, T., Tajima-Shirasaki, N., Sasaki, R., Oda, T., & Onishi, M. (2026) · Molecular Biology of the Cell · doi:10.1091/mbc.e26-01-0058 · Cited by 1 · see citing works

Integration of algae-based carbon capture with major carbon emission systems

Akbar, I., Tahir, F., Haider, M. N., & Boopathy, R. (2025) · Elsevier eBooks · doi:10.1016/b978-0-443-34063-5.00002-7 · Cited by 1 · see citing works

Structure and function of FAP47 in the central pair apparatus of Chlamydomonas flagella

Tani, Y., Yanagisawa, H., Yagi, T., & Kikkawa, M. (2024) · Cytoskeleton · doi:10.1002/cm.21882 · Cited by 1 · see citing works

Two CENH3 paralogs in the green alga Chlamydomonas reinhardtii have a redundantly essential function and associate with ZeppL ‐ LINE1 elements

Liu, D., Wang, M., Gent, J. I., Sun, P., Dawe, R. K., & Umen, J. (2025) · The Plant Journal · doi:10.1111/tpj.70153 · Cited by 1 · see citing works

Two stones, one bird: co-targeting facilitates precise gene editing of non-selectable genes in Chlamydomonas

Tulin, F. (2021) · PLANT PHYSIOLOGY · doi:10.1093/plphys/kiab515 · Cited by 1 · see citing works

Efficient precision genome editing of Chlamydomonas reinhardtii with CRISPR/CasPreprint

Nievergelt, A. P., Diener, D. R., Bogdanova, A. I., & Pigino, G. (2022) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2022.07.24.501283 · Cited by 1 · see citing works

Distinct roles of α- and β-tubulin C-terminal tails for ciliary function as revealed by a CRISPR/Cas9 mediated gene editing in ChlamydomonasPreprint

Kubo, T., Tani, Y., Yanagisawa, H., Kikkawa, M., & Oda, T. (2023) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2023.02.14.528553 · Cited by 1 · see citing works

Studies of CrHCF244 reveal similarities and differences in psbA translation between Chlamydomonas reinhardtii and Arabidopsis thalianaPreprint

Wang, X., Wang, G., Cheramie, L. A., Zhao, C., Dassanayake, M., Moroney, J. V., & Vinyard, D. J. (2024) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2024.05.30.596694 · Cited by 1 · see citing works

RAB18 Orchestrates Signaling Protein Ciliary Homeostasis by Facilitating BBSome Diffusion through the Transition Zone for Ciliary EntryPreprint

Sun, W.-Y., Zhang, J., Yan, W., Zhao, L. S., & Fan, Z. (2025) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2025.02.04.636545 · Cited by 1 · see citing works

Puromycin is incorporated into regenerating flagella of Chlamydomonas reinhardtii as an indicator of nascent flagellar proteinsPreprint

Kubo, T., Kanou, N., & Oda, T. (2022) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2022.01.27.478094

Methods for the localization of cellular components in Chlamydomonas

Silflow, C. D., Mackinder, L. C. M., & Wingfield, J. L. (2023) · Elsevier eBooks · doi:10.1016/b978-0-12-822457-1.00003-0

RAB23 Modulates Signaling Protein Ciliary Homeostasis through Promoting RAB18-mediated Inward BBSome Transition Zone PassagePreprint

Sun, S., Sun, W.-J., Yan, W., & Fan, Z. (2025) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2025.02.20.639385

The HIGH CHLOROPHYLL FLUORESCENCE 244 homolog CrHCF244 is required for psbA (D1) translation in Chlamydomonas reinhardtii

Wang, X., Wang, G., Cheramie, L. A., Zhao, C., Dassanayake, M., Moroney, J. V., & Vinyard, D. J. (2025) · Journal of Experimental Botany · doi:10.1093/jxb/eraf362

Engineering Algal Strains for Enhanced Performance

Kumari, R., Patel, V., Kumari, P., & Kajla, S. (2025) · Springer eBooks · doi:10.1007/978-981-96-8054-2_3

Activation of the ciliary kinase CDKL5 is mediated by the cyclin-dependent kinase CDK20/LF2 to control flagellar length

Hou, Y., Omi, O. A., Stuck, M. W., Cheng, X., Walker, B., Lam, Y., Schmoker, A. M., Nguyen, S., Gonzalez-Perez, M. P., Ballif, B. A., et al. (2025) · PLoS Biology · doi:10.1371/journal.pbio.3003560

Ion transport across thylakoid membranes in Chlamydomonas reinhardtii

Azevedo, M. R. (2023) · doi:10.70675/37e02d6fz1a14z4955z9198zd588ecd4c87f

Advances in breeding and genetic engineering in micro- and macro-algae

Saeger, J. D. (2026) · Elsevier eBooks · doi:10.1016/b978-0-443-33492-4.01002-0

The RUS1 (ROOT UVB SENSITIVE 1) Protein Is Required for Cold Resistance in Chlamydomonas reinhardtii

Wang, Y., Cao, D., Guo, K., You, T., Yang, P., & Li, X. (2026) · Cells · doi:10.3390/cells15080670

Application of the CRISPR/Cas9 vector pKSE401 for knockout of the PSY1 gene in the green alga Chlamydomonas reinhardtii: a brief report on initial results

Virolainen, P. A., Nerezenko, A. M., & Chekunova, E. M. (2026) · Ecological genetics · doi:10.17816/ecogen695662

Tubulin monoglutamylation is sufficient to rescue the ciliary motility defects in a Chlamydomonas polyglutamylation deficient mutant

Sasaki, R., Oda, T., & Kubo, T. (2026) · Frontiers in Cell and Developmental Biology · doi:10.3389/fcell.2026.1857091

Microalgal Synthetic Biotechnology: From Genetic Models to Deployable Photosynthetic Chassis

Liu, J. (2026) · Research · doi:10.34133/research.1449

CRISPR‐Cas Tools for Dissecting and Engineering Environmental Responses in Microalgae

Zhao, W., Li, X., Hu, Z., & Wang, S. (2026) · Plant Cell & Environment · doi:10.1111/pce.70903

TIM, a Targeted Insertional Mutagenesis method utilizing CRISPR/Cas9 in Chlamydomonas reinhardtii v1Preprint

Picariello, T., Hou, Y., Kubo, T., McNeill, N., Yanagisawa, H., Oda, T., & Witman, G. B. (2020) · doi:10.17504/protocols.io.bdcki2uw · Cited by 1 · see citing works

Efficient precision editing of endogenous Chlamydomonas reinhardtii genes with CRISPR-Cas

Nievergelt, A. P., Diener, D. R., Bogdanova, A. I., Brown, T., & Pigino, G. (2023) · Cell Reports Methods · doi:10.1016/j.crmeth.2023.100562 · Cited by 29 · see citing works

Direct in situ protein tagging in Chlamydomonas reinhardtii utilizing TIM, a method for CRISPR/Cas9-based targeted insertional mutagenesis

Hou, Y., Cheng, X., & Witman, G. B. (2022) · PLoS ONE · doi:10.1371/journal.pone.0278972 · Cited by 8 · see citing works

Optimization of CRISPR/Cas9 method for transgenesis of model microalgae Chlamydomonas reinhardtii

Virolainen, P. A., & Chekunova, E. M. (2022) · Ecological genetics · doi:10.17816/ecogen112332 · Cited by 2 · see citing works

A quick-to-implement and optimized CRISPR-Cas9 protocol to obtain insertional and small indel mutants in Chlamydomonas reinhardtii

Silvio, M. A. D., Sánchez‐Retuerta, C., Ruiz‐Sola, M. Á., Baidukova, O., & Monte, E. (2025) · MethodsX · doi:10.1016/j.mex.2025.103416 · Cited by 3 · see citing works