Publications

Guillermo Nevot, Javier Santos‐Moreno, Nil Campamà Sanz, Lorena Toloza, Cristóbal Parra-Cid, Patrick A. M. Jansen, Içvara Barbier, Rodrigo Ledesma-Amaro, Ellen H. Van Den Bogaard, Marc Güell (2025). Synthetically programmed antioxidant delivery by a domesticated skin commensal. Cell Systems.

Rima Gnaim, Rodrigo Ledesma-Amaro (2025). Synthetic biology of Fusarium for the sustainable production of valuable bioproducts. Biotechnology Advances.

Houcong Chen, Jian‐Guo Jiang, Rodrigo Ledesma-Amaro (2025). Microalgae-based vaccines for aquaculture. Trends in biotechnology.

Tingan Zhou, Young-Kyoung Park, Jing Fu, Piotr Hapeta, Cinzia Klemm, Rodrigo Ledesma-Amaro (2025). Metabolic engineering of Yarrowia lipolytica for the production and secretion of the saffron ingredient crocetin. Biotechnology for Biofuels and Bioproducts.

Xiaochun Zheng, Yajun Li, Chun‐Tao Che, Qidou Gao, Xue Wang, Rodrigo Ledesma-Amaro, Zi Wei Luo, Xin Lü, Y. Wang, Xiaobing Yang (2025). Metabolic Engineering of Rhodotorula toruloides for the Production of Linalool. Journal of Agricultural and Food Chemistry.

Harman Mehta, José I. Jiménez, Rodrigo Ledesma-Amaro, Guy‐Bart Stan (2025). Investigating The Potential of Division of Labour in Synthetic Bacterial Communities for the Production of Violacein. bioRxiv (Cold Spring Harbor Laboratory).

Wei Jiang, William Newell, Jingjing Liu, Lucas Coppens, Khushboo Borah, Huadong Peng, David Bell, Long Liu, Victoria S. Haritos, Rodrigo Ledesma-Amaro (2025). Insights into the methanol utilization capacity of Y. lipolytica and improvements through metabolic engineering. Metabolic Engineering.

Rima Gnaim, Paul S. Dyer, Rodrigo Ledesma-Amaro (2025). Fusarium-based mycoprotein: Advancements in the production of sustainable meat substitutes. Trends in Food Science & Technology.

Lichao Dong, Wu Yanyan, Mingxia Li, Chan Zhang, Jialu Cao, Rodrigo Ledesma-Amaro, Weiwei Zhao, Dingrong Kang (2025). Exploring the Fermentation Potential of Kluyveromyces marxianus NS127 for Single-Cell Protein Production. Fermentation.

Mei-Li Sun, Yun Xu, Lu Lin, Jian Gao, Rodrigo Ledesma-Amaro, Kaifeng Wang, Xiao‐Jun Ji (2025). Enhancing Precursor Supply and Engineering Efflux Systems to Improve Abscisic Acid Production and Secretion in Yarrowia lipolytica. Journal of Agricultural and Food Chemistry.

Xin Wang, Mei-Li Sun, Lu Lin, Rodrigo Ledesma-Amaro, Kaifeng Wang, Xiao‐Jun Ji (2025). Engineering strategies for producing medium-long chain dicarboxylic acids in oleaginous yeasts. Bioresource Technology.

Manman Sun, Yimeng Zhao, Xiong Gao, Xiuxia Liu, Rodrigo Ledesma-Amaro, Zhonghu Bai, Peng Wang (2025). Engineered Membraneless Organelles in Corynebacterium Glutamicum For Enhanced Indigoidine Biosynthesis and Antimicrobial Peptide Production. **.

Young-Kyoung Park, Lucie Studená, Piotr Hapeta, Ramdane Haddouche, David Bell, Pablo Torres-Montero, José L. Martínez, Jean‐Marc Nicaud, A. Botes, Rodrigo Ledesma-Amaro (2025). Efficient biosynthesis of β-caryophyllene by engineered Yarrowia lipolytica. Microbial Cell Factories.

Yufan Zhou, Mei-Li Sun, Lu Lin, Rodrigo Ledesma-Amaro, Kaifeng Wang, Xiao‐Jun Ji, He Huang (2025). Dynamic regulation combined with systematic metabolic engineering for high-level palmitoleic acid accumulation in oleaginous yeast. Metabolic Engineering.

X. Xu, Xueqin Lv, Yanfeng Liu, Jianghua Li, Guocheng Du, Jian Chen, Rodrigo Ledesma-Amaro, Long Liu (2025). CRISPR/Cas13X-assisted programmable and multiplexed translation regulation for controlled biosynthesis. Nucleic Acids Research.

Wenbo Cheng, Xueyun Wang, Haitao Hu, Yang Yu, Xuemeng Yu, Weixiang Chao, Min Yu, Jianwei Ding, Yiliang Lin, Wei Zhao, Qiao Zhao, Rodrigo Ledesma-Amaro, Chao Zhong, Lu Lu, Xihan Chen, Junzhong Liu, Chen Yang, Xiang Gao (2025). Closed-loop enhancement of plant photosynthesis via biomass-derived carbon dots in biohybrids. Communications Materials.

Pin Gao, Haiqing Sun, Rodrigo Ledesma-Amaro, Esteban Marcellin, Huadong Peng (2025). Advancements and Challenges in the Bioproduction of Raspberry Ketone by Precision Fermentation. Future Foods.

Roberto Di Blasi, Jacopo Gabrielli, Kiyan Shabestary, Ioanna Ziarti, Tom Ellis, Cleo Kontoravdi, Rodrigo Ledesma-Amaro, Francesca Ceroni (2024). Understanding resource competition to achieve predictable synthetic gene expression in eukaryotes. Nature Reviews Bioengineering.

Mei-Li Sun, Ziyun Zou, Lu Lin, Rodrigo Ledesma-Amaro, Kaifeng Wang, Xiao‐Jun Ji (2024). Systematic metabolic engineering of Yarrowia lipolytica for efficient production of phytohormone abscisic acid. Synthetic and Systems Biotechnology.

W. Y. Chen, Young-Kyoung Park, Lucie Studená, David Bell, Piotr Hapeta, Jing Fu, Peter J. Nixon, Rodrigo Ledesma-Amaro (2024). Synthetic, marine, light-driven, autotroph-heterotroph co-culture system for sustainable β-caryophyllene production. Bioresource Technology.

Jing Fu, Simone Zaghen, Hongzhong Lu, Oliver Konzock, Naghmeh Poorinmohammad, A Kornberg, Rodrigo Ledesma-Amaro, Deni Košeto, Alexander Wentzel, Francesca Di Bartolomeo, Eduard J. Kerkhoven (2024). Reprogramming Yarrowia lipolytica metabolism for efficient synthesis of itaconic acid from flask to semipilot scale. Science Advances.

Kiyan Shabestary, Cinzia Klemm, Benedict Carling, James Marshall, Juline Savigny, Marko Storch, Rodrigo Ledesma-Amaro (2024). Phenotypic heterogeneity follows a growth-viability tradeoff in response to amino acid identity. Nature Communications.

Yaokang Wu, Yang Li, Yanfeng Liu, Xiang Xiu, Jiaheng Liu, Linpei Zhang, Jianghua Li, Guocheng Du, Xueqin Lv, Jian Chen, Rodrigo Ledesma-Amaro, Long Liu (2024). Multiplexed in-situ mutagenesis driven by a dCas12a-based dual-function base editor. Nucleic Acids Research.

Manman Sun, Alex Xiong Gao, Xiuxia Liu, Zhonghu Bai, Peng Wang, Rodrigo Ledesma-Amaro (2024). Microbial conversion of ethanol to high-value products: progress and challenges. Biotechnology for Biofuels and Bioproducts.

Manman Sun, Alex Xiong Gao, Li An, Rodrigo Ledesma-Amaro, Peng Wang, Wenchao Chen, Zhonghu Bai, Xiuxia Liu (2024). Hyper‐production of porcine contagious pleuropneumonia subunit vaccine proteins in Escherichia coli by developing a bicistronic T7 expression system. Biotechnology Journal.

Lu Lin, Rodrigo Ledesma-Amaro, Xiao‐Jun Ji, He Huang (2024). Harnessing oleaginous yeast to produce omega fatty acids. Trends in biotechnology.

Haitao Hu, Wenbo Cheng, Xueyun Wang, Yang Yu, Xuemeng Yu, Jianwei Ding, Yiliang Lin, Wei Zhao, Qian Zhao, Rodrigo Ledesma-Amaro, Xihan Chen, Junzhong Liu, Yang Chen, Xiang Gao (2024). Enhancing Plant Photosynthesis using Carbon Dots as Light Converter and Photosensitizer. bioRxiv (Cold Spring Harbor Laboratory).

Kaifeng Wang, Yueyue Zhou, Lizhen Cao, Lu Lin, Rodrigo Ledesma-Amaro, Xiao‐Jun Ji (2024). Engineering Yarrowia lipolytica for Sustainable Production of the Pomegranate Seed Oil-Derived Punicic Acid. Journal of Agricultural and Food Chemistry.

Kaifeng Wang, Mingxue Yin, Mei-Li Sun, Quanyu Zhao, Rodrigo Ledesma-Amaro, Xiao‐Jun Ji, Lu Lin (2024). Engineering Yarrowia lipolytica for Efficient Synthesis of Geranylgeraniol. Journal of Agricultural and Food Chemistry.

Young-Kyoung Park, Huadong Peng, Piotr Hapeta, Lara Sellés Vidal, Rodrigo Ledesma-Amaro (2024). Engineered cross-feeding creates inter- and intra-species synthetic yeast communities with enhanced bioproduction. Nature Communications.

Razieh Rafieenia, Cinzia Klemm, Piotr Hapeta, Jing Fu, M. García, Rodrigo Ledesma-Amaro (2024). Designing synthetic microbial communities with the capacity to upcycle fermentation byproducts to increase production yields. Trends in biotechnology.

Jorge Hernández‐García, Antonio Serrano-Mislata, María Lozano-Quiles, Cristina Úrbez, María A. Nohales, Noel Blanco‐Touriñán, Huadong Peng, Rodrigo Ledesma-Amaro, Miguel Á. Blázquez (2024). DELLA proteins recruit the Mediator complex subunit MED15 to coactivate transcription in land plants. Proceedings of the National Academy of Sciences.

Wenwen Yu, Ke Jin, Dandan Wang, Nan‐Kai Wang, Yangyang Li, Yanfeng Liu, Jianghua Li, Guocheng Du, Xueqin Lv, Jian Chen, Rodrigo Ledesma-Amaro, Long Liu (2024). De novo engineering of programmable and multi-functional biomolecular condensates for controlled biosynthesis. Nature Communications.

Mei-Li Sun, Yuting Han, Xiao Yu, Kaifeng Wang, Lu Lin, Rodrigo Ledesma-Amaro, Xiao‐Jun Ji (2024). Constructing a green oleaginous yeast cell factory for sustainable production of the plant-derived diterpenoid sclareol. Green Chemistry.

Huadong Peng, Alexander P. S. Darlington, Eric J. South, Hao‐Hong Chen, Wei Jiang, Rodrigo Ledesma-Amaro (2024). A molecular toolkit of cross-feeding strains for engineering synthetic yeast communities. Nature Microbiology.

Ophelia S. Venturelli, Harris H. Wang, Sylvie Estrela, Kerwyn Casey Huang, Rodrigo Ledesma-Amaro, Alex J. H. Fedorec, Bärbel Stecher, Christopher E. Lawson, Amir Zarrinpar, Chun‐Jun Guo, Orkun S. Soyer (2023). What is the key challenge in engineering microbiomes?. Cell Systems.

Lucas Coppens, Tanya Tschirhart, Dagmar H. Leary, Sophie M. Colston, Jaimee R. Compton, William Judson Hervey, Karl L Dana, Gary J. Vora, Sergio Bordel, Rodrigo Ledesma-Amaro (2023). Vibrio natriegens genome‐scale modeling reveals insights into halophilic adaptations and resource allocation. Molecular Systems Biology.

Alicia E. Graham, Rodrigo Ledesma-Amaro (2023). The microbial food revolution. Nature Communications.

Javad Aminian-Dehkordi, Shadi Rahimi, Mehdi Golzar-Ahmadi, Amritpal Singh, Javiera López, Rodrigo Ledesma-Amaro, Ivan Mijaković (2023). Synthetic biology tools for environmental protection. Biotechnology Advances.

Patrycja Szczepańska, Magdalena Rychlicka, Sylwia Groborz, Angelika Kruszyńska, Rodrigo Ledesma-Amaro, Andrzej Rapak, Anna Gliszczyńska, Zbigniew Lazar (2023). Studies on the Anticancer and Antioxidant Activities of Resveratrol and Long-Chain Fatty Acid Esters. International Journal of Molecular Sciences.

Simran Kaur Aulakh, Lara Sellés Vidal, Eric J. South, Huadong Peng, Sreejith J. Varma, Lucía Herrera-Domínguez, Markus Ralser, Rodrigo Ledesma-Amaro (2023). Spontaneously established syntrophic yeast communities improve bioproduction. Nature Chemical Biology.

Jinpeng Wang, Xiao Yu, Kaifeng Wang, Lu Lin, Huhu Liu, Rodrigo Ledesma-Amaro, Xiao‐Jun Ji (2023). Reprogramming the fatty acid metabolism of Yarrowia lipolytica to produce the customized omega-6 polyunsaturated fatty acids. Bioresource Technology.

X. Xu, Xueqin Lv, Shixiu Cui, Yanfeng Liu, Hongzhi Xia, Jianghua Li, Guocheng Du, Zhaofeng Li, Rodrigo Ledesma-Amaro, Jian Chen, Long Liu (2023). Remodeling Isoprene Pyrophosphate Metabolism for Promoting Terpenoids Bioproduction. Engineering.

Shirin Bamezai, Giovanni Maresca di Serracapriola, Freya Morris, Rasmus Hildebrandt, Marc Augustine Sojerido Amil, Rodrigo Ledesma-Amaro (2023). Protein engineering in the computational age: An open source framework for exploring mutational landscapes in silico. Engineering Biology.

Ting Zhang, Qingdong Zeng, Fan Ji, Honghong Wu, Rodrigo Ledesma-Amaro, Qingshan Wei, Hao Yang, Xuhan Xia, Yao Ren, Keqing Mu, Qiang He, Zhensheng Kang, Ruijie Deng (2023). Precise in-field molecular diagnostics of crop diseases by smartphone-based mutation-resolved pathogenic RNA analysis. Nature Communications.

Huadong Peng, Ruiqi Chen, W. M. Shaw, Piotr Hapeta, Wei Jiang, David Bell, Tom Ellis, Rodrigo Ledesma-Amaro (2023). Modular Metabolic Engineering and Synthetic Coculture Strategies for the Production of Aromatic Compounds in Yeast. ACS Synthetic Biology.

Avinash Alagumalai, D. Balaji, Hua Song, Somchai Wongwises, Rodrigo Ledesma-Amaro, Omid Mahian, Mikhail А. Sheremet, Éric Lichtfouse (2023). Machine learning in biohydrogen production: a review. Biofuel Research Journal.

Xiuxia Liu, Manman Sun, Alex Xiong Gao, Rodrigo Ledesma-Amaro, Qiuwu Fang, Yankun Yang, Zhonghu Bai (2023). Leaderless Bicistronic Design for Precise and Reliable Control of Gene Expression in Corynebacterium Glutamicum. ACS Synthetic Biology.

Manman Sun, Xiong Gao, An Li, Rodrigo Ledesma-Amaro, Zhonghu Bai, Yankun Yang, Xiuxia Liu (2023). Hyper-production of porcine contagious pleuropneumonia subunit vaccine proteins in Escherichia coli by developing a bicistronic T7 expression system. Authorea (Authorea).

Alice Boo, Harman Mehta, Rodrigo Ledesma-Amaro, Guy‐Bart Stan (2023). Host-aware RNA-based control of microbial consortia. Zenodo (CERN European Organization for Nuclear Research).

Li Sun, Quanwei Zhang, Xiao Kong, Yanfeng Liu, Jianghua Li, Guocheng Du, Xueqin Lv, Rodrigo Ledesma-Amaro, Jian Chen, Long Liu (2023). Highly efficient neutralizer-free l-malic acid production using engineered Saccharomyces cerevisiae. Bioresource Technology.

Manman Sun, Alex Xiong Gao, Xiuxia Liu, Yankun Yang, Rodrigo Ledesma-Amaro, Zhonghu Bai (2023). High-throughput process development from gene cloning to protein production. Microbial Cell Factories.

Qian Cui, Yongjie Zhong, Wenkai Shang, Fuming Deng, Buhua Wang, Jia‐Jia Wu, Peng Wang, Liudang Wan, Keling Wang, Lingchen Fang, Rui Dai, Han Zhang, Rodrigo Ledesma-Amaro, Yunuo Zhang, Jiao‐Mei Huang (2023). Fluorescent Probe Combined with Photoelectric Analysis Technology for Detection of Escherichia coli. Biosensors.

Alicia Climent-Catala, Iván Casas‐Rodrigo, Suhasini Iyer, Rodrigo Ledesma-Amaro, Thomas E. Ouldridge (2023). Evaluating DFHBI-Responsive RNA Light-Up Aptamers as Fluorescent Reporters for Gene Expression. ACS Synthetic Biology.

Xinyu Bi, Yang Cheng, Xianhao Xu, Xueqin Lv, Yanfeng Liu, Jianghua Li, Guocheng Du, Jian Chen, Rodrigo Ledesma-Amaro, Long Liu (2023). etiBsu1209: A comprehensive multiscale metabolic model for Bacillus subtilis. Biotechnology and Bioengineering.

Hyunbin Jin, Sojeong Kim, Daeyeol Lee, Rodrigo Ledesma-Amaro, Ji‐Sook Hahn (2023). Efficient production of mycosporine-like amino acids, natural sunscreens, in Yarrowia lipolytica. Biotechnology for Biofuels and Bioproducts.

Yaokang Wu, Yang Li, Ke Jin, Linpei Zhang, Jianghua Li, Yanfeng Liu, Guocheng Du, Xueqin Lv, Jian Chen, Rodrigo Ledesma-Amaro, Long Liu (2023). CRISPR–dCas12a-mediated genetic circuit cascades for multiplexed pathway optimization. Nature Chemical Biology.

Hao Yang, Rodrigo Ledesma-Amaro, Hong Gao, Yao Ren, Ruijie Deng (2023). CRISPR-based biosensors for pathogenic biosafety. Biosensors and Bioelectronics.

Kaifeng Wang, Lu Lin, Ping Wei, Rodrigo Ledesma-Amaro, Xiao‐Jun Ji (2023). Combining orthogonal plant and non-plant fatty acid biosynthesis pathways for efficient production of microbial oil enriched in nervonic acid in Yarrowia lipolytica. Bioresource Technology.

Wenjuan Li, Jie Mai, Lu Lin, Zhigang Zhang, Rodrigo Ledesma-Amaro, Weiliang Dong, Xiao‐Jun Ji (2023). Combination of microbial and chemical synthesis for the sustainable production of β‐elemene, a promising plant‐extracted anticancer compound. Biotechnology and Bioengineering.

Tao Sun, Yizi Yu, Lexin Wang, Yichun Qi, Tian Xu, Zhe Wang, Lu Lin, Rodrigo Ledesma-Amaro, Xiao‐Jun Ji (2023). Combination of a Push–Pull–Block Strategy with a Heterologous Xylose Assimilation Pathway toward Lipid Overproduction from Lignocellulose in Yarrowia lipolytica. ACS Synthetic Biology.

Xueqin Lv, Shixiu Cui, Jie Chen, Lingling Wang, Yanfeng Liu, Jianghua Li, Guocheng Du, Xiaohao Liu, Jian Chen, Rodrigo Ledesma-Amaro, Long Liu (2023). Cascaded de novo biosynthesis of lacto-proteins from CO2 by engineered Pichia pastoris. Green Chemistry.

Mei-Li Sun, Xiaoxia Gao, Lu Lin, Jing Yang, Rodrigo Ledesma-Amaro, Xiao‐Jun Ji (2023). Building Yarrowia lipolytica Cell Factories for Advanced Biomanufacturing: Challenges and Solutions. Journal of Agricultural and Food Chemistry.

Shahin Amiri, Setare Adibzadeh, Samaneh Ghanbari, Behnaz Rahmani, Mohammad Kheirandish, Aref Farokhi‐Fard, Mansoureh Shahbazi Dastjerdeh, Fatemeh Davami, Heba Sayed Mostafa, Marwa Mahmoud Hashem, N. Qin, Lingyun Li, Zheng Wang, Shuobo Shi, Toehold, Synthe Biology, Sai, Sumanjali Yarra, Ganapathy Ashok, Utpal Mohan, Taylor Brown, Sara Alharbi, Karen J. Ho, Bin Jiang, Maja Papež, Jiménez Lancho, Peter Eisenhut, Krishna Motheramgari, Nicole Borth, Christoph Keysberg, Helga Schneider, Kerstin Otte, Hannah S. Zurier, Julie Goddard, Kaifeng Wang, Wenyang Zhao, Lu Lin, Tianjing Wang, Ping Wei, Rodrigo Ledesma-Amaro, Aihui Zhang, Xiao‐Jun Ji, Xu Wang, Jin Ma, Pengwei Li, Xiao-Man Huang, He Sun, Matthias Knödler, Patrick Opdensteinen, Ramya Ambur Sankaranarayanan, Agnieszka Morgenroth, Eva Miriam Buhl, Felix M. Mottaghy, Johannes F. Buyel, Patrick G. Negulescu, Derrick Risner, Edward S. Spang, Daniel Sumner, David E. Block, Somen Nandi, Karen A. McDonald, Young Lyun Oh, M. R. Becker, Kerri M. Mendola, Leila H. Choe, Kelvin H. Lee, Yinges Yigzaw, Alexander Seay, Jerome Bill, Xuanwen Li, David J. Roush, Steven M. Cramer, Stefano Menegatti, Abraham M. Lenhoff, Yanying Yu, Bingxue Gong, Huili Wang, Guixia Yang, Xianxuan Zhou, Kentaro Inokuma, Shunya Miyamoto, Kohei Morinaga, Yuma Kobayashi, Ryota Kumokita, Takahiro Bamba, Yoichiro Ito, Akihiko Kondo, Tomohisa Hasunuma (2023). Biotechnology and Bioengineering: Volume 120, Number 4, April 2023. Biotechnology and Bioengineering.

Pei Liu, Yangmin Gong, Chen Yang, Rodrigo Ledesma-Amaro, Young-Kyoung Park, Shiyu Deng, Yuliang Wang, Wei H, Wenchao Chen (2023). Biorefining of rapeseed meal: A new and sustainable strategy for improving Cr(VI) biosorption on residual wastes from agricultural byproducts after phenolic extraction. Waste Management.

Scott Bottoms, Christina Mürk, Huadong Peng, Rodrigo Ledesma-Amaro, Mart Loog (2023). Bioconversion of Glucose-Rich Lignocellulosic Wood Hydrolysates to 3-Hydroxypropionic Acid and Succinic Acid using EngineeredSaccharomyces cerevisiae. bioRxiv (Cold Spring Harbor Laboratory).

Lara Sellés Vidal, Mark Isalan, John Heap, Rodrigo Ledesma-Amaro (2023). A primer to directed evolution: current methodologies and future directions. RSC Chemical Biology.

Tigran v. Yuzbashev, Evgeniya Y. Yuzbasheva, O. E. Melkina, Davina Patel, Д. М. Бубнов, Heiko Dietz, Rodrigo Ledesma-Amaro (2023). A DNA assembly toolkit to unlock the CRISPR/Cas9 potential for metabolic engineering. Communications Biology.

Young-Kyoung Park, Rodrigo Ledesma-Amaro (2022). What makes Yarrowia lipolytica well suited for industry?. Trends in biotechnology.

Cecilia Geijer, Rodrigo Ledesma-Amaro, Elia Tomás‐Pejó (2022). Unraveling the potential of non-conventional yeasts in biotechnology. FEMS Yeast Research.

Joshua M. Lawrence, Yutong Yin, Paolo Bombelli, Alberto Scarampi, Marko Storch, Laura T. Wey, Alicia Climent-Catala, Geoff Baldwin, Danny O’Hare, Christopher J. Howe, Jenny Zhang, Thomas E. Ouldridge, Rodrigo Ledesma-Amaro (2022). Synthetic biology and bioelectrochemical tools for electrogenetic system engineering. Science Advances.

Eliza Atkinson, Zoltán A. Tuza, Giansimone Perrino, Guy‐Bart Stan, Rodrigo Ledesma-Amaro (2022). Resource-aware whole-cell model of division of labour in a microbial consortium for complex-substrate degradation. Microbial Cell Factories.

Yunhao Lu, Feng Li, Jinrong Bai, Rodrigo Ledesma-Amaro, Dayu Liu, Qiang He, Ruijie Deng (2022). Rapid screening of antimicrobial probiotics using CRISPR cascade. Biosensors and Bioelectronics.

Govindprasad Bhutada, Guillaume Ménard, Rupam Kumar Bhunia, Piotr Hapeta, Rodrigo Ledesma-Amaro, Peter J. Eastmond (2022). Production of human milk fat substitute by engineered strains of Yarrowia lipolytica. Metabolic Engineering Communications.

Eliza Atkinson, Alice Boo, Huadong Peng, Guy‐Bart Stan, Rodrigo Ledesma-Amaro (2022). Principles, Tools, and Applications of Synthetic Consortia Toward Microbiome Engineering. **.

Walid El-Sharoud, Samar A. Zalma, Leonardo Rios‐Solis, Rodrigo Ledesma-Amaro (2022). Over-expression of α-bisabolene by metabolic engineering of Yarrowia lipolytica employing a golden gate DNA assembly toolbox. Biotechnology Notes.

Xueqin Lv, Ángeles Hueso‐Gil, Xinyu Bi, Yaokang Wu, Yanfeng Liu, Long Liu, Rodrigo Ledesma-Amaro (2022). New synthetic biology tools for metabolic control. Current Opinion in Biotechnology.

Yi Wan, Chengli Zong, Xiangpeng Li, Aimin Wang, Yan Li, Tao Yang, Qing Bao, Michael S. DuBow, Mingying Yang, Rodrigo Ledesma-Amaro, Chuanbin Mao (2022). New Insights for Biosensing: Lessons from Microbial Defense Systems. Chemical Reviews.

Yizi Yu, Yufan Zhou, Kaifeng Wang, Tao Sun, Lu Lin, Rodrigo Ledesma-Amaro, Xiao‐Jun Ji (2022). Metabolic and Process Engineering for Producing the Peach-Like Aroma Compound γ-Decalactone in Yarrowia lipolytica. Journal of Agricultural and Food Chemistry.

W. M. Shaw, Lucie Studená, Kyler Roy, Piotr Hapeta, Nicholas S. McCarty, Alicia E. Graham, Tom Ellis, Rodrigo Ledesma-Amaro (2022). Inducible expression of large gRNA arrays for multiplexed CRISPRai applications. Nature Communications.

Manman Sun, Alex Xiong Gao, Rodrigo Ledesma-Amaro, An Li, Rongbing Wang, Jianqi Nie, Zheng Pei, Yankun Yang, Zhonghu Bai, Xiuxia Liu (2022). Hypersecretion of OmlA antigen in Corynebacterium glutamicum through high-throughput based development process. Applied Microbiology and Biotechnology.

Zhiqiang Wen, Zhenxiang Tu, Naief Al Makishah, Dahui Fang, Rodrigo Ledesma-Amaro, Jianguo Zhu, Qi Li, Yanan Li, Mingjie Jin (2022). Genetic Manipulation of a Twin Clostridia Consortium for Co-production of n-Butanol and Isobutanol by Consolidated Bioprocessing. ACS Sustainable Chemistry & Engineering.

Kaifeng Wang, Tian‐Qiong Shi, Lu Lin, Ping Wei, Rodrigo Ledesma-Amaro, Xiao‐Jun Ji (2022). Engineering Yarrowia lipolytica to Produce Tailored Chain-Length Fatty Acids and Their Derivatives. ACS Synthetic Biology.

Lizhen Cao, Mingxue Yin, Tian‐Qiong Shi, Lu Lin, Rodrigo Ledesma-Amaro, Xiao‐Jun Ji (2022). Engineering Yarrowia lipolytica to produce nutritional fatty acids: Current status and future perspectives. Synthetic and Systems Biotechnology.

Kaifeng Wang, Tian‐Qiong Shi, Jinpeng Wang, Ping Wei, Rodrigo Ledesma-Amaro, Xiao‐Jun Ji (2022). Engineering the Lipid and Fatty Acid Metabolism in Yarrowia lipolytica for Sustainable Production of High Oleic Oils. ACS Synthetic Biology.

Valerie C. A. Ward, Rodrigo Ledesma-Amaro (2022). Editorial overview: Chemical Biotechnology. Current Opinion in Biotechnology.

Razieh Rafieenia, Eliza Atkinson, Rodrigo Ledesma-Amaro (2022). Division of labor for substrate utilization in natural and synthetic microbial communities. Current Opinion in Biotechnology.

Nemailla Bonturi, Marina Julio Pinheiro, Paola Monteiro De Oliveira, Eka Rusadze, Tobias Eichinger, Gintare Liudžiūtė, Juliano Sabedotti De Biaggi, Age Brauer, Maido Remm, Everson Alves Miranda, Rodrigo Ledesma-Amaro, Petri‐Jaan Lahtvee (2022). Development of a dedicated Golden Gate Assembly Platform (RtGGA) for Rhodotorula toruloides. Metabolic Engineering Communications.

Yameng Xu, Xinglong Wang, Chenyang Zhang, Xuan Zhou, Xianhao Xu, Luyao Han, Xueqin Lv, Yanfeng Liu, Song Liu, Jianghua Li, Guocheng Du, Jian Chen, Rodrigo Ledesma-Amaro, Long Liu (2022). De novo biosynthesis of rubusoside and rebaudiosides in engineered yeasts. Nature Communications.

Di Wang, Ting Xue, Minjin Wang, Rodrigo Ledesma-Amaro, Ying Lü, Xinyue Hu, Ting Zhang, Ming Yang, Yalun Li, Xiang Jin, Ruijie Deng, Binwu Ying, Weimin Li (2022). CRISPR-Cas13a cascade-based viral RNA assay for detecting SARS-CoV-2 and its mutations in clinical samples. Sensors and Actuators B Chemical.

Meixi Ling, Yaokang Wu, Rongzhen Tian, Yanfeng Liu, Wenwen Yu, Guanjun Tao, Xueqin Lv, Jianghua Li, Guocheng Du, Rodrigo Ledesma-Amaro, Long Liu (2022). Combinatorial pathway engineering of Bacillus subtilis for production of structurally defined and homogeneous chitooligosaccharides. Metabolic Engineering.

Tao Sun, Yizi Yu, Lu Lin, Rodrigo Ledesma-Amaro, Xiao‐Jun Ji (2022). Combination of a Push-Pull-Block Strategy with a Heterogonous Xylose Assimilation Pathway Toward Lipid Overproduction from Lignocellulose in Yarrowia Lipolytica. SSRN Electronic Journal.

Laura E. Walls, Peter B. Otoupal, Rodrigo Ledesma-Amaro, Sharon B. Velasquez‐Orta, John M. Gladden, Leonardo Rios‐Solis (2022). Bioconversion of cellulose into bisabolene using Ruminococcus flavefaciens and Rhodosporidium toruloides. Bioresource Technology.

Farshad Darvishi, Sajad Rafatiyan, Mohammad Hossein Abbaspour Motlagh Moghaddam, Eliza Atkinson, Rodrigo Ledesma-Amaro (2022). Applications of synthetic yeast consortia for the production of native and non-native chemicals. Critical Reviews in Biotechnology.

Mei-Li Sun, Tian‐Qiong Shi, Lu Lin, Rodrigo Ledesma-Amaro, Xiao‐Jun Ji (2022). Advancing Yarrowia lipolytica as a superior biomanufacturing platform by tuning gene expression using promoter engineering. Bioresource Technology.

Kaifeng Wang, Tian‐Qiong Shi, Lu Lin, Ping Wei, Rodrigo Ledesma-Amaro, Xiao‐Jun Ji, He Huang (2022). Advances in synthetic biology tools paving the way for the biomanufacturing of unusual fatty acids using the Yarrowia lipolytica chassis. Biotechnology Advances.

Wenjuan Li, Liuwei Cui, Jie Mai, Tian‐Qiong Shi, Lu Lin, Zhigang Zhang, Rodrigo Ledesma-Amaro, Weiliang Dong, Xiao‐Jun Ji (2022). Advances in Metabolic Engineering Paving the Way for the Efficient Biosynthesis of Terpenes in Yeasts. Journal of Agricultural and Food Chemistry.

Ran Lu, Tian‐Qiong Shi, Lu Lin, Rodrigo Ledesma-Amaro, Xiao‐Jun Ji, He Huang (2022). Advances in metabolic engineering of yeasts for the production of fatty acid-derived hydrocarbon fuels. Green Chemical Engineering.

Peter Gajdoš, Rodrigo Ledesma-Amaro, Jean‐Marc Nicaud, Tristan Rossignol (2022). A yeast‐based tool for screening mammalian diacylglycerol acyltransferase inhibitors. MicrobiologyOpen.

Kaifeng Wang, Wenyang Zhao, Lu Lin, Tianjing Wang, Ping Wei, Rodrigo Ledesma-Amaro, Aihui Zhang, Xiao‐Jun Ji (2022). A robust soft sensor based on artificial neural network for monitoring microbial lipid fermentation processes using Yarrowia lipolytica. Biotechnology and Bioengineering.

Wenwen Yu, Ke Jin, Yaokang Wu, Quanwei Zhang, Yanfeng Liu, Jianghua Li, Guocheng Du, Jian Chen, Xueqin Lv, Rodrigo Ledesma-Amaro, Long Liu (2022). A pathway independent multi-modular ordered control system based on thermosensors and CRISPRi improves bioproduction in Bacillus subtilis. Nucleic Acids Research.

Ting Zhang, Ruijie Deng, Yuxi Wang, Chengyong Wu, Kaixiang Zhang, Chunyan Wang, Ningqiang Gong, Rodrigo Ledesma-Amaro, Xucong Teng, Chunrong Yang, Ting Xue, Yong Zhang, Yun Hu, Qiang He, Weimin Li, Jinghong Li (2022). A paper-based assay for the colorimetric detection of SARS-CoV-2 variants at single-nucleotide resolution. Nature Biomedical Engineering.

Xueqin Lv, Yaokang Wu, Mengyue Gong, Jieying Deng, Yang Gu, Yanfeng Liu, Jianghua Li, Guocheng Du, Rodrigo Ledesma-Amaro, Long Liu, Jian Chen (2021). Synthetic biology for future food: Research progress and future directions. Future Foods.

Deng Chen, Xueqin Lv, Jianghua Li, Hongzhi Zhang, Yanfeng Liu, Guocheng Du, Rodrigo Ledesma-Amaro, Long Liu (2021). Synergistic improvement of N-acetylglucosamine production by engineering transcription factors and balancing redox cofactors. Metabolic Engineering.

Bouchra Ezzamouri, Saeed Shoaie, Rodrigo Ledesma-Amaro (2021). Synergies of Systems Biology and Synthetic Biology in Human Microbiome Studies. Frontiers in Microbiology.

Lara Sellés Vidal, Rafael Ayala, Guy‐Bart Stan, Rodrigo Ledesma-Amaro (2021). rfaRm: An R client-side interface to facilitate the analysis of the Rfam database of RNA families. PLoS ONE.

Weijian Wang, Xiao Yu, Yongjun Wei, Rodrigo Ledesma-Amaro, Xiao‐Jun Ji (2021). Reprogramming the metabolism of Klebsiella pneumoniae for efficient 1,3-propanediol production. Chemical Engineering Science.

Jaroslav Hambalko, Peter Gajdoš, Jean‐Marc Nicaud, Rodrigo Ledesma-Amaro, Michal Tupec, Iva Pichová, Milan Čertík (2021). Production of Long Chain Fatty Alcohols Found in Bumblebee Pheromones by Yarrowia lipolytica. Frontiers in Bioengineering and Biotechnology.

Govindprasad Bhutada, Guillaume Ménard, Rodrigo Ledesma-Amaro, Peter J. Eastmond (2021). Production of human milk fat substitute by engineered strains of Yarrowia lipolytica. bioRxiv (Cold Spring Harbor Laboratory).

Mauricio Pesantes-Munoz, Rodrigo Ledesma-Amaro (2021). Pathway Engineering for Beta-Carotene and Carotenoid Biosynthesis in Y. lipolytica. Methods in molecular biology.

Shixiu Cui, Xueqin Lv, Xianhao Xu, Taichi Chen, Hongzhi Zhang, Yanfeng Liu, Jianghua Li, Guocheng Du, Rodrigo Ledesma-Amaro, Long Liu (2021). Multilayer Genetic Circuits for Dynamic Regulation of Metabolic Pathways. ACS Synthetic Biology.

Xueqin Lv, Ke Jin, Guoyun Sun, Rodrigo Ledesma-Amaro, Long Liu (2021). Microscopy imaging of living cells in metabolic engineering. Trends in biotechnology.

Wei Jiang, David Hernández Villamor, Huadong Peng, Jian Chen, Long Liu, Victoria S. Haritos, Rodrigo Ledesma-Amaro (2021). Metabolic engineering strategies to enable microbial utilization of C1 feedstocks. Nature Chemical Biology.

Manman Sun, Xiong Gao, Rodrigo Ledesma-Amaro, An Li, Rongbing Wang, Jiangqi Nie, Zheng Pei, Yankun Yang, Zhonghu Bai, Xiuxia Liu (2021). Hypersecretion of vaccine antigen outer membrane lipoprotein A in Corynebacterium glutamicum through high-throughput based development process. Authorea (Authorea).

Tao Sun, Yizi Yu, Kaifeng Wang, Rodrigo Ledesma-Amaro, Xiao‐Jun Ji (2021). Engineering Yarrowia lipolytica to produce fuels and chemicals from xylose: A review. Bioresource Technology.

Ran Lu, Lizhen Cao, Kaifeng Wang, Rodrigo Ledesma-Amaro, Xiao‐Jun Ji (2021). Engineering Yarrowia lipolytica to produce advanced biofuels: Current status and perspectives. Bioresource Technology.

Jie Mai, Wenjuan Li, Rodrigo Ledesma-Amaro, Xiao‐Jun Ji (2021). Engineering Plant Sesquiterpene Synthesis into Yeasts: A Review. Journal of Agricultural and Food Chemistry.

Farshad Darvishi, Mark Blenner, Rodrigo Ledesma-Amaro (2021). Editorial: Synthetic Biology of Yeasts for the Production of Non-Native Chemicals. Frontiers in Bioengineering and Biotechnology.

Yongjun Wei, Boyang Ji, Rodrigo Ledesma-Amaro, Tao Chen, Xiao‐Jun Ji (2021). Editorial: Engineering Yeast to Produce Plant Natural Products. Frontiers in Bioengineering and Biotechnology.

Giansimone Perrino, Andreas Hadjimitsis, Rodrigo Ledesma-Amaro, Guy‐Bart Stan (2021). Control engineering and synthetic biology: working in synergy for the analysis and control of microbial systems. Current Opinion in Microbiology.

Dingrong Kang, Saeed Shoaie, Samuel Jacquiod, Søren J. Sørensen, Rodrigo Ledesma-Amaro (2021). Comparative Genomics Analysis of Keratin-Degrading Chryseobacterium Species Reveals Their Keratinolytic Potential for Secondary Metabolite Production. Microorganisms.

Cun-Cui Kong, Zhuangzhuang Wang, Guang-Lei Liu, Zhenming Chi, Rodrigo Ledesma-Amaro, Zhe Chi (2021). Bioproduction of L‐piperazic acid in gram scale using Aureobasidium melanogenum. Microbial Biotechnology.

Joshua M. Lawrence, Yutong Yin, Paolo Bombelli, Alberto Scarampi, Marko Storch, Laura T. Wey, A. Climent-Catala, Geoff Baldwin, Danny O’Hare, Christopher J. Howe, Jenny Zhang, Thomas E. Ouldridge, Rodrigo Ledesma-Amaro (2021). A modular toolset for electrogenetics. bioRxiv (Cold Spring Harbor Laboratory).

Yanfeng Liu, Anqi Su, Jianghua Li, Rodrigo Ledesma-Amaro, Peng Xu, Guocheng Du, Long Liu (2020). Towards next-generation model microorganism chassis for biomanufacturing. Applied Microbiology and Biotechnology.

Tengfei Niu, Xueqin Lv, Yanfeng Liu, Jianghua Li, Guocheng Du, Rodrigo Ledesma-Amaro, Long Liu (2020). The elucidation of phosphosugar stress response in Bacillus subtilis guides strain engineering for high N‐acetylglucosamine production. Biotechnology and Bioengineering.

Xueqin Lv, Yaokang Wu, Rongzhen Tian, Yang Gu, Yanfeng Liu, Jianghua Li, Guocheng Du, Rodrigo Ledesma-Amaro, Long Liu (2020). Synthetic metabolic channel by functional membrane microdomains for compartmentalized flux control. Metabolic Engineering.

Irene Hjorth Jacobsen, Rodrigo Ledesma-Amaro, José L. Martínez (2020). Recombinant β-Carotene Production by Yarrowia lipolytica – Assessing the Potential of Micro-Scale Fermentation Analysis in Cell Factory Design and Bioreaction Optimization. Frontiers in Bioengineering and Biotechnology.

Xianhao Xu, Xueliang Li, Yanfeng Liu, Yong-Lian Zhu, Jianghua Li, Guocheng Du, Jian Chen, Rodrigo Ledesma-Amaro, Long Liu (2020). Pyruvate-responsive genetic circuits for dynamic control of central metabolism. Nature Chemical Biology.

Nicholas S. McCarty, Alicia E. Graham, Lucie Studená, Rodrigo Ledesma-Amaro (2020). Multiplexed CRISPR technologies for gene editing and transcriptional regulation. Nature Communications.

Xiao‐Jun Ji, Rodrigo Ledesma-Amaro (2020). Microbial Lipid Biotechnology to Produce Polyunsaturated Fatty Acids. Trends in biotechnology.

Xianhao Xu, Yanfeng Liu, Guocheng Du, Rodrigo Ledesma-Amaro, Long Liu (2020). Microbial Chassis Development for Natural Product Biosynthesis. Trends in biotechnology.

Zhiqiang Wen, Rodrigo Ledesma-Amaro, Minrui Lu, Mingjie Jin, Sheng Yang (2020). Metabolic Engineering of Clostridium cellulovorans to Improve Butanol Production by Consolidated Bioprocessing. ACS Synthetic Biology.

Jinpeng Wang, Rodrigo Ledesma-Amaro, Yongjun Wei, Boyang Ji, Xiao‐Jun Ji (2020). Metabolic engineering for increased lipid accumulation in Yarrowia lipolytica – A Review. Bioresource Technology.

Qingchun Ji, Jie Mai, Ying Ding, Yongjun Wei, Rodrigo Ledesma-Amaro, Xiao Jun Ji (2020). Improving the homologous recombination efficiency of Yarrowia lipolytica by grafting the heterogenous component from Saccharomyces cerevisiae. Authorea (Authorea).

Qingchun Ji, Jie Mai, Ying Ding, Yongjun Wei, Rodrigo Ledesma-Amaro, Xiao‐Jun Ji (2020). Improving the homologous recombination efficiency of Yarrowia lipolytica by grafting heterologous component from Saccharomyces cerevisiae. Metabolic Engineering Communications.

Linlin Zhou, Zhiqiang Wen, Zedi Wang, Yuwei Zhang, Rodrigo Ledesma-Amaro, Mingjie Jin (2020). Evolutionary Engineering Improved d-Glucose/Xylose Cofermentation of Yarrowia lipolytica. Industrial & Engineering Chemistry Research.

Evgeniya Y. Yuzbasheva, Pasquale Scarcia, Tigran v. Yuzbashev, Eugenia Messina, Iuliia M. Kosikhina, Luigi Palmieri, Artem v. Shutov, Maria O. Taratynova, Rodrigo Ledesma-Amaro, Ferdinando Palmieri, S. P. Sineoky, Gennaro Agrimi (2020). Engineering Yarrowia lipolytica for the selective and high-level production of isocitric acid through manipulation of mitochondrial dicarboxylate–tricarboxylate carriers. Metabolic Engineering.

Yi-Rong Ma, Wenjuan Li, Jie Mai, Jinpeng Wang, Yongjun Wei, Rodrigo Ledesma-Amaro, Xiao‐Jun Ji (2020). Engineering Yarrowia lipolytica for sustainable production of the chamomile sesquiterpene (−)-α-bisabolol. Green Chemistry.

Amritpal Singh, Kenneth T. Walker, Rodrigo Ledesma-Amaro, Tom Ellis (2020). Engineering Bacterial Cellulose by Synthetic Biology. International Journal of Molecular Sciences.

Rodrigo Ledesma-Amaro, Pablo I. Nikel, Francesca Ceroni (2020). Editorial: Synthetic Biology-Guided Metabolic Engineering. Frontiers in Bioengineering and Biotechnology.

Qin He, Patrycja Szczepańska, Tigran v. Yuzbashev, Zbigniew Lazar, Rodrigo Ledesma-Amaro (2020). De novo production of resveratrol from glycerol by engineering different metabolic pathways in Yarrowia lipolytica. Metabolic Engineering Communications.

Young-Kyoung Park, Rodrigo Ledesma-Amaro, Jean‐Marc Nicaud (2020). De novo Biosynthesis of Odd-Chain Fatty Acids in Yarrowia lipolytica Enabled by Modular Pathway Engineering. Frontiers in Bioengineering and Biotechnology.

Zhiqiang Wen, Rodrigo Ledesma-Amaro, Minrui Lu, Yu Jiang, Shuliang Gao, Mingjie Jin, Sheng Yang (2020). Combined evolutionary engineering and genetic manipulation improve low pH tolerance and butanol production in a synthetic microbial Clostridium community. Biotechnology and Bioengineering.

Ashish A. Prabhu, Dominic J Thomas, Rodrigo Ledesma-Amaro, Gary A. Leeke, Ángel Medina, Carol Verheecke‐Vaessen, Frédéric Coulon, Deepti Agrawal, Vinod Kumar (2020). Biovalorisation of crude glycerol and xylose into xylitol by oleaginous yeast Yarrowia lipolytica. Microbial Cell Factories.

Ashish A. Prabhu, Rodrigo Ledesma-Amaro, Carol Sze Ki Lin, Frédéric Coulon, Vijay Kumar Thakur, Vinod Kumar (2020). Bioproduction of succinic acid from xylose by engineered Yarrowia lipolytica without pH control. Biotechnology for Biofuels.

Xueqin Lv, Cheng Zhang, Shixiu Cui, Xianhao Xu, Lingling Wang, Jianghua Li, Guocheng Du, Jian Chen, Rodrigo Ledesma-Amaro, Long Liu (2020). Assembly of pathway enzymes by engineering functional membrane microdomain components for improved N-acetylglucosamine synthesis in Bacillus subtilis. Metabolic Engineering.

Rachatida Det-Udom, Charlie Gilbert, Long Liu, Cheunjit Prakitchaiwattana, Tom Ellis, Rodrigo Ledesma-Amaro (2019). Towards semi-synthetic microbial communities: enhancing soy sauce fermentation properties in B. subtilis co-cultures. Microbial Cell Factories.

Suzie Hsu, Jay D. Huenemann, Vishwesh Kulkarni, Rodrigo Ledesma-Amaro, Robert C. Moseley, Nikita Mukhitov, Rashmi Tiwari, Shue Wang, Michael J. Smanski (2019). The Five-Primer Challenge: An inquiry-based laboratory module for synthetic biology. bioRxiv (Cold Spring Harbor Laboratory).

Zhiqiang Wen, Minrui Lu, Rodrigo Ledesma-Amaro, Li Qi, Mingjie Jin, Sheng Yang (2019). TargeTron Technology Applicable in Solventogenic Clostridia: Revisiting 12 Years’ Advances. Biotechnology Journal.

Sylwia Jezierska, Silke Claus, Rodrigo Ledesma-Amaro, Inge Van Bogaert (2019). Redirecting the lipid metabolism of the yeast Starmerella bombicola from glycolipid to fatty acid production. Journal of Industrial Microbiology & Biotechnology.

Nicholas S. McCarty, W. M. Shaw, Tom Ellis, Rodrigo Ledesma-Amaro (2019). Rapid Assembly of gRNA Arrays via Modular Cloning in Yeast. ACS Synthetic Biology.

Alberto Jiménez, Gloria Muñoz‐Fernández, Rodrigo Ledesma-Amaro, Rubén M. Buey, José Luis Revuelta (2019). One‐vector CRISPR/Cas9 genome engineering of the industrial fungus Ashbya gossypii. Microbial Biotechnology.

Jean‐Yves Trosset, Sami Tliba, Ali El Ati, Hela Friha, Estelle Mogensen, Jawher Kahouli, Robin v. Lacombe, Ouerdia Arkoun, D. Sette, Rodrigo Ledesma-Amaro, Islam Boussaada (2019). INFLUENCE OF MICRO-ENVIRONMENT ON YEAST POPULATION DYNAMICS. Ecological Engineering and Environment Protection.

Zhiqiang Wen, Rodrigo Ledesma-Amaro, Jianping Lin, Yu Jiang, Sheng Yang (2019). Improved n -Butanol Production from Clostridium cellulovorans by Integrated Metabolic and Evolutionary Engineering. Applied and Environmental Microbiology.

Shixiu Cui, Xueqin Lv, Yaokang Wu, Jianghua Li, Guocheng Du, Rodrigo Ledesma-Amaro, Long Liu (2019). Engineering a Bifunctional Phr60-Rap60-Spo0A Quorum-Sensing Molecular Switch for Dynamic Fine-Tuning of Menaquinone-7 Synthesis in Bacillus subtilis. ACS Synthetic Biology.

Stefan Bruder, Eva J. Moldenhauer, Robert Denis Lemke, Rodrigo Ledesma-Amaro, Johannes Kabisch (2019). Drop-in biofuel production using fatty acid photodecarboxylase from Chlorella variabilis in the oleaginous yeast Yarrowia lipolytica. Biotechnology for Biofuels.

Yaokang Wu, Taichi Chen, Yanfeng Liu, Rongzhen Tian, Xueqin Lv, Jianghua Li, Guocheng Du, Jian Chen, Rodrigo Ledesma-Amaro, Long Liu (2019). Design of a programmable biosensor-CRISPRi genetic circuits for dynamic and autonomous dual-control of metabolic flux in Bacillus subtilis. Nucleic Acids Research.

Jieying Deng, Chunmei Chen, Yang Gu, Xueqin Lv, Yanfeng Liu, Jianghua Li, Rodrigo Ledesma-Amaro, Guocheng Du, Long Liu (2019). Creating an in vivo bifunctional gene expression circuit through an aptamer-based regulatory mechanism for dynamic metabolic engineering in Bacillus subtilis. Metabolic Engineering.

Deng Chen, Xueqin Lv, Jianghua Li, Yanfeng Liu, Guocheng Du, Rodrigo Ledesma-Amaro, Long Liu (2018). Synthetic repetitive extragenic palindromic (REP) sequence as an efficient mRNA stabilizer for protein production and metabolic engineering in prokaryotic cells. Biotechnology and Bioengineering.

Yang Gu, Xueqin Lv, Yanfeng Liu, Jianghua Li, Guocheng Du, Jian Chen, Rodrigo Ledesma-Amaro, Long Liu (2018). Synthetic redesign of central carbon and redox metabolism for high yield production of N-acetylglucosamine in Bacillus subtilis. Metabolic Engineering.

Nicholas S. McCarty, Rodrigo Ledesma-Amaro (2018). Synthetic Biology Tools to Engineer Microbial Communities for Biotechnology. Trends in biotechnology.

Macarena Larroudé, Tristan Rossignol, Jean‐Marc Nicaud, Rodrigo Ledesma-Amaro (2018). Synthetic biology tools for engineering Yarrowia lipolytica. Biotechnology Advances.

Heber Gamboa‐Meléndez, Macarena Larroude, Young-Kyoung Park, Pauline Trebul, Jean‐Marc Nicaud, Rodrigo Ledesma-Amaro (2018). Synthetic Biology to Improve the Production of Lipases and Esterases (Review). Methods in molecular biology.

Jingjing Liu, Jianghua Li, Yanfeng Liu, Hyun‐Dong Shin, Rodrigo Ledesma-Amaro, Guocheng Du, Jian Chen, Long Liu (2018). Synergistic Rewiring of Carbon Metabolism and Redox Metabolism in Cytoplasm and Mitochondria of Aspergillus oryzae for Increased l-Malate Production. ACS Synthetic Biology.

Benjamin A. Blount, Glen-Oliver F. Gowers, Jack C. H. Ho, Rodrigo Ledesma-Amaro, Dejana Jovicevic, Robert M. McKiernan, Ze‐Xiong Xie, Bing Li, Ying‐Jin Yuan, Tom Ellis (2018). Rapid host strain improvement by in vivo rearrangement of a synthetic yeast chromosome. Nature Communications.

Rodrigo Ledesma-Amaro, Alberto Jiménez, José Luis Revuelta (2018). Pathway Grafting for Polyunsaturated Fatty Acids Production in Ashbya gossypii through Golden Gate Rapid Assembly. ACS Synthetic Biology.

Young-Kyoung Park, Thierry Dulermo, Rodrigo Ledesma-Amaro, Jean‐Marc Nicaud (2018). Optimization of odd chain fatty acid production by Yarrowia lipolytica. Biotechnology for Biofuels.

Ewelina Celińska, Monika Borkowska, W. Białas, Monika Kubiak, Paulina Korpys-Woźniak, Marta Archacka, Rodrigo Ledesma-Amaro, Jean‐Marc Nicaud (2018). Genetic engineering of Ehrlich pathway modulates production of higher alcohols in engineered Yarrowia lipolytica. FEMS Yeast Research.

José Luis Revuelta, Cristina Serrano-Amatriain, Rodrigo Ledesma-Amaro, Alberto Jiménez (2018). Formation of folates by microorganisms: towards the biotechnological production of this vitamin. Applied Microbiology and Biotechnology.

Xochitl Niehus, Anne-Marie Crutz-Le Coq, Georgina Sandoval, Jean‐Marc Nicaud, Rodrigo Ledesma-Amaro (2018). Engineering Yarrowia lipolytica to enhance lipid production from lignocellulosic materials. Biotechnology for Biofuels.

Yaokang Wu, Taichi Chen, Yanfeng Liu, Xueqin Lv, Jianghua Li, Guocheng Du, Rodrigo Ledesma-Amaro, Long Liu (2018). CRISPRi allows optimal temporal control of N-acetylglucosamine bioproduction by a dynamic coordination of glucose and xylose metabolism in Bacillus subtilis. Metabolic Engineering.

Rémi Dulermo, François Brunel, Thierry Dulermo, Rodrigo Ledesma-Amaro, Jérémy Vion, Marion Trassaert, Stéphane Thomas, Jean‐Marc Nicaud, Christophe Leplat (2017). Using a vector pool containing variable-strength promoters to optimize protein production in Yarrowia lipolytica. Microbial Cell Factories.

Young-Kyoung Park, Jean‐Marc Nicaud, Rodrigo Ledesma-Amaro (2017). The Engineering Potential of Rhodosporidium toruloides as a Workhorse for Biotechnological Applications. Trends in biotechnology.

Govindprasad Bhutada, Martin Kavšček, Rodrigo Ledesma-Amaro, Stéphane Thomas, Gerald N. Rechberger, Jean‐Marc Nicaud, Klaus Natter (2017). Sugar versus fat: elimination of glycogen storage improves lipid accumulation in Yarrowia lipolytica. FEMS Yeast Research.

Ewelina Celińska, Rodrigo Ledesma-Amaro, Macarena Larroudé, Tristan Rossignol, Cyrille Pauthenier, Jean‐Marc Nicaud (2017). Golden Gate Assembly system dedicated to complex pathway manipulation in Yarrowia lipolytica. Microbial Biotechnology.

Macarena Larroudé, Ewelina Celińska, Alexandre Back, T. Stephan, Jean‐Marc Nicaud, Rodrigo Ledesma-Amaro (2017). A synthetic biology approach to transform Yarrowia lipolytica into a competitive biotechnological producer of β‐carotene. Biotechnology and Bioengineering.

Rémi Dulermo, Heber Gamboa‐Meléndez, Rodrigo Ledesma-Amaro, France Thévenieau, Jean‐Marc Nicaud (2016). Yarrowia lipolytica AAL genes are involved in peroxisomal fatty acid activation. Biochimica et Biophysica Acta (BBA) - Molecular and Cell Biology of Lipids.

Rodrigo Ledesma-Amaro, José Luis Revuelta (2016). Synthetic biology and metabolic engineering to produce microbial oils: towards a sustainable source of fuels, chemicals and nutraceuticals. New Biotechnology.

Alberto Jiménez, David Díaz-Fernández, Patricia Lozano‐Martínez, Rodrigo Ledesma-Amaro, José Luis Revuelta (2016). Refactoring Ashbya gossypii for advanced biolipid production. New Biotechnology.

Peter Gajdoš, Rodrigo Ledesma-Amaro, Jean‐Marc Nicaud, Milan Čertík, Tristan Rossignol (2016). Overexpression of diacylglycerol acyltransferase inYarrowia lipolyticaaffects lipid body size, number and distribution. FEMS Yeast Research.

Yasushi Kamisaka, Kazuyoshi Kimura, Hiroshi Uemura, Rodrigo Ledesma-Amaro (2016). Modulation of gluconeogenesis and lipid production in an engineered oleaginous Saccharomyces cerevisiae transformant. Applied Microbiology and Biotechnology.

José Luis Revuelta, Rubén M. Buey, Rodrigo Ledesma-Amaro, Erick Vandamme (2016). Microbial biotechnology for the synthesis of (pro)vitamins, biopigments and antioxidants: challenges and opportunities. Microbial Biotechnology.

Rodrigo Ledesma-Amaro, Zbigniew Lazar, Magdalena Rakicka, Zhongpeng Guo, Florian Fouchard, Anne-Marie Crutz-Le Coq, Jean‐Marc Nicaud (2016). Metabolic engineering of Yarrowia lipolytica to produce chemicals and fuels from xylose. Metabolic Engineering.

José Luis Revuelta, Rodrigo Ledesma-Amaro, Alberto Jiménez (2016). Industrial Production of VitaminB2by Microbial Fermentation. **.

Cristina Serrano-Amatriain, Rodrigo Ledesma-Amaro, Rubén López‐Nicolás, Gaspar Ros, Alberto Jiménez, José Luis Revuelta (2016). Folic Acid Production by Engineered Ashbya gossypii. Metabolic Engineering.

Patricia Lozano‐Martínez, Rubén M. Buey, Rodrigo Ledesma-Amaro, Alberto Jiménez, José Luis Revuelta (2016). Engineering Ashbya gossypii strains for de novo lipid production using industrial by‐products. Microbial Biotechnology.

Rodrigo Ledesma-Amaro, Rémi Dulermo, Xochitl Niehus, Jean‐Marc Nicaud (2016). Combining metabolic engineering and process optimization to improve production and secretion of fatty acids. Metabolic Engineering.

José Luis Revuelta, Rodrigo Ledesma-Amaro, Patricia Lozano‐Martínez, David Díaz-Fernández, Rubén M. Buey, Alberto Jiménez (2016). Bioproduction of riboflavin: a bright yellow history. Journal of Industrial Microbiology & Biotechnology.

Rodrigo Ledesma-Amaro, Jean‐Marc Nicaud (2015). Yarrowia lipolytica as a biotechnological chassis to produce usual and unusual fatty acids. Progress in Lipid Research.

Rémi Dulermo, Heber Gamboa-Meléndez, Rodrigo Ledesma-Amaro, France Thévenieau, Jean‐Marc Nicaud (2015). Unraveling fatty acid transport and activation mechanisms in Yarrowia lipolytica. Biochimica et Biophysica Acta (BBA) - Molecular and Cell Biology of Lipids.

Rubén M. Buey, Rodrigo Ledesma-Amaro, Mónica Balsera, José M. De Pereda, Julia Revuelta (2015). Structure of IMP dehydrogenase of Ashbya gossypii with IMP bound to the active site. **.

Rodrigo Ledesma-Amaro, Cristina Serrano-Amatriain, Alberto Jiménez, José Luis Revuelta (2015). Metabolic engineering of riboflavin production in Ashbya gossypii through pathway optimization. Microbial Cell Factories.

Rubén M. Buey, Rodrigo Ledesma-Amaro, Mónica Balsera, José M. De Pereda, José Luis Revuelta (2015). Increased riboflavin production by manipulation of inosine 5′-monophosphate dehydrogenase in Ashbya gossypii. Applied Microbiology and Biotechnology.

Rodrigo Ledesma-Amaro, Rubén M. Buey, José Luis Revuelta (2015). Increased production of inosine and guanosine by means of metabolic engineering of the purine pathway in Ashbya gossypii. Microbial Cell Factories.

Rubén M. Buey, Rodrigo Ledesma-Amaro, Adrián Velázquez‐Campoy, Mónica Balsera, Mónica Chagoyen, José M. De Pereda, José Luis Revuelta (2015). Guanine nucleotide binding to the Bateman domain mediates the allosteric inhibition of eukaryotic IMP dehydrogenases. Nature Communications.

Rodrigo Ledesma-Amaro, Patricia Lozano‐Martínez, Alberto Jiménez, José Luis Revuelta (2015). EngineeringAshbya gossypiifor efficient biolipid production. Bioengineered.

Rodrigo Ledesma-Amaro, Thierry Dulermo, Jean‐Marc Nicaud (2015). Engineering Yarrowia lipolytica to produce biodiesel from raw starch. Biotechnology for Biofuels.

Rodrigo Ledesma-Amaro (2014). Microbial oils: A customizable feedstock through metabolic engineering. European Journal of Lipid Science and Technology.

Rodrigo Ledesma-Amaro, M. Ángeles Santos, Alberto Jiménez, José Luis Revuelta (2013). Strain Design of Ashbya gossypii for Single-Cell Oil Production. Applied and Environmental Microbiology.

Rodrigo Ledesma-Amaro, Eduard J. Kerkhoven, José Luis Revuelta, Jens Nielsen (2013). Genome scale metabolic modeling of the riboflavin overproducer Ashbya gossypii. Biotechnology and Bioengineering.

Rodrigo Ledesma-Amaro, Alberto Jiménez, M. Ángeles Santos, José Luis Revuelta (2013). Biotechnological production of feed nucleotides by microbial strain improvement. Process Biochemistry.