Publications by authors named "Joonhoon Kim"

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Binary vector origin predictably determines -mediated transformation outcome across eukaryotic kingdoms.
Matthew J Szarzanowicz, Michael Busche, Ziyu Dai, Nathan Lapp, Gina M Geiselman, Joonhoon Kim

bioRxiv· November 2025

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Optimal production of Phanerochaete chrysosporium manganese peroxidases and Trametes sp. C30 laccase hybrid Lac131 in Aspergillus niger for lignin bioconversion.
Ziyu Dai, Ana L Robles, Sarah L Lemmon, Guoliang Yuan, Dehong Hu, Joonhoon Kim

Biotechnol Biofuels Bioprod· October 2025

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Production of triacetic acid lactone from oleic acid by engineering the yeast Candida viswanathii.
Saptarshi Ghosh, Alex Hutagalung, Yuqian Gao, Javier E Flores, Yichao Han, Joonhoon Kim, Young-Mo Kim

Microb Cell Fact· October 2025

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FluxRETAP: a REaction TArget Prioritization genome-scale modeling technique for selecting genetic targets.
Jeffrey J Czajka, Joonhoon Kim, Yinjie J Tang, Kyle R Pomraning, Aindrila Mukhopadhyay

Bioinformatics· September 2025

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The oleaginous yeast Rhodosporidium toruloides engineered for biomass hydrolysate-derived (E)-α-bisabolene production.
Paul A Adamczyk, Hee Jin Hwang, Ta-Hsuan Chang, Yuqian Gao, Edward E K Baidoo, Joonhoon Kim

Metab Eng· July 2025

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Enabling malic acid production from corn-stover hydrolysate in Lipomyces starkeyi via metabolic engineering and bioprocess optimization.
Jeffrey J Czajka, Ziyu Dai, Tijana Radivojević, Joonhoon Kim, Shuang Deng, Young-Mo Kim

Microb Cell Fact· May 2025

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Advanced multi-modal mass spectrometry imaging reveals functional differences of placental villous compartments at microscale resolution.
Marija Veličković, Leena Kadam, Joonhoon Kim, Kevin J Zemaitis, Dušan Veličković

Nat Commun· February 2025

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CRISPR-Cas9/Cas12a systems for efficient genome editing and large genomic fragment deletions in .
Guoliang Yuan, Shuang Deng, Jeffrey J Czajka, Ziyu Dai, Beth A Hofstad, Joonhoon Kim

Front Bioeng Biotechnol· October 2024

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Systematic engineering for production of anti-aging sunscreen compound in Pseudomonas putida.
Ian S Yunus, Graham A Hudson, Yan Chen, Jennifer W Gin, Joonhoon Kim

Metab Eng· July 2024

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Genome-scale model development and genomic sequencing of the oleaginous clade .
Jeffrey J Czajka, Yichao Han, Joonhoon Kim, Stephen J Mondo, Beth A Hofstad

Front Bioeng Biotechnol· April 2024

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Genome-scale and pathway engineering for the sustainable aviation fuel precursor isoprenol production in Pseudomonas putida.
Deepanwita Banerjee, Ian S Yunus, Xi Wang, Jinho Kim, Aparajitha Srinivasan, Joonhoon Kim

Metab Eng· March 2024

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Corn stover variability drives differences in bisabolene production by engineered Rhodotorula toruloides.
Onyinye Okonkwo, Chang Dou, Ethan Oksen, Akash Narani, Wilian Marcondes, Joonhoon Kim

J Ind Microbiol Biotechnol· January 2024

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Advances in genome-scale metabolic models of industrially important fungi.
Yichao Han, Albert Tafur Rangel, Kyle R Pomraning, Eduard J Kerkhoven, Joonhoon Kim

Curr Opin Biotechnol· December 2023

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Identification of a specific exporter that enables high production of aconitic acid in Aspergillus pseudoterreus.
Shuang Deng, Joonhoon Kim, Kyle R Pomraning, Yuqian Gao, James E Evans, Young-Mo Kim

Metab Eng· November 2023

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Engineering Rhodosporidium toruloides for production of 3-hydroxypropionic acid from lignocellulosic hydrolysate.
Di Liu, Hee Jin Hwang, Peter B Otoupal, Gina M Geiselman, Joonhoon Kim, Young-Mo Kim, Jinho Kim

Metab Eng· July 2023

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Rapid and robust squashed spore/colony PCR of industrially important fungi.
Guoliang Yuan, Jeffrey J Czajka, Ziyu Dai, Dehong Hu, Kyle R Pomraning, Joonhoon Kim

Fungal Biol Biotechnol· July 2023

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A High-Quality Genome-Scale Model for Metabolism.
Garrett W Roell, Christina Schenk, Winston E Anthony, Rhiannon R Carr, Aditya Ponukumati, Joonhoon Kim

ACS Synth Biol· June 2023

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PeakDecoder enables machine learning-based metabolite annotation and accurate profiling in multidimensional mass spectrometry measurements.
Aivett Bilbao, Nathalie Munoz, Joonhoon Kim, Daniel J Orton, Yuqian Gao, Young-Mo Kim

Nat Commun· April 2023

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Metabolic engineering to improve production of 3-hydroxypropionic acid from corn-stover hydrolysate in Aspergillus species.
Ziyu Dai, Kyle R Pomraning, Shuang Deng, Joonhoon Kim, Kristen B Campbell, Young-Mo Kim

Biotechnol Biofuels Bioprod· March 2023

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Itaconic acid production is regulated by LaeA in .
Kyle R Pomraning, Ziyu Dai, Nathalie Munoz, Young-Mo Kim, Yuqian Gao, Joonhoon Kim

Metab Eng Commun· December 2022

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Genetically Engineered Oleaginous Yeast for Sesquiterpene α-Zingiberene Production.
Ziyu Dai, Kyle R Pomraning, Ellen A Panisko, Beth A Hofstad, Kristen B Campbell, Joonhoon Kim

ACS Synth Biol· May 2021

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Further engineering of R. toruloides for the production of terpenes from lignocellulosic biomass.
James Kirby, Gina M Geiselman, Junko Yaegashi, Joonhoon Kim, Xun Zhuang

Biotechnol Biofuels· April 2021

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Integration of Proteomics and Metabolomics Into the Design, Build, Test, Learn Cycle to Improve 3-Hydroxypropionic Acid Production in .
Kyle R Pomraning, Ziyu Dai, Nathalie Munoz, Young-Mo Kim, Yuqian Gao, Joonhoon Kim

Front Bioeng Biotechnol· April 2021

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Multiomics Data Collection, Visualization, and Utilization for Guiding Metabolic Engineering.
Somtirtha Roy, Tijana Radivojevic, Mark Forrer, Jose Manuel Marti, Vamshi Jonnalagadda, Joonhoon Kim

Front Bioeng Biotechnol· February 2021

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Multi-Omics Driven Metabolic Network Reconstruction and Analysis of Lignocellulosic Carbon Utilization in .
Joonhoon Kim, Samuel T Coradetti, Young-Mo Kim, Yuqian Gao, Junko Yaegashi

Front Bioeng Biotechnol· January 2021

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