OOIR: Observatory of International Research

Papers

(The TQCC of Metabolic Engineering is 21. The table below lists those papers that are above that threshold based on CrossRef citation counts [max. 250 papers]. The publications cover those that have been published in the past four years, i.e., from 2022-06-01 to 2026-06-01.)

Article	Citations
Editorial Board	86
Genome-wide CRISPR screening identifies genes in recombinant human embryonic kidney 293 cells for increased ammonia resistance	78
Introduction of acetyl-phosphate bypass and increased culture temperatures enhanced growth-coupled poly-hydroxybutyrate production in the marine cyanobacterium Synechococcus sp. PCC7002	76
Butyrate as a growth factor of Clostridium acetobutylicum	73
Synthetic metabolic pathways for conversion of CO2 into secreted short-to medium-chain hydrocarbons using cyanobacteria	70
Engineering Halomonas bluephagenesis for high-efficiency biosynthesis of pyruvate	69
Development of a thermophilic l-arabinose-inducible system in Acetivibrio thermocellus (Clostridium thermocellum)	67
Engineering Halomonas bluephagenesis for pilot production of terpolymers containing 3-hydroxybutyrate, 4-hydroxybutyrate and 3-hydroxyvalerate from glucose	63
Elucidation and engineering of Sphingolipid biosynthesis pathway in Yarrowia lipolytica for enhanced production of human-type sphingoid bases and glucosylceramides	62
Engineering sub-organelles of a diploid Saccharomyces cerevisiae to enhance the production of 7-dehydrocholesterol	59
Efficient production of (S)-limonene and geraniol in Saccharomyces cerevisiae through the utilization of an Erg20 mutant with enhanced GPP accumulation capability	59
Biosensor-informed engineering of Cupriavidus necator H16 for autotrophic D-mannitol production	59
Improved arginine production in Escherichia coli by harnessing the intracellular citrulline	58
Alternative routes for production of the drug candidate d-chiro-inositol with Corynebacterium glutamicum using endogenous or promiscuous plant enzymes	58
Heterologous biosynthesis of betanin triggers metabolic reprogramming in tobacco	57
Pan-reactome analysis of Streptomyces strains reveals association and disconnection between primary and secondary metabolism	56
Metabolic engineering of Escherichia coli for the production of two-carbon primary amines	55
Engineering a biosensor based high-throughput screening platform for high-yield caffeic acid production in Escherichia coli	54
Engineering Yarrowia lipolytica for sustainable ricinoleic acid production: A pathway to free fatty acid synthesis	53
Engineering carbon source division of labor for efficient α-carotene production in Corynebacterium glutamicum	53
Quantifying supply and demand in the pea aphid-Buchnera symbiosis reveals the metabolic Achilles’ heels of this interaction	52
Identification of a specific exporter that enables high production of aconitic acid in Aspergillus pseudoterreus	51
De novo 2′-fucosyllactose biosynthesis using glucose as the sole carbon source by multiple engineered Bacillus subtilis	51
Integrating metabolome dynamics and process data to guide cell line selection in biopharmaceutical process development	51
Inferring secretory and metabolic pathway activity from omic data with secCellFie	49

Biosynthesis of 12-aminododecanoic acid from biomass sugars	49
Pathway elucidation and microbial synthesis of proaporphine and bis-benzylisoquinoline alkaloids from sacred lotus (Nelumbo nucifera)	48
13C-Metabolic flux analysis of 3T3-L1 adipocytes illuminates its core metabolism under hypoxia	48
Versatile xylose and arabinose genetic switches development for yeasts	47
Optimized production of concanamycins using a rational metabolic engineering strategy	46
The flocculant Saccharomyces cerevisiae strain gains robustness via alteration of the cell wall hydrophobicity	44
Development of a Streptomyces-based system for facile thioholgamide library generation and analysis	43
Machine-learning guided elucidation of contribution of individual steps in the mevalonate pathway and construction of a yeast platform strain for terpenoid production	43
Engineering an SspB-mediated degron for novel controllable protein degradation	43
Coordinating caffeic acid and salvianic acid A pathways for efficient production of rosmarinic acid in Escherichia coli	42
Disruption of acyl-acyl carrier protein (acyl-ACP) synthetase in cyanobacteria impairs lipid remodeling as revealed by acyl-ACP measurements	42
Consolidated bioprocessing for bioethanol production by metabolically engineered cellulolytic fungus Myceliophthora thermophila	41
Consistent biosynthesis of D-glycerate from variable mixed substrates	41
Engineering diverse fatty acid compositions of phospholipids in Escherichia coli	40
Rethinking 13C-metabolic flux analysis – The Bayesian way of flux inference	40
Silk fibroin production in Escherichia coli is limited by a positive feedback loop between metabolic burden and toxicity stress	40
Auto-inducible synthetic pathway in E. coli enhanced sustainable indigo production from glucose	39
Metabolic engineering of Escherichia coli for N-methylserotonin biosynthesis	39
Unlocking lager's flavour palette by metabolic engineering of Saccharomyces pastorianus for enhanced ethyl ester production	39
COSMIC-dFBA: A novel multi-scale hybrid framework for bioprocess modeling	39
De novo production of 1,3-olein-2-palmitin (OPO) and 1-olein-2-palmitin-3-linolein (OPL) by multiplexed reconstruction of lipid metabolism in yeasts	38
Coupling cell growth and biochemical pathway induction in Saccharomyces cerevisiae for production of (+)-valencene and its chemical conversion to (+)-nootkatone	38
A novel step towards the heterologous biosynthesis of paclitaxel: Characterization of T1βOH taxane hydroxylase	38
Insights into the methanol utilization capacity of Y. lipolytica and improvements through metabolic engineering	38
Membrane transporter identification and modulation via adaptive laboratory evolution	38
Time-resolved, deuterium-based fluxomics uncovers the hierarchy and dynamics of sugar processing by Pseudomonas putida	37
Deep learning for NAD/NADP cofactor prediction and engineering using transformer attention analysis in enzymes	36
Functional genomic screening in Komagataella phaffii enabled by high-activity CRISPR-Cas9 library	35
A Pseudomonas taiwanensis malonyl-CoA platform strain for polyketide synthesis	35
A reactive species reactions module for integration into genome-scale metabolic models for improved insights: Application to cancer	35
Boosting titers of engineered triketide and tetraketide synthases to record levels through T7 promoter tuning	35
Metabolic engineering of commensal bacteria for gut butyrate delivery and dissection of host-microbe interaction	34
Reconstruction of arginine deiminase pathway sustains a higher-energy state in mammalian cells	34
Engineering and evolution of the complete Reductive Glycine Pathway in Saccharomyces cerevisiae for formate and CO2 assimilation	34
Engineering Rhodosporidium toruloides for production of 3-hydroxypropionic acid from lignocellulosic hydrolysate	34
Biosynthesis of diverse α,ω-diol-derived polyhydroxyalkanoates by engineered Halomonas bluephagenesis	34
Editorial Board	33
Selective microbial production of lacto-N-fucopentaose I in Escherichia coli using engineered α-1,2-fucosyltransferases	33
Self-controlled in silico gene knockdown strategies to enhance the sustainable production of heterologous terpenoid by Saccharomyces cerevisiae	33
Endogenous BiP reporter system for simultaneous identification of ER stress and antibody production in Chinese hamster ovary cells	33
Corrigendum to “Tandem chemical deconstruction and biological upcycling of poly(ethylene terephthalate) to β-ketoadipic acid by Pseudomonas putida KT2440” (Metab. Eng. 67 (2021) 250–261)	33
Metabolic engineering of artificially modified transcription factor SmMYB36-VP16 for high-level production of tanshinones and phenolic acids	32
Systems metabolic engineering upgrades Corynebacterium glutamicum for selective high-level production of the chiral drug precursor and cell-protective extremolyte L-pipecolic acid	32
Reusable and modular combinatorial libraries for iterative metabolic engineering of Saccharomyces cerevisiae	32
Editorial Board	32
Targeting cofactors regeneration in methylation and hydroxylation for high level production of Ferulic acid	32
Hybrid biological-chemical strategy for converting polyethylene into a recyclable plastic monomer using engineered Corynebacterium glutamicum	32
Repurposing plant hormone receptors as chemically-inducible genetic switches for dynamic regulation in yeast	31
Systems metabolic engineering of Corynebacterium glutamicum eliminates all by-products for selective and high-yield production of the platform chemical 5-aminovalerate	30
Verazine biosynthesis from simple sugars in engineered Saccharomyces cerevisiae	30

Flux optimization using multiple promoters in Halomonas bluephagenesis as a model chassis of the next generation industrial biotechnology	30
Manufacturing specialized wax esters in plants	30
Stress-driven dynamic regulation of multiple genes to reduce accumulation of toxic aldehydes	30
Co-cultivation of Saccharomyces cerevisiae strains combines advantages of different metabolic engineering strategies for improved ethanol yield	30
Engineering of insect juvenile hormone III biosynthesis in the plant Nicotiana benthamiana	29
Efficient production of natural sunscreens shinorine, porphyra-334, and mycosporine-2-glycine in Saccharomyces cerevisiae	29
Ectoine hyperproduction by engineered Halomonas bluephagenesis	29
Electrical-biological hybrid system for carbon efficient isobutanol production	29
High-yield production of FK228 and new derivatives in a Burkholderia chassis	29
Evaluation of strategies to narrow the product chain-length distribution of microbially synthesized free fatty acids	29
Developing a Bacillus licheniformis platform for de novo production of γ-aminobutyric acid and other glutamate-derived chemicals	29
Minimized antibiotic-free plasmid vector for gene therapy utilizing a new toxin-antitoxin system	28
Biosynthesis of β-lactam nuclei in yeast	28
KETCHUP: Parameterizing of large-scale kinetic models using multiple datasets with different reference states	28
Metabolic engineering of Acinetobacter baylyi ADP1 for efficient utilization of pentose sugars and production of glutamic acid	28
Editorial Board	28
Systems metabolic engineering of Klebsiella pneumoniae for high-level 1,3-propanediol production	28
Generation of a Vibrio-based platform for efficient conversion of raffinose through Adaptive Laboratory Evolution on a solid medium	28
Sustainable production through spatial niche partitioning in engineered light-driven microbial community	28
Overexpression of peroxisome proliferator-activated receptor γ co-activator-1⍺ (PGC-1⍺) in Chinese hamster ovary cells increases oxidative metabolism and IgG productivity	27
Fluctuating pH for efficient photomixotrophic succinate production	27
Omics analyses decoding mechanisms underlying the self-flocculating phenotype of yeast cells and stress tolerance for robust production	27
Establishing heterologous betaxanthin pigment biosynthesis in cyanobacteria	27
Biomass accumulation in chondrocyte metabolic modelling: Incorporating extracellular matrix proxies to predict tissue engineering outcomes	26
Genetic and biocatalytic basis of formate dependent growth of Escherichia coli strains evolved in continuous culture	26
CRISPRi-microfluidics screening enables genome-scale target identification for high-titer protein production and secretion	26
High-level and -yield production of L-leucine in engineered Escherichia coli by multistep metabolic engineering	26
Metabolic engineering of Escherichia coli for high production of 1,5-pentanediol via a cadaverine-derived pathway	26
Sustainable production of genistin from glycerol by constructing and optimizing Escherichia coli	26
Engineering 5-hydroxymethylfurfural (HMF) oxidation in Pseudomonas boosts tolerance and accelerates 2,5-furandicarboxylic acid (FDCA) production	25
Engineering of Escherichia coli cytoplasm and periplasm for efficient synthesis of salvianic acid A	25
Genome mining of tailoring enzymes from biosynthetic gene clusters for synthetic biology: A case study with fungal methyltransferases	25
Metabolic engineering of Corynebacterium glutamicum for increased cis, cis-muconate production from plant-derived p-hydroxycinnamates via deregulated pathway flux and increased CoA intermediate availa	25
Laboratory evolution of Synechocystis sp. PCC 6803 for phenylpropanoid production	25
Evolution-assisted engineering of E. coli enables growth on formic acid at ambient CO2 via the Serine Threonine Cycle	25
Editorial Board	25
A tRNA Modification-based strategy for Identifying amiNo acid Overproducers (AMINO)	25
Demonstration and technoeconomic analysis of dodecanol production from acetate using metabolically engineered Escherichia coli	24
Rational search of genetic design space for a heterologous terpene metabolic pathway in Streptomyces	24
Proteome trade-off between primary and secondary metabolism shapes acid stress induced bacterial exopolysaccharide production	24
A dynamic kinetic model captures cell-free metabolism for improved butanol production	24
Unraveling productivity-enhancing genes in Chinese hamster ovary cells via CRISPR activation screening using recombinase-mediated cassette exchange system	24
Laboratory evolution reveals general and specific tolerance mechanisms for commodity chemicals	23
Efficient production of retinol in Yarrowia lipolytica by increasing stability using antioxidant and detergent extraction	23
Engineered non-canonical reductive TCA pathway drives high-yield succinic acid biosynthesis in Yarrowia lipolytica	23
Thermodynamic limitations of PHB production from formate and fructose in Cupriavidus necator	23
Coordinated reprogramming of ATP metabolism strongly enhances adipic acid production in Escherichia coli	23
A tunable metabolic valve for precise growth control and increased product formation in Pseudomonas putida	23
Cyanobacterial phycobilisomes as a platform for the stable production of heterologous enzymes and other proteins	22
Genome-scale and pathway engineering for the sustainable aviation fuel precursor isoprenol production in Pseudomonas putida	22
AI-based automated construction of high-precision Geobacillus thermoglucosidasius enzyme constraint model	22
Corrigendum to “Microbial production of propionic acid through a novel β-alanine route” [Metabol. Eng. (2026) 219–231 93]	22
Development of an efficient yeast platform for cannabigerolic acid biosynthesis	22
Encapsulation of select violacein pathway enzymes in the 1,2-propanediol utilization bacterial microcompartment to divert pathway flux	22
dCas9-mediated dysregulation of gene expression in human induced pluripotent stem cells during primitive streak differentiation	22
PET-FBA: A lightweight enzyme allocation and thermodynamics-constrained flux analysis approach to explore Escherichia coli metabolic adaptation to intracellular acidification	21
Integrated rational and evolutionary engineering of genome-reduced Pseudomonas putida strains promotes synthetic formate assimilation	21
Enabling anaerobic growth of Escherichia coli on glycerol in defined minimal medium using acetate as redox sink	21
Engineered plants for the production of the antioxidants arbutin and gallate	21
Engineering ethanologenicity into the extremely thermophilic bacterium Anaerocellum (f. Caldicellulosiriuptor) bescii	21
Multi-omic based production strain improvement (MOBpsi) for bio-manufacturing of toxic chemicals	21
Modulating fatty acid metabolism and composition of CHO cells by feeding high levels of fatty acids complexed using methyl-β-cyclodextrin	21
Ribo-seq guided design of enhanced protein secretion in Komagataella phaffii	21
Engineering xylose catabolism in the yeast Komagataella phaffii	21
Multi-dimensional experimental and computational exploration of metabolism pinpoints complex probiotic interactions	21
Engineering Escherichia coli for the production of saturated archaeal lipids	21