| Minireview: Engineering evolution to reconfigure phenotypic traits in microbes for biotechnological applications Add to Default shortcuts |
Kangsan Kim, Minjeong Kang, Sang-Hyeok Cho, Eojin Yoo, Ui-Gi Kim, Suhyung Cho, Bernhard Palsson, Byung-Kwan Cho |
2022 |
| Is the kinetome conserved? |
Palsson BO, Yurkovich JT |
2022 |
| High-quality genome-scale metabolic network reconstruction of probiotic bacterium Escherichia coli Nissle 1917 |
van 't Hof M, Mohite OS, Monk JM, Weber T, Palsson BO, Sommer MOA |
2022 |
| Machine Learning of All Mycobacterium tuberculosis H37Rv RNA-seq Data Reveals a Structured Interplay between Metabolism, Stress Response, and Infection |
Yoo R, Rychel K, Poudel S, Al-Bulushi T, Yuan Y, Chauhan S, Lamoureux C, Palsson BO, Sastry A. |
2022 |
| Revealing Causes for False-Positive and False-Negative Calling of Gene Essentiality in Escherichia coli Using Transposon Insertion Sequencing |
Choe D, Kim U, Hwang S, Seo SW, Kim D, Cho S, Palsson B, Cho BK |
2022 |
| Machine learning from Pseudomonas aeruginosa transcriptomes identifies independently modulated sets of genes associated with known transcriptional regulators |
Rajput A, Tsunemoto H, Sastry AV, Szubin R, Rychel K, Sugie J, Pogliano J, Palsson BO |
2022 |
| Pan-Genome Analysis of Transcriptional Regulation in Six Salmonella enterica Serovar Typhimurium Strains Reveals Their Different Regulatory Structures |
Yuan Y, Seif Y, Rychel K, Yoo R, Chauhan S, Poudel S, Al-Bulushi T, Palsson BO, Sastry AV |
2022 |
| Synthetic 3'-UTR valves for optimal metabolic flux control in Escherichia coli |
Choe D, Kim K, Kang M, Lee SG, Cho S, Palsson B, Cho BK |
2022 |
| Coordination of CcpA and CodY Regulators in Staphylococcus aureus USA300 Strains |
Poudel S, Hefner Y, Szubin R, Sastry A, Gao Y, Nizet V, Palsson BO |
2022 |
| System-Level Analysis of Transcriptional and Translational Regulatory Elements in Streptomyces griseus |
Hwang S, Lee N, Choe D, Lee Y, Kim W, Kim JH, Kim G, Kim H, Ahn NH, Lee BH, Palsson BO, Cho BK |
2022 |
| An unexpected role for leucyl aminopeptidase in UV tolerance revealed by a genome-wide fitness assessment in a model cyanobacterium |
Weiss EL, Fang M, Taton A, Szubin R, Palsson BØ, Mitchell BG, Golden SS |
2022 |
| Regulatory perturbations of ribosome allocation in bacteria reshape the growth proteome with a trade-off in adaptation capacity |
Hidalgo D, Martínez-Ortiz CA, Palsson BO, Jiménez JI, Utrilla J. |
2022 |
| Experimental Evolution Reveals Unifying Systems-Level Adaptations but Diversity in Driving Genotypes |
Kavvas ES, Long CP, Sastry A, Poudel S, Antoniewicz MR, Ding Y, Mohamed ET, Szubin R, Monk JM, Feist AM, Palsson BO |
2022 |
| Systems biology approach to functionally assess the Clostridioides difficile pangenome reveals genetic diversity with discriminatory power |
Norsigian CJ, Danhof HA, Brand CK, Midani FS, Broddrick JT, Savidge TC, Britton RA, Palsson BO, Spinler JK, Monk JM |
2022 |
| A systems approach discovers the role and characteristics of seven LysR type transcription factors in Escherichia coli |
Rodionova IA, Gao Y, Monk J, Hefner Y, Wong N, Szubin R, Lim HG, Rodionov DA, Zhang Z, Saier MH Jr, Palsson BO |
2022 |
| Machine-learning from Pseudomonas putida KT2440 transcriptomes reveals its transcriptional regulatory network |
Lim HG, Rychel K, Sastry AV, Bentley GJ, Mueller J, Schindel HS, Larsen PE, Laible PD, Guss AM, Niu W, Johnson CW, Beckham GT, Feist AM, Palsson BO |
2022 |
| Pangenome analysis of Enterobacteria reveals richness of secondary metabolite gene clusters and their associated gene sets |
Mohite OS, Lloyd CJ, Monk JM, Weber T, Palsson BO. |
2022 |
| Identification and Engineering of Transporters for Efficient Melatonin Production in Escherichia coli |
Yang L, Malla S, Özdemir E, Kim SH, Lennen R, Christensen HB, Christensen U, Munro LJ, Herrgård MJ, Kell DB, Palsson BO |
2022 |
| Laboratory evolution of synthetic electron transport system variants reveals a larger metabolic respiratory system and its plasticity |
Anand A, Patel A, Chen K, Olson CA, Phaneuf PV, Lamoureux C, Hefner Y, Szubin R, Feist AM, Palsson BO |
2022 |
| Adaptive laboratory evolution and independent component analysis disentangle complex vancomycin adaptation trajectories |
Fait, A., Seif, Y., Mikkelsen, K., Poudel, S., Wells, J. M., Palsson, B. O., & Ingmer, H. |
2022 |
| Comparative pangenomics: analysis of 12 microbial pathogen pangenomes reveals conserved global structures of genetic and functional diversity |
Hyun JC, Monk JM, Palsson BO |
2022 |
| Positively charged mineral surfaces promoted the accumulation of organic intermediates at the origin of metabolism |
Akbari A, Palsson BO |
2022 |
| Elucidating the Regulatory Elements for Transcription Termination and Posttranscriptional Processing in the Streptomyces clavuligerus Genome. |
Hwang S, Lee N, Choe D, Lee Y, Kim W, Jeong Y, Cho S, Palsson BO, Cho BK |
2021 |
| Re-classification of Streptomyces venezuelae strains and mining secondary metabolite biosynthetic gene clusters |
Lee N, Choi M, Kim W, Hwang S, Lee Y, Kim JH, Kim G, Kim H, Cho S, Kim SC, Palsson B, Jang KS, Cho BK |
2021 |
| The quantitative metabolome is shaped by abiotic constraints |
Akbari A, Yurkovich JT, Zielinski DC, Palsson BO |
2021 |
| Streptomyces as Microbial Chassis for Heterologous Protein Expression |
Hwang S, Lee Y, Kim JH, Kim G, Kim H, Kim W, Cho S, Palsson BO, Cho BK |
2021 |
| Environmental conditions dictate differential evolution of vancomycin resistance in Staphylococcus aureus |
Machado H, Seif Y, Sakoulas G, Olson CA, Hefner Y, Anand A, Jones YZ, Szubin R, Palsson BO, Nizet V, Feist AM |
2021 |
| Computation of condition-dependent proteome allocation reveals variability in the macro and micro nutrient requirements for growth |
Lloyd CJ, Monk J, Yang L, Ebrahim A, Palsson BO |
2021 |
| Genome-scale metabolic modeling reveals key features of a minimal gene set |
Lachance JC, Matteau D, Brodeur J, Lloyd CJ, Mih N, King ZA, Knight TF, Feist AM, Monk JM, Palsson BO, Jacques PÉ, Rodrigue S. |
2021 |
| Identification of a transcription factor, PunR, that regulates the purine and purine nucleoside transporter punC in E. coli |
Rodionova IA, Gao Y, Sastry A, Hefner Y, Lim HG, Rodionov DA, Saier MH Jr, Palsson BO
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2021 |