The DOI matches its Crossref record; 50 of the 50 references it cites were found in a registry or an index.
Global Transcriptional Programs Reveal a Carbon Source Foraging Strategy by Escherichia coli
Open accessAbstract
By exploring global gene expression of Escherichia coli growing on six different carbon sources, we discovered a striking genome transcription pattern: as carbon substrate quality declines, cells systematically increase the number of genes expressed. Gene induction occurs in a hierarchical manner and includes many factors for uptake and metabolism of better but currently unavailable carbon sources. Concomitantly, cells also increase their motility. Thus, as the growth potential of the environment decreases, cells appear to devote progressively more energy on the mere possibility of improving conditions. This adaptation is not what would be predicated by classic regulatory models alone. We also observe an inverse correlation between gene activation and rRNA synthesis suggesting that reapportioning RNA polymerase (RNAP) contributes to the expanded genome activation. Significant differences in RNAP distribution in vivo, monitored using an RNAP-green fluorescent protein fusion, from energy-rich and energy-poor carbon source cultures support this hypothesis. Together, these findings represent the integration of both substrate-specific and global regulatory systems, and may be a bacterial approximation to metazoan risk-prone foraging behavior.
Overview
Integrity signals
Registry
Cites
Statistics
Verification
Claims the paper makes
Claims other papers make about this one
Each is checked against this paper’s own text: does it say what the citing paper says it does?
In the citing paper
“As such, ALE studies highlight that duplications and large scale genomic variations, although they can lead to significant issues such as genomic instability [152], play a major role in e.g. yeast evolution; this is also indicated by data on wine yeasts, galactose utilization, comparative genomics and drug resistance [115,153-156].”
From Adaptive laboratory evolution—Principles and applications for biotechnology (2013) · cites this paper as [152]
Citations
Cites
Genetic regulatory mechanisms in the synthesis of proteins.
Jacob, F., & Monod, J. (1961) · Journal of Molecular Biology · doi:10.1016/s0022-2836(61)80072-7 · Cited by 5,300
Culture Medium for Enterobacteria
Neidhardt, F. C., Bloch, P. L., & Smith, D. F. (1974) · Journal of Bacteriology · doi:10.1128/jb.119.3.736-747.1974 · Cited by 2,903
Winer, J., Jung, C. K. S., Shackel, I., & Williams, P. M. (1999) · Analytical Biochemistry · doi:10.1006/abio.1999.4085 · Cited by 1,393
Hughes, J. D., Estep, P. W., Tavazoie, S., & Church, G. M. (2000) · Journal of Molecular Biology · doi:10.1006/jmbi.2000.3519 · Cited by 1,008
Hengge‐Aronis, R. (2002) · Microbiology and Molecular Biology Reviews · doi:10.1128/mmbr.66.3.373-395.2002 · Cited by 931
TRANSCRIPTIONAL REGULATION BY cAMP AND ITS RECEPTOR PROTEIN
Kolb, A., Busby, S. J. W., BUC, H. C., Garges, S., & Adhya, S. L. (1993) · Annual Review of Biochemistry · doi:10.1146/annurev.bi.62.070193.003533 · Cited by 848
Sperandio, V., Torres, A. G., & Kaper, J. B. (2002) · Molecular Microbiology · doi:10.1046/j.1365-2958.2002.02803.x · Cited by 523
Lange, R., & Hengge‐Aronis, R. (1994) · Genes & Development · doi:10.1101/gad.8.13.1600 · Cited by 509
The languages of bacteriaPreprint
Schauder, S., & Bassler, B. L. (2001) · Genes & Development · doi:10.1101/gad.899601 · Cited by 462
Karp, P. D. (2002) · Nucleic Acids Research · doi:10.1093/nar/30.1.56 · Cited by 453
Research works printed but not linked: 5
- Haralick, 1973, IEEE Trans. SMC, 3, 610
- Hengge-Aronis, 2002, J. Mol. Microbiol. Biotechnol., 4, 341
- Weyn, 2000, Anal. Quant. Cytol. Histol., 22, 373
- Cashel, 1996, 1, 1458
- Bremer, 1996, 2, 1553
Cited by
Sorted by citations
Items 101–200 of 209
A role for EIIA Ntr in controlling fluxes in the central metabolism of E. coli K12
Jahn, S., van Rijsewijk, B. R. B. H., Sauer, U., & Bettenbrock, K. (2013) · Biochimica et Biophysica Acta (BBA) - Molecular Cell Research · doi:10.1016/j.bbamcr.2013.07.011 · Cited by 27
In vivo compaction dynamics of bacterial DNA: A fingerprint of DNA/RNA demixing?
Joyeux, M. (2016) · Current Opinion in Colloid & Interface Science · doi:10.1016/j.cocis.2016.08.005 · Cited by 27
Directed strain evolution restructures metabolism for 1-butanol production in minimal media
Pontrelli, S., Fricke, R., Sakurai, S. S. M., Putri, S. P., Fitz‐Gibbon, S. T., Chung, M., Wu, H., Chen, Y., Pellegrini, M. A., Fukusaki, E., et al. (2018) · Metabolic Engineering · doi:10.1016/j.ymben.2018.08.004 · Cited by 27
Thakur, C. S., Brown, M. E., Sama, J. N., Jackson, M. E., & Dayie, T. K. (2010) · Applied Microbiology and Biotechnology · doi:10.1007/s00253-010-2813-y · Cited by 27
How Many Initiator tRNA Genes Does Escherichia coli Need?
Samhita, L., Nanjundiah, V., & Varshney, U. (2014) · Journal of Bacteriology · doi:10.1128/jb.01620-14 · Cited by 25
Inferring Carbon Sources from Gene Expression Profiles Using Metabolic Flux Models
Brandes, A., Lun, D. S., Ip, K., Zucker, J., Colijn, C., Weiner, B., & Galagan, J. E. (2012) · PLoS ONE · doi:10.1371/journal.pone.0036947 · Cited by 25
Distinct transcriptional regulation of the two Escherichia coli transhydrogenases PntAB and UdhA
van Rijsewijk, B. R. B. H., Kochanowski, K., Heinemann, M., & Sauer, U. (2016) · Microbiology · doi:10.1099/mic.0.000346 · Cited by 25
Zhao, R., Chen, G., Liu, L., Zhang, W., Sun, Y., Li, B., & Wang, G. (2020) · Environmental Pollution · doi:10.1016/j.envpol.2020.113924 · Cited by 24
Time-series analysis of the transcriptome and proteome of Escherichia coli upon glucose repression
Borirak, O., Rolfe, M. D., de Koning, L. J., Hoefsloot, H. C. J., Bekker, M., Dekker, H. L., Roseboom, W., Green, J. D., de Koster, C. G., & Hellingwerf, K. J. (2015) · Biochimica et Biophysica Acta (BBA) - Proteins and Proteomics · doi:10.1016/j.bbapap.2015.05.017 · Cited by 26
The propagation of perturbations in rewired bacterial gene networks
Baumstark, R., Hänzelmann, S., Tsuru, S., Schaerli, Y., Francesconi, M., Mancuso, F. M., Castelo, R., & Isalan, M. (2015) · Nature Communications · doi:10.1038/ncomms10105 · Cited by 22
Flores, S., Flores, N., Anda, R. D., González, A., Escalante, A., Sigala, J., Gosset, G., & Bolívar, F. G. (2005) · Microbial Physiology · doi:10.1159/000090348 · Cited by 23
Vankadari, N., & Hsiao, C. (2016) · PLoS ONE · doi:10.1371/journal.pone.0157165 · Cited by 22
Wu, H. C., Li, Z., Zhou, L., Jingli, X., & Ye, Q. (2008) · Enzyme and Microbial Technology · doi:10.1016/j.enzmictec.2008.10.016 · Cited by 23
Baldazzi, V., Ropers, D., Geiselmann, J., Kahn, D., & de Jong, H. (2011) · Journal of Theoretical Biology · doi:10.1016/j.jtbi.2011.11.010 · Cited by 23
Commensal and Pathogenic Escherichia coli Metabolism in the Gut
Conway, T., & Cohen, P. S. (2015) · ASM Press eBooks · doi:10.1128/9781555818883.ch16 · Cited by 22
Li, Z., Pan, Q., Xiao, Y., Fang, X., Shi, R., Fu, C., Danchin, A., & You, C. (2018) · Microbial Biotechnology · doi:10.1111/1751-7915.13343 · Cited by 18
Yang, C.-L., Chen, X., Wang, R., Lin, J., Liu, X., Pang, X., Zhang, C., Lin, J.-Q., & Chen, L. (2019) · Frontiers in Microbiology · doi:10.3389/fmicb.2019.01130 · Cited by 20
Zhou, Y., Vázquez, A., Wise, A. S., Warita, T., Warita, K., Bar‐Joseph, Z., & Oltvai, Z. N. (2013) · BMC Systems Biology · doi:10.1186/1752-0509-7-138 · Cited by 20
Potrykus, K., Murphy, H., Chen, X., Epstein, J. A., & Cashel, M. (2009) · Nucleic Acids Research · doi:10.1093/nar/gkp1150 · Cited by 19
Catabolite repression in Campylobacter jejuni correlates with intracellular succinate levels
van der Stel, A., van de Lest, C. H. A., Huynh, S., Parker, C. T., van Putten, J. P. M., & Wösten, M. M. S. M. (2018) · Environmental Microbiology · doi:10.1111/1462-2920.14042 · Cited by 19
Biological Prescience: The Role of Anticipation in Organismal Processes
Deans, C. (2021) · Frontiers in Physiology · doi:10.3389/fphys.2021.672457 · Cited by 18
Zhu, Y., Song, J., Xu, Z., Sun, J., Zhang, Y., Li, Y., & Ma, Y. (2012) · Biotechnology and Bioengineering · doi:10.1002/bit.24739 · Cited by 18
Evolution and stability of complex microbial communities driven by trade-offs
Huang, Y., Mukherjee, A., Schink, S. J., Benites, N. C., & Basan, M. (2024) · Molecular Systems Biology · doi:10.1038/s44320-024-00051-8 · Cited by 16
Genomes and Genome-Level Engineering of Amino Acid-Producing Bacteria
Yukawa, H., Inui, M., & Vertès, A. A. (2006) · Springer eBooks · doi:10.1007/7171_2006_066 · Cited by 16
Chen, G., Zhu, N., Tang, Z., Ye, P., Hu, Z., & Liu, L. (2013) · Applied Microbiology and Biotechnology · doi:10.1007/s00253-013-5109-1 · Cited by 16
Reconstructing transcription factor activities in hierarchical transcription network motifs
Ocone, A., & Sanguinetti, G. (2011) · Bioinformatics · doi:10.1093/bioinformatics/btr487 · Cited by 16
Chalova, V. I., Hernández‐Hernández, O., Muthaiyan, A., Sirsat, S. A., Natesan, S., Sanz, M. L., Moreno, F. J., O’Bryan, C. A., Crandall, P. G., & Ricke, S. C. (2011) · Food Research International · doi:10.1016/j.foodres.2011.06.044 · Cited by 16
Structural analysis of metabolic networks based on flux centrality
Dirk Koschützki, A., Junker, B. H., Schwender, J., & Schreiber, F. (2010) · Journal of Theoretical Biology · doi:10.1016/j.jtbi.2010.05.009 · Cited by 14
Connecting quantitative regulatory-network models to the genome
Pan, Y., Durfee, T., Bockhorst, J. P., & Craven, M. W. (2007) · Bioinformatics · doi:10.1093/bioinformatics/btm228 · Cited by 14
Self-citationAssessment of transcriptomic constraint-based methods for central carbon flux inference
Bhadra-Lobo, S., Kim, M. K., & Lun, D. S. (2020) · PLoS ONE · doi:10.1371/journal.pone.0238689 · Cited by 11
A kinetic platform for in silico modeling of the metabolic dynamics in Escherichia coli
Solapure, S. M., Barve, A., Gupta, A., Kumar, A., Ramachandran, V., Seshadri, K., Vali, S., & Datta, S. (2010) · Advances and Applications in Bioinformatics and Chemistry · doi:10.2147/aabc.s14368 · Cited by 13
Lescat, M., Hoede, C., Clermont, O., Garry, L., Darlu, P., Tufféry, P., Denamur, É., & Picard, B. (2009) · BMC Microbiology · doi:10.1186/1471-2180-9-273 · Cited by 13
Bhosale, M., Kumar, A., Das, M., Bhaskarla, C., Agarwal, V., & Nandi, D. (2012) · Microbiological Research · doi:10.1016/j.micres.2012.06.003 · Cited by 12
Recombinant Protein Production with Escherichia coli in Glucose and Glycerol Limited Chemostats
Mitchell, A. M., Gogulancea, V., Smith, W. D., Wipat, A., & Ofiţeru, I. D. (2021) · Applied Microbiology · doi:10.3390/applmicrobiol1020018 · Cited by 11
Zhang, R., Hartline, C. J., & Zhang, F. (2024) · mSystems · doi:10.1128/msystems.01295-24 · Cited by 11
Genome reduction improves octanoic acid production in scale down bioreactors
Cordell, W. T., Avolio, G., Takors, R., & Pfleger, B. F. (2024) · Microbial Biotechnology · doi:10.1111/1751-7915.70034 · Cited by 11
Heins, A., Lundin, L., Nunes, I., Gernaey, K. V., Sørensen, S. J., & Lantz, A. E. (2019) · Biotechnology Progress · doi:10.1002/btpr.2796 · Cited by 11
Correction: Inferring Carbon Sources from Gene Expression Profiles Using Metabolic Flux Models
Brandes, A., Lun, D. S., Ip, K., Zucker, J., Colijn, C., Weiner, B., & Galagan, J. E. (2012) · PLoS ONE · doi:10.1371/annotation/139857f3-5a05-4a23-9bfe-a77aafbce54d · Cited by 11
Transcriptome Changes Associated with Anaerobic Growth in Yersinia intermedia (ATCC29909)
Babujee, L., Venkatesh, B., Kiley, P. J., Glasner, J. D., & Perna, N. T. (2013) · PLoS ONE · doi:10.1371/journal.pone.0076567 · Cited by 10
Pan, Q., Li, Z., Ju, X., Hou, C., Xiao, Y., Shi, R., Fu, C., Danchin, A., & You, C. (2021) · Microbial Biotechnology · doi:10.1111/1751-7915.13776 · Cited by 9
Plasticity of growth laws tunes resource allocation strategies in bacteria
Mukherjee, A., Chang, Y., Huang, Y., Benites, N. C., Ammar, L., Ealy, J., Polk, M., & Basan, M. (2024) · PLoS Computational Biology · doi:10.1371/journal.pcbi.1011735 · Cited by 10
Degradation of Aromatic Compounds in Pseudomonas: A Systems Biology View
Nogales, J., García, J. L., & Dı́az, E. (2019) · Springer eBooks · doi:10.1007/978-3-319-50418-6_32 · Cited by 10
Umehara, S., Hattori, A., Inoue, I., & Yasuda, K. (2007) · Biochemical and Biophysical Research Communications · doi:10.1016/j.bbrc.2007.03.001 · Cited by 9
Detection of Gene Expressions in Microarrays by Applying Iteratively Elastic Neural Net
Chacón, M., Levano, M. A., Allende, H., & Nowak, H. (2007) · Lecture notes in computer science · doi:10.1007/978-3-540-71629-7_40 · Cited by 8
Expression of Multiple Stress Response Genes by Escherichia Coli Under Modeled Reduced Gravity
Vukanti, R., & Leff, L. G. (2012) · Microgravity Science and Technology · doi:10.1007/s12217-012-9310-0 · Cited by 8
Schriek, S., Aguirre‐von‐Wobeser, E., Nodop, A., Becker, A., Ibelings, B. W., Bok, J., Staiger, D., Matthijs, H. C. P., Pistorius, E. K., & Michel, K. (2008) · Physiologia Plantarum · doi:10.1111/j.1399-3054.2008.01119.x · Cited by 8
Fundamental limits on the rate of bacterial growthPreprint
Belliveau, N. M., Chure, G., Hueschen, C. L., García, H. G., Kondev, J., Fisher, D. S., Theriot, J. A., & Phillips, R. (2020) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2020.10.18.344382 · Cited by 8
Molecular physiology of the dynamic regulation of carbon catabolite repression in Escherichia coli
Borirak, O., Bekker, M., & Hellingwerf, K. J. (2014) · Microbiology · doi:10.1099/mic.0.077289-0 · Cited by 7
Differential quantitative proteome analysis of Escherichia coli grown on acetate versus glucose
Treitz, C., Enjalbert, B., Portais, J., Létisse, F., & Tholey, A. (2016) · PROTEOMICS · doi:10.1002/pmic.201600303 · Cited by 7
Youngquist, J. T., Korosh, T. C., & Pfleger, B. F. (2016) · Journal of Industrial Microbiology & Biotechnology · doi:10.1007/s10295-016-1846-3 · Cited by 7
Seong, H. J., & Jang, Y. (2021) · Applied Biological Chemistry · doi:10.1186/s13765-021-00627-0 · Cited by 6
Small RNA-Based Regulation of Bacterial Quorum Sensing and Biofilm Formation
Svenningsen, S. L. (2018) · ASM Press eBooks · doi:10.1128/9781683670247.ch17 · Cited by 7
An equation for biomimicking macromolecular crowding using Escherichia coli MG1655 strain
Khambhati, K., Gohil, N., Bhattacharjee, G., Panchasara, H., & Singh, V. (2019) · Biophysical Chemistry · doi:10.1016/j.bpc.2019.106244 · Cited by 6
Regulatory Coupling of Nitrogen and Carbon Metabolism in Nitrogen‐FixingPseudomonas stutzeriA1501
Lin, M., Yan, Y., Lü, W., Zhan, Y., Zhang, Y., & Elmerich, C. (2015) · Biological nitrogen fixation · doi:10.1002/9781119053095.ch10 · Cited by 6
Chittò, M., Tutschner, D., Dobrindt, U., Galstyan, A., & Berger, M. (2025) · Communications Biology · doi:10.1038/s42003-025-08881-4 · Cited by 6
Chakraborty, S., Singh, P., & Seshasayee, A. S. N. (2022) · mSystems · doi:10.1128/msystems.00900-22 · Cited by 6
Gurramkonda, C., Talha, S. M., Gudi, S. K., Gogineni, V. R., & Rao, K. R. S. S. (2012) · Biotechnology and Applied Biochemistry · doi:10.1002/bab.1044 · Cited by 5
Xiang, G., Li, J., Duan, J., Shao, F., Xu, J. J., Fu, S., & Gong, H. (2013) · Biotechnology Letters · doi:10.1007/s10529-013-1232-4 · Cited by 5
Towards a Better Control of Engineered Circuit Transcription in Bacterial Genomes
Sarica, N., Jannière, L., & Jester, B. C. (2025) · Applied Microbiology · doi:10.3390/applmicrobiol5010017 · Cited by 4
Vichi, J., Salazar, E. P., Jacinto, V. J., Rodriguez, L. O., Grande, R., Dantán‐González, E., Morett, E., & Hernández-Mendoza, A. (2021) · PLoS ONE · doi:10.1371/journal.pone.0248513 · Cited by 4
Involvement of RpoN in regulating stress response, biofilm formation and virulence of Vibrio mimicus
Jiang, Z., Zhang, Y., Zhu, X., Zhou, Y., Qian, Q., Gao, X., Jiang, Q., & Zhang, X. (2023) · Aquaculture · doi:10.1016/j.aquaculture.2023.740116 · Cited by 4
Correlation and variation-based method for identifying reference genes from large datasets.
Chan, O. Y. W., Keng, B. M. H., & Ling, M. H. (2014) · PubMed Central · doi:10.14661/2014.719-727 · Cited by 4
Studies on Methylmalonyl-CoA Mutase from Escherichia coli
Kannan, S. M. (2008) · WestminsterResearch (University of Westminster) · doi:10.34737/91652 · Cited by 4
Chakraborty, S., Ardern, Z., Aliyu, H., & Kaster, A. (2025) · Computational and Structural Biotechnology Journal · doi:10.1016/j.csbj.2025.07.036 · Cited by 3
Characterization of the response of Escherichia coli to l ‐fucose in bacterial swimming motility
Li, J., Chen, J., Wang, L., Lin, Y., Zhang, X., Liu, J., & Wang, F. (2022) · Journal of Basic Microbiology · doi:10.1002/jobm.202200054 · Cited by 3
Bouveret, E., & Battesti, A. (2014) · ASM Press eBooks · doi:10.1128/9781555816841.ch14 · Cited by 3
Jin, D. J., Cagliero, C., Izard, J., Martín, C. M., & Zhou, Y. N. (2016) · doi:10.1002/9781119004813.ch6 · Cited by 3
Self-citationModel driven analysis of Escherichia coli metabolism
Reed, J. L. (2005) · eScholarship (California Digital Library) · Cited by 3
Physiological Adaptability and Parametric Versatility in a Simple Genetic CircuitPreprint
Chure, G., Kaczmarek, Z. A., & Phillips, R. (2019) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2019.12.19.878462 · Cited by 3
Physics and physiology determine strategies of bacterial investment in flagellar motilityPreprint
Lisevich, I., Colin, R., Yang, H., Ni, B., & Sourjik, V. (2024) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2024.03.30.587422 · Cited by 3
Grebe, L. A., Richter, P., Altenkirch, T., Mann, M., Müller, M., Büchs, J., & Magnus, J. B. (2024) · Bioprocess and Biosystems Engineering · doi:10.1007/s00449-024-03117-x · Cited by 3
Avolio, G., Klaffl, S., & Takors, R. (2026) · Engineering in Life Sciences · doi:10.1002/elsc.70080 · Cited by 2
Metabolic regulation by global regulators in response to culture environment
Shimizu, K. (2013) · Elsevier eBooks · doi:10.1533/9781908818201.95 · Cited by 2
Regulation of Carbon Assimilation in Bacteria
PLUMBRIDGE, J. A. (2009) · Elsevier eBooks · doi:10.1016/b978-012373944-5.00067-5 · Cited by 2
Aucello, R., Pernice, S., Tortarolo, D., Calogero, R., Herrera‐Rincon, C., Ronchi, G., Geuna, S., Cordero, F., Lió, P., & Beccuti, M. (2025) · Bioinformatics · doi:10.1093/bioinformatics/btaf103 · Cited by 1
Jiang, S., Halbleib, A., Antonovics, J., Remus‐Emsermann, M. N. P., Rillig, M. C., & Mansour, I. (2026) · Communications Biology · doi:10.1038/s42003-026-10390-x · Cited by 1
Engineering Bacterial Sugar Catabolism and Tolerance Toward Lignocellulose Conversion
Flores, A. D., Kurgan, G., & Wang, X. (2017) · Springer eBooks · doi:10.1007/978-3-319-51729-2_6 · Cited by 1
Tiwari, R., Sathesh‐Prabu, C., & Lee, S. K. (2022) · Elsevier eBooks · doi:10.1016/b978-0-323-88504-1.00017-0 · Cited by 1
Rational Efforts to Streamline the Escherichia coli Genome
Balikó, G., Vernyik, V., Karcagi, I., Györfy, Z., Draskovits, G., Fehér, T., & Pósfai, G. (2018) · Wiley eBooks · doi:10.1002/9783527688104.ch4 · Cited by 1
Nautiyal, A. K., Nautiyal, A. K., Jana, A., Jana, A., Bhattacharya, S., Sharma, T., Sharma, T., Bansal, N., Bansal, N., Ogetiammini, S. S., et al. (2018) · doi:10.1002/9781119460381.ch11 · Cited by 1
Non‐refined Carbon Sources and Microbial Performance
Kaur, G. (2018) · Wiley eBooks · doi:10.1002/9781119248002.ch4 · Cited by 1
Transcriptional regulation of central metabolism in Escherichia coli
van Rijsewijk, B. R. B. H. (2012) · Repository for Publications and Research Data (ETH Zurich) · doi:10.3929/ethz-a-007196085 · Cited by 1
Validation of novel protein-protein interactions in Bacillus subtilis
Bremenkamp, R. (2023) · doi:10.53846/goediss-9661 · Cited by 1
Zhou, Y. (2011) · D-Scholarship@Pitt (University of Pittsburgh)
Baldazzi, V., Ropers, D., Geiselmann, J., Kahn, D., & de Jong, H. (2011) · IFAC Proceedings Volumes · doi:10.3182/20110828-6-it-1002.03129
Genome-Scale Models and the Genetic Basis for E. coli Adaptation
Applebee, M. K., & Palsson, B. Ø. (2009) · Springer eBooks · doi:10.1007/978-1-4020-9394-4_12
Transcription Control in Bacteria
Jin, D. J., & Zhou, Y. N. (2007) · Springer eBooks · doi:10.1007/978-0-387-40049-5_34
Self-citationLevano, M. A. (2015) · Communications in computer and information science · doi:10.1007/978-3-319-23983-5_6
Development and use of engineered peptide deformylase in chemoenzymatic peptide synthesis
Toma, C. D. (2012) · University of Groningen research database (University of Groningen / Centre for Information Technology)
Experimental evolution with bacteria in complex environments
Hall, A. R. (2009) · OpenGrey (Institut de l'Information Scientifique et Technique)
Huynh, N. H. (2021) · Adelaide Research & Scholarship (AR&S) (University of Adelaide)
Regulation of Carbon Assimilation in Bacteria
PLUMBRIDGE, J. A., & Deutscher, J. (2014) · Elsevier eBooks · doi:10.1016/b978-0-12-801238-3.02454-5
Chakraborty, S., Singh, P., & Seshasayee, A. S. N. (2022) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2022.06.15.496256
Biological Prescience: The Role of Anticipation in Organismal DesignPreprint
Deans, C. (2024) · doi:10.22541/au.170664603.30714038/v1
Sandoval, C. M. C., & Salmond, G. P. C. (2025) · Frontiers in Microbiology · doi:10.3389/fmicb.2024.1500889
Jiang, S., Halbleib, A., Antonovics, J., Remus‐Emsermann, M. N. P., Rillig, M. C., & Mansour, I. (2026) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.64898/2026.01.14.699458
Kumar, R., & Shivakumar, S. (2026) · Bioresource Technology Reports · doi:10.1016/j.biteb.2026.102619
Metadata
- Authors
- Liu, M., Durfee, T., Cabrera, J. E., Zhao, K., Jin, D. J., & Blattner, F. R.
- Affiliations
- University of Wisconsin–Madison (US)
- National Institutes of Health (US)
- Corresponding author
- Blattner, Frederick R.
- ORCID
- Liu, Mingzhu
- Venue
- Journal of Biological Chemistry
- Publisher
- Elsevier BV
- Published
- 2005-04
- Volume
- 280
- Issue
- 16
- Pages
- 15921-15927
- ISSN
- 0021-9258 (ISSN-L)
- OpenAlex
- W2081114359
- Cited by
- 209
- References
- 50
- Citations by year
- 2026: 7 · 2025: 6 · 2024: 7 · 2023: 2 · 2022: 8 · 2021: 11 · 2020: 8 · 2019: 8 · 2018: 13 · 2017: 5 · 2016: 9 · 2015: 11 · 2014: 10 · 2013: 13 · 2012: 16
- FWCI
- 7.94
- Type
- journal article
- Language
- en
- Open access
- hybrid
- doi.org
- Licence
- Locations
- Journal of Biological Chemistry (publishedVersion, cc-by)
- PubMed (publishedVersion)
- Funders
- National Institute of General Medical Sciences (GM35682-17S1, R01GM035682)
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Bacterial Genetics and Biotechnology
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Gene Regulatory Network Analysis
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Microbial Metabolic Engineering and Bioproduction
- Keywords
- Escherichia coli, global gene expression, ribosomal RNA synthesis, bacterial motility, energy allocation
- MeSH terms
- Alanine, Carbon, Computer Simulation, Escherichia coli, Glucose, Glycerol, Models, Biological, Proline, Promoter Regions, Genetic, RNA, Ribosomal, Transcription, Genetic, Up-Regulation, Acetic Acid, Succinic Acid, Gene Expression Profiling
About these checks
Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.
Statistics and arithmetic are recomputed, not judged.
Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.
What counts as a claim ›How we measure confidence ›How we check this ›
Are you an author, or do you see a problem with this page? Request a review