Recent Publications and Patents

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Recent Publications and Patents

Engineering membrane and cell-wall programs for tolerance to toxic chemicals: Beyond solo genes
NR Sandoval, ET Papoutsakis
Current Opinion in Microbiology 33, 56-66
  2016
Stable and enhanced gene expression in Clostridium acetobutylicum using synthetic untranslated regions with a stem-loop
J Lee, YS Jang, ET Papoutsakis, SY Lee
Journal of biotechnology 230, 40-43
  2016
Megakaryocytic Maturation in Response to Shear Flow Is Mediated by the Activator Protein 1 (AP-1) Transcription Factor via Mitogen-activated Protein Kinase (MAPK) Mechanotransduction
SA Luff, ET Papoutsakis
Journal of Biological Chemistry 291 (15), 7831-7843
2 2016
Overexpression of two stress-responsive, small, non-coding RNAs, 6S and tmRNA, imparts butanol tolerance in Clostridium acetobutylicum
AJ Jones, KP Venkataramanan, T Papoutsakis
FEMS microbiology letters 363 (8), fnw063
1 2016
Building cellular pathways and programs enabled by the genetic diversity of allo-genomes and meta-genomes
KA Zingaro, ET Papoutsakis
Current opinion in biotechnology 36, 16-31
  2015
Biomass accessibility analysis using electron tomography
JD Hinkle, PN Ciesielski, K Gruchalla, KR Munch, BS Donohoe
Biotechnology for biofuels 8 (1), 1
  2015
Whole-genome sequence of an evolved Clostridium pasteurianum strain reveals Spo0A deficiency responsible for increased butanol production and superior growth
NR Sandoval, KP Venkataramanan, TS Groth, ET Papoutsakis
Biotechnology for biofuels 8 (1), 1
5 2015
The Importance of & a Strategy for Synthetic Methylotrophy
ET Papoutsakis
2015 SIMB Annual Meeting and Exhibition
  2015
Reassessing the progress in the production of advanced biofuels in the current competitive environment and beyond: what are the successes and where progress eludes us and why
ET Papoutsakis
Industrial & Engineering Chemistry Research 54 (42), 10170-10182
5 2015
Synthetic methylotrophy: engineering the production of biofuels and chemicals based on the biology of aerobic methanol utilization
WB Whitaker, NR Sandoval, RK Bennett, AG Fast, ET Papoutsakis
Current opinion in biotechnology 33, 165-175
10 2015
Complex and extensive post-transcriptional regulation revealed by integrative proteomic and transcriptomic analysis of metabolite stress response in Clostridium acetobutylicum
KP Venkataramanan, L Min, S Hou, SW Jones, MT Ralston, KH Lee, …
Biotechnology for biofuels 8 (1), 1
6 2015
Editorial overview: Energy biotechnology
ET Papoutsakis, JT Pronk
Current opinion in biotechnology 33, viii-xi
2 2015
Expression of heterologous sigma factors enables functional screening of metagenomic and heterologous genomic libraries
SM Gaida, NR Sandoval, SA Nicolaou, Y Chen, KP Venkataramanan…
Nature communications 6
8 2015
Engineering complex microbial phenotypes with transcription enhancement
ET Papoutsakis, SM Gaida
US Patent 9,023,618
1 2015
The Clostridium sporulation programs: diversity and preservation of endospore differentiation
MA Al-Hinai, SW Jones, ET Papoutsakis
Microbiology and Molecular Biology Reviews 79 (1), 19-37
15 2015
Editorial overview: Biotechnology and Bioprocess Engineering: celebrating the 65th anniversary of ‘Oxygen Transfer in Submerged Fermentations’, marking the birth of modern Biochemical Engineering

ET Papoutsakis, NJ Titchener-Hooker
Current Opinion in Chemical Engineering, iv-vi
  2015
Capturing the response of Clostridium acetobutylicum to chemical stressors using a regulated genome-scale metabolic model
S Dash, TJ Mueller, KP Venkataramanan, ET Papoutsakis, CD Maranas
Biotechnology for biofuels 7 (1), 1
14 2014
Overexpression of the Lactobacillus plantarum peptidoglycan biosynthesis murA2 gene increases the tolerance of Escherichia coli to alcohols and enhances ethanol production
Y Yuan, C Bi, SA Nicolaou, KA Zingaro, M Ralston, ET Papoutsakis
Applied microbiology and biotechnology 98 (19), 8399-8411
5 2014
Shear enhances thrombopoiesis and formation of microparticles that induce megakaryocytic differentiation of stem cells
J Jiang, DS Woulfe, ET Papoutsakis
Blood 124 (13), 2094-2103
13 2014
Recombinant clostridia that fix CO2 and CO and uses thereof
ET Papoutsakis, MA Al-Hinai, SW Jones, DC Indurthi, DK Mitchell, A Fast
US Patent 8,759,070
5 2014
Proteomic analyses of the phase transition from acidogenesis to solventogenesis using solventogenic and non-solventogenic Clostridium acetobutylicum strains
YS Jang, MJ Han, J Lee, JA Im, YH Lee, ET Papoutsakis, G Bennett, …
Applied microbiology and biotechnology 98 (11), 5105-5115
14 2014
Methods and compositions for generating sporulation deficient bacteria
BP Tracy, CJ Paredes, ET Papoutsakis
US Patent App. 14/274,252
1 2014
Platelets from mice lacking the aryl hydrocarbon receptor exhibit defective collagen‐dependent signaling
S Lindsey, J Jiang, D Woulfe, ET Papoutsakis
Journal of Thrombosis and Haemostasis 12 (3), 383-394
6 2014
Exploring the heterologous genomic space for building, stepwise, complex, multicomponent tolerance to toxic chemicals
KA Zingaro, SA Nicolaou, Y Yuan, ET Papoutsakis
ACS synthetic biology 3 (7), 476-486
7 2014
134. Experimental Systems-Biology Approaches for Clostridia-Based Bioenergy Production: The Metabolite Stress-Response System in Solventogenic Clostridia
ET Papoutsakis
2014 Genomic Science Contractor-Grantee Meeting XII, 230
  2014
σK of Clostridium acetobutylicum is the first known sporulation-specific sigma factor with two developmentally separated roles, one early and one late in sporulation
MA Al-Hinai, SW Jones, ET Papoutsakis
Journal of bacteriology 196 (2), 287-299
16 2014
Editorial overview: Biotechnology and bioprocess engineering
ET Papoutsakis, NJ Titchener-Hooker
Current Opinion in Chemical Engineering, iv-vi
  2014
Overexpression of the peptidoglycan biosynthesis gene increases the tolerance of to alcohols and enhances ethanol production
Y Yuan, C Bi, S Nicolaou, K Zingaro, M Ralston, E Papoutsakis
Applied Microbiology and Biotechnology 19 (98), 8399-8411
  2014
 

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