Mukhopadhyay:Publications: Difference between revisions
From OpenWetWare
Jump to navigationJump to search
(27 intermediate revisions by the same user not shown) | |||
Line 3: | Line 3: | ||
==Refereed Publications== | ==Refereed Publications== | ||
===M group pubs=== | ===M group pubs=== | ||
#Rajeev L, Luning, | #Reider-Apel, Ouellet M, Szmidt-Middleton H, Keasling JD, Mukhopadhyay A*, Evolved hexose transporter enhances xylose uptake and glucose/xylose co-utilization in Saccharomyces cerevisiae'' Nature. Sci Rep'' '''2016''' [http://www.nature.com/articles/srep19512 open access] | ||
#Rajeev L, Chen A, Kazakov AE, Luning EG, Zane GM, Novichkov PS, Wall JD, Mukhopadhyay A* Regulation of nitrite stress response in Desulfovibrio vulgaris Hildenborough, a model sulfate-reducing bacterium. ''J Bacteriology.'' '''2015''' [http://jb.asm.org/content/early/2015/08/11/JB.00319-15 online] | |||
#Mukhopadhyay A* Tolerance engineering in bacteria for the production of advanced biofuels and chemicals ''Trends in Microbiology'' '''2015''' [http://www.sciencedirect.com/science/article/pii/S0966842X1500102X open access] | |||
#Chubukov V, Mingardon F, Schackwitz W, Baidoo EEK, Alonso-Gutierrez J, Hu Q, Lee TS, Keasling JD, MukhopadhyayA* Acute limonene toxicity in ''Escherichia coli'' is caused by limonene-hydroperoxide and alleviated by a point mutation in alkyl hydroperoxidase (AhpC) ''AEM'' '''2015''' [http://aem.asm.org/content/early/2015/04/27/AEM.01102-15.abstract online] | |||
#Mingardon F, Clement C, Hirano K, Nhan M, Luning EG, Chanal A, Mukhopadhyay A* Improving olefin tolerance and production in E. coli using native and evolved AcrB. ''Biotechnology and Bioengineering''. '''2015''' [http://onlinelibrary.wiley.com/doi/10.1002/bit.25511/pdf online] | |||
#Foo JL, Jensen HM, Dahl RH, George K, Keasling JD, Lee TS,Leong SSJ, Mukhopadhyay A*. Improving microbial bio-gasoline production in ''Escherichia coli'' using tolerance engineering. ''mBio'' '''2014''' [http://mbio.asm.org/content/5/6/e01932-14 open access] | |||
#Rajeev L, Luning,EG, Altenburg S, Zane GM, Baidoo EE, Catena M, Keasling JD, Wall JD, Fields MW, Mukhopadhyay A*. Identification of a cyclic-di-GMP-modulating response regulator that impacts biofilm formation in a model sulfate reducing bacterium. ''Frontiers in Microbiology 5.'' '''2014''' [http://journal.frontiersin.org/Journal/10.3389/fmicb.2014.00382/abstract open access] | |||
#Frederix M, Hutter K, Leu J, Batth TS, Turner WJ, Rüegg TL, Blanch H, Simmons BA, Adams PD, Keasling JD, Thelen MP, Dunlop MJ, Petzold CJ, Mukhopadhyay A* Development of a native Escherichia coli induction system for ionic liquid tolerance ''Plos One'' '''2014''' [http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0101115 online] | #Frederix M, Hutter K, Leu J, Batth TS, Turner WJ, Rüegg TL, Blanch H, Simmons BA, Adams PD, Keasling JD, Thelen MP, Dunlop MJ, Petzold CJ, Mukhopadhyay A* Development of a native Escherichia coli induction system for ionic liquid tolerance ''Plos One'' '''2014''' [http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0101115 online] | ||
#Rajeev, L., Luning, E. G., Mukhopadhyay, A. DNA-affinity-purified Chip (DAP-chip) Method to Determine Gene Targets for Bacterial Two component Regulatory Systems. ''J. Vis. Exp.'' '''2014''' | #Rajeev, L.*, Luning, E. G., Mukhopadhyay, A. DNA-affinity-purified Chip (DAP-chip) Method to Determine Gene Targets for Bacterial Two component Regulatory Systems. ''J. Vis. Exp.'' '''2014''' | ||
#Ray J, Keller KL, Catena M, Juba TR, Zemla M, Rajeev L, Knierim B, Zane GM, Robertson J, Auer M, Wall JD, Mukhopadhyay A* Exploring the role of CheA3 in Desulfovibrio vulgaris Hildenborough motility ''Frontiers in Microbiology'' '''2014'''[http://journal.frontiersin.org/Journal/10.3389/fmicb.2014.00077/abstract open access] | #Ray J, Keller KL, Catena M, Juba TR, Zemla M, Rajeev L, Knierim B, Zane GM, Robertson J, Auer M, Wall JD, Mukhopadhyay A* Exploring the role of CheA3 in Desulfovibrio vulgaris Hildenborough motility ''Frontiers in Microbiology'' '''2014'''[http://journal.frontiersin.org/Journal/10.3389/fmicb.2014.00077/abstract open access] | ||
# Szmidt-Middleton HL, Ouellet M, Adams PD, Keasling JD, Mukhopadhyay A*. Utilizing a highly responsive gene, ''yhjX'', in ''E. coli'' based production of 1,4-Butanediol ''CES'' '''2013''' [http://www.sciencedirect.com/science/article/pii/S0009250913004673 open access] | # Szmidt-Middleton HL, Ouellet M, Adams PD, Keasling JD, Mukhopadhyay A*. Utilizing a highly responsive gene, ''yhjX'', in ''E. coli'' based production of 1,4-Butanediol ''CES'' '''2013''' [http://www.sciencedirect.com/science/article/pii/S0009250913004673 open access] | ||
Line 22: | Line 28: | ||
===Collaborations=== | ===Collaborations=== | ||
#Kazakov A, Rajeev L, Chenn A, Luning EJ, Dubchak I, Mukhopadhyay A, Novichkov P*, σ54-dependent Regulome in ''Desulfovibrio vulgaris'' Hildenborough ''BMC Genomics'''''2015''' | |||
#Garcıa-Martin∗, Kumar VS, Weaver D, Ghosh A, Chubukov V, Mukhopadhyay A, Arkin AP, Keasling JD. A method to constrain genome-scale models with 13C labeling data. ''PLoS Comput Biol '' '''2015''' | |||
#Rocha UN* , Cadillo-Quiroz H, Karaoz U, Rajeev L, Klitgord N, Dunn S, Truong V, Buenrostro M, Bowen BP, Garcia-Pichel F, Mukhopadhyay A, Northen TR and Brodie EL, Isolation of a significant fraction of non-phototroph diversity from a desert Biological Soil Crust ''Front. Microbiol'' '''2015''' | |||
#Ghosh A, Nilmeier J, Weaver D, Adams PD, Keasling JD, Mukhopadhyay A, Petzold CJ, García-Martín H.A Peptide-Based Method for 13C Metabolic Flux Analysis in Microbial Communities. ''PLoS Comput Biol'' '''2014''' | |||
#Dahl RH, Zhang F, Alonso-Gutierrez J, Baidoo E, Batth TS, Redding-Johanson AM, Petzold CJ, Mukhopadhyay A, Lee TS, Adams PD et al: Engineering dynamic pathway regulation using stress-response promoters. ''Nat Biotechnol'' '''2013'''. | #Dahl RH, Zhang F, Alonso-Gutierrez J, Baidoo E, Batth TS, Redding-Johanson AM, Petzold CJ, Mukhopadhyay A, Lee TS, Adams PD et al: Engineering dynamic pathway regulation using stress-response promoters. ''Nat Biotechnol'' '''2013'''. | ||
#Kazakov A, Rajeev L, Luning EG, Zane G, Siddartha K, Rodionov D, Dubchak I, Arkin A, Wall J, Mukhopadhyay A, Novichkov P. A new family of tungstate-responsive transcriptional regulators in sulfate-reducing bacteria" ''J Bact'' '''2013''' | #Kazakov A, Rajeev L, Luning EG, Zane G, Siddartha K, Rodionov D, Dubchak I, Arkin A, Wall J, Mukhopadhyay A, Novichkov P. A new family of tungstate-responsive transcriptional regulators in sulfate-reducing bacteria" ''J Bact'' '''2013''' | ||
Line 66: | Line 76: | ||
#Dunlop, Mary J.; Keasling, Jay D.; Mukhopadhyay, Aindrila Modified Host Cells with Efflux Pumps U.S. Patent Application Ser. No: 13/115,925 25-May-2011. [http://www.freepatentsonline.com/y2011/0294183.html online] or Go to Berkeley lab [http://www.lbl.gov/Tech-Transfer/techs/lbnl2845.html Tech Transfer] | #Dunlop, Mary J.; Keasling, Jay D.; Mukhopadhyay, Aindrila Modified Host Cells with Efflux Pumps U.S. Patent Application Ser. No: 13/115,925 25-May-2011. [http://www.freepatentsonline.com/y2011/0294183.html online] or Go to Berkeley lab [http://www.lbl.gov/Tech-Transfer/techs/lbnl2845.html Tech Transfer] | ||
#Mukhopadhyay, Aindrila; Mingardon, Florence; Chanal, Angelique. Modified Host Cells Having tolerance to α-Olefins. U.S. Patent Application Ser. No: 61/986,669 30-Apr-2014. | #Mukhopadhyay, Aindrila; Mingardon, Florence; Chanal, Angelique. Modified Host Cells Having tolerance to α-Olefins. U.S. Patent Application Ser. No: 61/986,669 30-Apr-2014. | ||
# Mukhopadhyay, Aindrila, Reider-Apel Amanda, Keasling JD, Discovery of a hexose transporter variant in Sachharomyces cerevisiae that allows growth on xylose” U.S. Patent Application Ser. No: 62/192,517 14-July-2015 | |||
==Recent invited talks== | ==Recent invited talks== | ||
#Mukhopadhyay A, Engineering Microbial Solvent Tolerance using efflux pumps, Gordon research Conference, Lucca, Italy April 24-May 1 2015 | |||
#Mukhopadhyay A, Developing new Transcrip1on factors and promoter systems for S. cerevisiae, Joint Genome Institute, User meeting (Synthetic Biology workshop), Walnut Creek, CA, USA, March 25 2015 | |||
#Mukhopadhyay A, Engineering Solvent Tolerant Bacteria: A Systems Biology Guided Effort, Genomic Science Contractors-Grantees Meeting XIII/USDA-DOE Plant Feedstock Genomics for Bioenergy Meeting, Washington DC, USA, Feb 22-25 2015 [https://www.orau.gov/gsp2015/agenda.htm link] | |||
#Mukhopadhyay A, Engineering Microbial Solvent Tolerance, Departmental Seminar, Dept of Chemical engineering, IIT, Mumbai, India, Feb 10th 2015 | |||
#Mukhopadhyay A, Engineering Microbial Solvent Tolerance, Indo-US Conference and Workshop in Systems and Synthetic Biology, New Delhi, India, Nov 9-12 2014 [https://icares.wustl.edu/programs/Pages/Indo-US-Workshop-on-Synthetic-and-Systems-Biology.aspx link] | |||
#Mukhopadhyay A, Engineering Microbial Solvent Tolerance, SIMB, St Louise MO, USA, Jul 24th 2014 | #Mukhopadhyay A, Engineering Microbial Solvent Tolerance, SIMB, St Louise MO, USA, Jul 24th 2014 | ||
#Mukhopadhyay A, Engineering Microbial Solvent Tolerance, Bioenergy and Photosynthesis Seminar, ASU, Tempe, AZ USA Feb 20th 2014 | #Mukhopadhyay A, Engineering Microbial Solvent Tolerance, Bioenergy and Photosynthesis Seminar, ASU, Tempe, AZ USA Feb 20th 2014 |
Revision as of 22:47, 22 January 2016
Refereed PublicationsM group pubs
Collaborations
M Postdoc and Graduate Research
Book Chapters, Invited articles and Reports
Patents
Recent invited talks
|