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Items: 1 to 20 of 39

1.

Deletion of Type I glutamine synthetase deregulates nitrogen metabolism and increases ethanol production in Clostridium thermocellum.

Rydzak T, Garcia D, Stevenson DM, Sladek M, Klingeman DM, Holwerda EK, Amador-Noguez D, Brown SD, Guss AM.

Metab Eng. 2017 Apr 8. pii: S1096-7176(16)30130-6. doi: 10.1016/j.ymben.2017.04.002. [Epub ahead of print]

PMID:
28400329
2.

Specialized activities and expression differences for Clostridium thermocellum biofilm and planktonic cells.

Dumitrache A, Klingeman DM, Natzke J, Rodriguez M Jr, Giannone RJ, Hettich RL, Davison BH, Brown SD.

Sci Rep. 2017 Feb 27;7:43583. doi: 10.1038/srep43583.

3.

Pentose sugars inhibit metabolism and increase expression of an AgrD-type cyclic pentapeptide in Clostridium thermocellum.

Verbeke TJ, Giannone RJ, Klingeman DM, Engle NL, Rydzak T, Guss AM, Tschaplinski TJ, Brown SD, Hettich RL, Elkins JG.

Sci Rep. 2017 Feb 23;7:43355. doi: 10.1038/srep43355.

4.

Improved growth rate in Clostridium thermocellum hydrogenase mutant via perturbed sulfur metabolism.

Biswas R, Wilson CM, Giannone RJ, Klingeman DM, Rydzak T, Shah MB, Hettich RL, Brown SD, Guss AM.

Biotechnol Biofuels. 2017 Jan 3;10:6. doi: 10.1186/s13068-016-0684-x. eCollection 2017.

5.

LacI Transcriptional Regulatory Networks in Clostridium thermocellum DSM1313.

Wilson CM, Klingeman DM, Schlachter C, Syed MH, Wu CW, Guss AM, Brown SD.

Appl Environ Microbiol. 2017 Feb 15;83(5). pii: e02751-16. doi: 10.1128/AEM.02751-16. Print 2017 Mar 1.

PMID:
28003194
6.

Application of Long Sequence Reads To Improve Genomes for Clostridium thermocellum AD2, Clostridium thermocellum LQRI, and Pelosinus fermentans R7.

Utturkar SM, Bayer EA, Borovok I, Lamed R, Hurt RA, Land ML, Klingeman DM, Elias D, Zhou J, Huntemann M, Clum A, Pillay M, Palaniappan K, Varghese N, Mikhailova N, Stamatis D, Reddy TB, Ngan CY, Daum C, Shapiro N, Markowitz V, Ivanova N, Kyrpides N, Woyke T, Brown SD.

Genome Announc. 2016 Sep 29;4(5). pii: e01043-16. doi: 10.1128/genomeA.01043-16.

7.

Enrichment of Root Endophytic Bacteria from Populus deltoides and Single-Cell-Genomics Analysis.

Utturkar SM, Cude WN, Robeson MS Jr, Yang ZK, Klingeman DM, Land ML, Allman SL, Lu TY, Brown SD, Schadt CW, Podar M, Doktycz MJ, Pelletier DA.

Appl Environ Microbiol. 2016 Aug 30;82(18):5698-708. doi: 10.1128/AEM.01285-16. Print 2016 Sep 15.

8.

Strain and bioprocess improvement of a thermophilic anaerobe for the production of ethanol from wood.

Herring CD, Kenealy WR, Joe Shaw A, Covalla SF, Olson DG, Zhang J, Ryan Sillers W, Tsakraklides V, Bardsley JS, Rogers SR, Thorne PG, Johnson JP, Foster A, Shikhare ID, Klingeman DM, Brown SD, Davison BH, Lynd LR, Hogsett DA.

Biotechnol Biofuels. 2016 Jun 16;9:125. doi: 10.1186/s13068-016-0536-8. eCollection 2016.

9.

Replicates, Read Numbers, and Other Important Experimental Design Considerations for Microbial RNA-seq Identified Using Bacillus thuringiensis Datasets.

Manga P, Klingeman DM, Lu TY, Mehlhorn TL, Pelletier DA, Hauser LJ, Wilson CM, Brown SD.

Front Microbiol. 2016 May 31;7:794. doi: 10.3389/fmicb.2016.00794. eCollection 2016.

10.

Near-Complete Genome Sequence of Clostridium paradoxum Strain JW-YL-7.

Lancaster WA, Utturkar SM, Poole FL, Klingeman DM, Elias DA, Adams MW, Brown SD.

Genome Announc. 2016 May 5;4(3). pii: e00229-16. doi: 10.1128/genomeA.00229-16.

11.

Dramatic performance of Clostridium thermocellum explained by its wide range of cellulase modalities.

Xu Q, Resch MG, Podkaminer K, Yang S, Baker JO, Donohoe BS, Wilson C, Klingeman DM, Olson DG, Decker SR, Giannone RJ, Hettich RL, Brown SD, Lynd LR, Bayer EA, Himmel ME, Bomble YJ.

Sci Adv. 2016 Feb 5;2(2):e1501254. doi: 10.1126/sciadv.1501254. eCollection 2016 Feb.

12.

Draft Genome Sequence of Streptomyces vitaminophilus ATCC 31673, a Producer of Pyrrolomycin Antibiotics, Some of Which Contain a Nitro Group.

Mahan KM, Klingeman DM, Hettich RL, Parry RJ, Graham DE.

Genome Announc. 2016 Jan 21;4(1). pii: e01582-15. doi: 10.1128/genomeA.01582-15.

13.

Clostridium thermocellum DSM 1313 transcriptional responses to redox perturbation.

Sander K, Wilson CM, Rodriguez M Jr, Klingeman DM, Rydzak T, Davison BH, Brown SD.

Biotechnol Biofuels. 2015 Dec 12;8:211. doi: 10.1186/s13068-015-0394-9. eCollection 2015.

14.

Draft Genome Sequences of Four Streptomyces Isolates from the Populus trichocarpa Root Endosphere and Rhizosphere.

Klingeman DM, Utturkar S, Lu TY, Schadt CW, Pelletier DA, Brown SD.

Genome Announc. 2015 Nov 12;3(6). pii: e01344-15. doi: 10.1128/genomeA.01344-15.

15.

Near-Complete Genome Sequence of the Cellulolytic Bacterium Bacteroides (Pseudobacteroides) cellulosolvens ATCC 35603.

Dassa B, Utturkar S, Hurt RA, Klingeman DM, Keller M, Xu J, Reddy YH, Borovok I, Rozman Grinberg I, Lamed R, Zhivin O, Bayer EA, Brown SD.

Genome Announc. 2015 Sep 24;3(5). pii: e01022-15. doi: 10.1128/genomeA.01022-15.

16.

Genome-scale resources for Thermoanaerobacterium saccharolyticum.

Currie DH, Raman B, Gowen CM, Tschaplinski TJ, Land ML, Brown SD, Covalla SF, Klingeman DM, Yang ZK, Engle NL, Johnson CM, Rodriguez M, Shaw AJ, Kenealy WR, Lynd LR, Fong SS, Mielenz JR, Davison BH, Hogsett DA, Herring CD.

BMC Syst Biol. 2015 Jun 26;9:30. doi: 10.1186/s12918-015-0159-x.

17.

Sequence data for Clostridium autoethanogenum using three generations of sequencing technologies.

Utturkar SM, Klingeman DM, Bruno-Barcena JM, Chinn MS, Grunden AM, Köpke M, Brown SD.

Sci Data. 2015 Apr 14;2:150014. doi: 10.1038/sdata.2015.14. eCollection 2015.

18.

Analysis of strand-specific RNA-seq data using machine learning reveals the structures of transcription units in Clostridium thermocellum.

Chou WC, Ma Q, Yang S, Cao S, Klingeman DM, Brown SD, Xu Y.

Nucleic Acids Res. 2015 May 26;43(10):e67. doi: 10.1093/nar/gkv177. Epub 2015 Mar 12.

19.

Evaluation and validation of de novo and hybrid assembly techniques to derive high-quality genome sequences.

Utturkar SM, Klingeman DM, Land ML, Schadt CW, Doktycz MJ, Pelletier DA, Brown SD.

Bioinformatics. 2014 Oct;30(19):2709-16. doi: 10.1093/bioinformatics/btu391. Epub 2014 Jun 14.

20.

Draft Genome Sequence of Rhodococcus rhodochrous Strain ATCC 21198.

Shields-Menard SA, Brown SD, Klingeman DM, Indest K, Hancock D, Wewalwela JJ, French WT, Donaldson JR.

Genome Announc. 2014 Feb 13;2(1). pii: e00054-14. doi: 10.1128/genomeA.00054-14.

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