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Select item 72289001.

From sequence to function: a new workflow for nitrilase identification

Richard Egelkamp, Ines Friedrich, Robert Hertel, Rolf Daniel

Appl Microbiol Biotechnol. 2020; 104(11): 4957–4970. Published online 2020 Apr 14. doi: 10.1007/s00253-020-10544-9

PMCID:: PMC7228900

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Select item 70198662.

Comparative Insights Into the Complete Genome Sequence of Highly Metal Resistant Cupriavidus metallidurans Strain BS1 Isolated From a Gold–Copper Mine

Sohaib H. Mazhar, Martin Herzberg, Ibtissem Ben Fekih, Chenkang Zhang, Suleiman Kehinde Bello, Yuan Ping Li, Junming Su, Junqiang Xu, Renwei Feng, Shungui Zhou, Christopher Rensing

Front Microbiol. 2020; 11: 47. Published online 2020 Feb 7. doi: 10.3389/fmicb.2020.00047

PMCID:: PMC7019866

Article PDF–16M

Select item 68314213.

Whole genome sequencing analysis of a dexamethasone-degrading Burkholderia strain CQ001

Dan Si, Yuxia Xiong, Zhibang Yang, Jin Zhang, Lianju Ma, Jinyang Li, Yi Wang

Medicine (Baltimore) 2019 Aug; 98(33): e16749. Published online 2019 Aug 16. doi: 10.1097/MD.0000000000016749

PMCID:: PMC6831421

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Select item 60061904.

Maturation of the [Ni–4Fe–4S] active site of carbon monoxide dehydrogenases

Mériem Merrouch, Martino Benvenuti, Marco Lorenzi, Christophe Léger, Vincent Fourmond, Sébastien Dementin

J Biol Inorg Chem. 2018; 23(4): 613–620. Published online 2018 Feb 14. doi: 10.1007/s00775-018-1541-0

Correction in:: J Biol Inorg Chem. 2018; 23(4): 621.

PMCID:: PMC6006190

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Select item 47870015.

Illumina error profiles: resolving fine-scale variation in metagenomic sequencing data

Melanie Schirmer, Rosalinda D’Amore, Umer Z. Ijaz, Neil Hall, Christopher Quince

BMC Bioinformatics. 2016; 17: 125. Published online 2016 Mar 11. doi: 10.1186/s12859-016-0976-y

PMCID:: PMC4787001

Article PDF–1.7M

Select item 43494566.

Automated genomic context analysis and experimental validation platform for discovery of prokaryote transcriptional regulator functions

Ricardo Martí-Arbona, Fangping Mu, Kristy L Nowak-Lovato, Melinda S Wren, Clifford J Unkefer, Pat J Unkefer

BMC Genomics. 2014; 15(1): 1142. Published online 2014 Dec 18. doi: 10.1186/1471-2164-15-1142

PMCID:: PMC4349456

Article PDF–1.0M

Select item 30935447.

Phylogenetic Distribution and Evolutionary History of Bacterial DEAD-Box Proteins

Varinia López-Ramírez, Luis D. Alcaraz, Gabriel Moreno-Hagelsieb, Gabriela Olmedo-Álvarez

J Mol Evol. 2011; 72(4): 413–431. Published online 2011 Mar 25. doi: 10.1007/s00239-011-9441-8

PMCID:: PMC3093544

Article PDF–9.0M

Select item 29746428.

Distribution Analysis of Hydrogenases in Surface Waters of Marine and Freshwater Environments

Martin Barz, Christian Beimgraben, Torsten Staller, Frauke Germer, Friederike Opitz, Claudia Marquardt, Christoph Schwarz, Kirstin Gutekunst, Klaus Heinrich Vanselow, Ruth Schmitz, Julie LaRoche, Rüdiger Schulz, Jens Appel

PLoS One. 2010; 5(11): e13846. Published online 2010 Nov 5. doi: 10.1371/journal.pone.0013846

PMCID:: PMC2974642

Article PDF–850K

Select item 27674759.

The 2.1Å Crystal Structure of an Acyl-CoA Synthetase from Methanosarcina acetivorans reveals an alternate acyl binding pocket for small branched acyl substrates

Manish B. Shah, Cheryl Ingram-Smith, Leroy L. Cooper, Jun Qu, Yu Meng, Kerry S. Smith, Andrew M. Gulick

Proteins. Author manuscript; available in PMC 2010 Nov 15.

Published in final edited form as: Proteins. 2009 Nov 15; 77(3): 685–698. doi: 10.1002/prot.22482

PMCID:: PMC2767475

Article PDF–6.6M

Select item 276925210.

Conformational Dynamics in the Acyl-CoA Synthetases, Adenylation Domains of Non-Ribosomal Peptide Synthetases, and Firefly Luciferase

Andrew M. Gulick

ACS Chem Biol. Author manuscript; available in PMC 2010 Oct 16.

Published in final edited form as: ACS Chem Biol. 2009 Oct 16; 4(10): 811–827. doi: 10.1021/cb900156h

PMCID:: PMC2769252

Article PDF–2.8M

Select item 266619311.

Structural Characterization of a 140° Domain Movement in the Two-Step Reaction Catalyzed by 4-Chlorobenzoate:CoA Ligase

Albert S. Reger, Rui Wu, Debra Dunaway-Mariano, Andrew M. Gulick

Biochemistry. Author manuscript; available in PMC 2009 Aug 5.

Published in final edited form as: Biochemistry. 2008 Aug 5; 47(31): 8016–8025. Published online 2008 Jul 12. doi: 10.1021/bi800696y

PMCID:: PMC2666193

Article PDF–5.3M

Select item 232410112.

Diversity of the parB and repA genes of the Burkholderia cepacia complex and their utility for rapid identification of Burkholderia cenocepacia

Pavel Drevinek, Adam Baldwin, Christopher G Dowson, Eshwar Mahenthiralingam

BMC Microbiol. 2008; 8: 44. Published online 2008 Mar 7. doi: 10.1186/1471-2180-8-44

PMCID:: PMC2324101

Article PDF–401K

Select item 176432613.

New metrics for comparative genomics

Michael Y Galperin, Eugene Kolker

Curr Opin Biotechnol. Author manuscript; available in PMC 2007 Oct 1.

Published in final edited form as: Curr Opin Biotechnol. 2006 Oct; 17(5): 440–447. Published online 2006 Sep 15. doi: 10.1016/j.copbio.2006.08.007

PMCID:: PMC1764326

Article PDF–395K

Select item 979630014.

Transcript‐ and annotation‐guided genome assembly of the European starling

Katarina C. Stuart, Richard J. Edwards, Yuanyuan Cheng, Wesley C. Warren, David W. Burt, William B. Sherwin, Natalie R. Hofmeister, Scott J. Werner, Gregory F. Ball, Melissa Bateson, Matthew C. Brandley, Katherine L. Buchanan, Phillip Cassey, David F. Clayton, Tim De Meyer, Simone L. Meddle, Lee A. Rollins

Mol Ecol Resour. 2022 Nov; 22(8): 3141–3160. Published online 2022 Jul 18. doi: 10.1111/1755-0998.13679

PMCID:: PMC9796300

Article PDF–2.2M

Select item 787337315.

Dataset describing biodegradation of individual polychlorinated biphenyl congeners (PCBs) by Paraburkholderia xenovorans LB400 in presence and absence of sediment slurry

Christian M. Bako, Timothy E. Mattes, Rachel F. Marek, Keri C. Hornbuckle, Jerald L. Schnoor

Data Brief. 2021 Apr; 35: 106821. Published online 2021 Jan 30. doi: 10.1016/j.dib.2021.106821

PMCID:: PMC7873373

Article PDF–308K

Select item 793812216.

Information theoretic perspective on genome clustering

Alaguraj Veluchamy, Preeti Mehta, K.V. Srividhya, Hirendra Vikram, M.K. Govind, Ramneek Gupta, Abdul Aziz Bin Dukhyil, Raed Abdullah Alharbi, Saleh Abdullah Aloyuni, Mohamed M. Hassan, S. Krishnaswamy

Saudi J Biol Sci. 2021 Mar; 28(3): 1867–1889. Published online 2020 Dec 31. doi: 10.1016/j.sjbs.2020.12.039

PMCID:: PMC7938122

Article PDF–1.5M

Select item 818316117.

Biodegradation of PCB congeners by Paraburkholderia xenovorans LB400 in presence and absence of sediment during lab bioreactor experiments

Christian M. Bako, Timothy E. Mattes, Rachel F. Marek, Keri C. Hornbuckle, Jerald L. Schnoor

Environ Pollut. Author manuscript; available in PMC 2022 Feb 15.

Published in final edited form as: Environ Pollut. 2021 Feb 15; 271: 116364. Published online 2020 Dec 23. doi: 10.1016/j.envpol.2020.116364

PMCID:: PMC8183161

Article PDF–1.1M

Select item 722671218.

Biosynthesis of acetylacetone inspired by its biodegradation

Yifei Zhou, Yamei Ding, Wenjie Gao, Jichao Wang, Xiutao Liu, Mo Xian, Xinjun Feng, Guang Zhao

Biotechnol Biofuels. 2020; 13: 88. Published online 2020 May 15. doi: 10.1186/s13068-020-01725-9

PMCID:: PMC7226712

Article PDF–4.5M

Select item 601838419.

Whole-Cell MALDI-TOF MS Versus 16S rRNA Gene Analysis for Identification and Dereplication of Recurrent Bacterial Isolates

Michal Strejcek, Tereza Smrhova, Petra Junkova, Ondrej Uhlik

Front Microbiol. 2018; 9: 1294. Published online 2018 Jun 19. doi: 10.3389/fmicb.2018.01294

PMCID:: PMC6018384

Article PDF–1.1M

Select item 471255220.

A comprehensive benchmarking study of protocols and sequencing platforms for 16S rRNA community profiling

Rosalinda D’Amore, Umer Zeeshan Ijaz, Melanie Schirmer, John G. Kenny, Richard Gregory, Alistair C. Darby, Migun Shakya, Mircea Podar, Christopher Quince, Neil Hall

BMC Genomics. 2016; 17: 55. Published online 2016 Jan 14. doi: 10.1186/s12864-015-2194-9