PMC Links for Nucleotide (Select 46562128) - PMC

Aifen Zhou, Rebecca Lau, Richard Baran, Jincai Ma, Frederick von Netzer, Weiling Shi, Drew Gorman-Lewis, Megan L. Kempher, Zhili He, Yujia Qin, Zhou Shi, Grant M. Zane, Liyou Wu, Benjamin P. Bowen, Trent R. Northen, Kristina L. Hillesland, David A. Stahl, Judy D. Wall, Adam P. Arkin, Jizhong Zhou

mBio. 2017 Nov-Dec; 8(6): e01780-17. Published online 2017 Nov 14. doi: 10.1128/mBio.01780-17

PMCID:: PMC5686539

Article PDF–1.6M

Select item 56462575.

Unintended Laboratory-Driven Evolution Reveals Genetic Requirements for Biofilm Formation by Desulfovibrio vulgaris Hildenborough

Kara B. De León, Grant M. Zane, Valentine V. Trotter, Gregory P. Krantz, Adam P. Arkin, Gareth P. Butland, Peter J. Walian, Matthew W. Fields, Judy D. Wall

mBio. 2017 Sep-Oct; 8(5): e01696-17. Published online 2017 Oct 17. doi: 10.1128/mBio.01696-17

PMCID:: PMC5646257

Article PDF–1.4M

Select item 54883736.

SparkBLAST: scalable BLAST processing using in-memory operations

Marcelo Rodrigo de Castro, Catherine dos Santos Tostes, Alberto M. R. Dávila, Hermes Senger, Fabricio A. B. da Silva

BMC Bioinformatics. 2017; 18: 318. Published online 2017 Jun 27. doi: 10.1186/s12859-017-1723-8

PMCID:: PMC5488373

Article PDF–1.4M

Select item 53717347.

Mechanism for microbial population collapse in a fluctuating resource environment

Serdar Turkarslan, Arjun V Raman, Anne W Thompson, Christina E Arens, Mark A Gillespie, Frederick von Netzer, Kristina L Hillesland, Sergey Stolyar, Adrian López García de Lomana, David J Reiss, Drew Gorman‐Lewis, Grant M Zane, Jeffrey A Ranish, Judy D Wall, David A Stahl, Nitin S Baliga

Mol Syst Biol. 2017 Mar; 13(3): 919. Published online 2017 Mar 20. doi: 10.15252/msb.20167058

PMCID:: PMC5371734

Article PDF–945K

Select item 52898358.

The Role of +4U as an Extended Translation Termination Signal in Bacteria

Yulong Wei, Xuhua Xia

Genetics. 2017 Feb; 205(2): 539–549. Published online 2016 Nov 29. doi: 10.1534/genetics.116.193961

PMCID:: PMC5289835

Article PDF–1.5M

Select item 50077629.

Antimicrobial Effects of Free Nitrous Acid on Desulfovibrio vulgaris: Implications for Sulfide-Induced Corrosion of Concrete

Shu-Hong Gao, Jun Yuan Ho, Lu Fan, David J. Richardson, Zhiguo Yuan, Philip L. Bond

Appl Environ Microbiol. 2016 Sep 15; 82(18): 5563–5575. Prepublished online 2016 Jul 1. Published online 2016 Aug 30. doi: 10.1128/AEM.01655-16

PMCID:: PMC5007762

Article PDF–1.3M

Select item 498793510.

Comparative transcriptomics across the prokaryotic tree of life

Ofir Cohen, Shany Doron, Omri Wurtzel, Daniel Dar, Sarit Edelheit, Iris Karunker, Eran Mick, Rotem Sorek

Nucleic Acids Res. 2016 Jul 8; 44(Web Server issue): W46–W53. Published online 2016 May 6. doi: 10.1093/nar/gkw394

PMCID:: PMC4987935

Article PDF–3.6M

Select item 461150111.

Rapid selective sweep of pre-existing polymorphisms and slow fixation of new mutations in experimental evolution of Desulfovibrio vulgaris

Aifen Zhou, Kristina L Hillesland, Zhili He, Wendy Schackwitz, Qichao Tu, Grant M Zane, Qiao Ma, Yuanyuan Qu, David A Stahl, Judy D Wall, Terry C Hazen, Matthew W Fields, Adam P Arkin, Jizhong Zhou

ISME J. 2015 Nov; 9(11): 2360–2372. Published online 2015 Apr 7. doi: 10.1038/ismej.2015.45

PMCID:: PMC4611501

Article PDF–2.5M

Select item 435191412.

Phylogenetic and environmental diversity of DsrAB-type dissimilatory (bi)sulfite reductases

Albert Leopold Müller, Kasper Urup Kjeldsen, Thomas Rattei, Michael Pester, Alexander Loy

ISME J. 2015 May; 9(5): 1152–1165. Published online 2014 Oct 24. doi: 10.1038/ismej.2014.208

PMCID:: PMC4351914

Article PDF–889K

Select item 420562313.

Erosion of functional independence early in the evolution of a microbial mutualism

Kristina L. Hillesland, Sujung Lim, Jason J. Flowers, Serdar Turkarslan, Nicolas Pinel, Grant M. Zane, Nicholas Elliott, Yujia Qin, Liyou Wu, Nitin S. Baliga, Jizhong Zhou, Judy D. Wall, David A. Stahl

Proc Natl Acad Sci U S A. 2014 Oct 14; 111(41): 14822–14827. Published online 2014 Sep 29. doi: 10.1073/pnas.1407986111

PMCID:: PMC4205623

Article PDF–890K

Select item 396053214.

Single-cell genome and metatranscriptome sequencing reveal metabolic interactions of an alkane-degrading methanogenic community

Mallory Embree, Harish Nagarajan, Narjes Movahedi, Hamidreza Chitsaz, Karsten Zengler

ISME J. 2014 Apr; 8(4): 757–767. Published online 2013 Oct 24. doi: 10.1038/ismej.2013.187

PMCID:: PMC3960532

Article PDF–1.1M

Select item 380747815.

New Family of Tungstate-Responsive Transcriptional Regulators in Sulfate-Reducing Bacteria

Alexey E. Kazakov, Lara Rajeev, Eric G. Luning, Grant M. Zane, Kavya Siddartha, Dmitry A. Rodionov, Inna Dubchak, Adam P. Arkin, Judy D. Wall, Aindrila Mukhopadhyay, Pavel S. Novichkov

J Bacteriol. 2013 Oct; 195(19): 4466–4475. doi: 10.1128/JB.00679-13

PMCID:: PMC3807478

Article PDF–993K

Select item 352648416.

Athenia L. Oldham, Kathleen E. Duncan

PLoS One. 2012; 7(12): e51931. Published online 2012 Dec 19. doi: 10.1371/journal.pone.0051931

PMCID:: PMC3526484

Article PDF–424K

Select item 352617317.

A small predatory core genome in the divergent marine Bacteriovorax marinus SJ and the terrestrial Bdellovibrio bacteriovorus

Lisa C Crossman, Huan Chen, Ana-M Cerdeño-Tárraga, Karen Brooks, Michael A Quail, Silvia A Pineiro, Laura Hobley, R Elizabeth Sockett, Stephen D Bentley, Julian Parkhill, Henry N Williams, O Colin Stine

ISME J. 2013 Jan; 7(1): 148–160. Published online 2012 Sep 6. doi: 10.1038/ismej.2012.90