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Select item 50542221.

A Method for Identification of Selenoprotein Genes in Archaeal Genomes

Mingfeng Li, Yanzhao Huang, Yi Xiao

Genomics Proteomics Bioinformatics. 2009 Jun; 7(1-2): 62–70. Published online 2009 Jul 8. doi: 10.1016/S1672-0229(08)60034-0

PMCID:: PMC5054222

Abstract Article PDF–759K

Select item 43908872.

Phylogeny and Taxonomy of Archaea: A Comparison of the Whole-Genome-Based CVTree Approach with 16S rRNA Sequence Analysis

Guanghong Zuo, Zhao Xu, Bailin Hao

Life (Basel) 2015 Mar; 5(1): 949–968. Published online 2015 Mar 17. doi: 10.3390/life5010949

PMCID:: PMC4390887

Abstract Article PDF–1019K

Select item 41640103.

Ori-Finder 2, an integrated tool to predict replication origins in the archaeal genomes

Hao Luo, Chun-Ting Zhang, Feng Gao

Front Microbiol. 2014; 5: 482. Published online 2014 Sep 15. doi: 10.3389/fmicb.2014.00482

PMCID:: PMC4164010

Abstract Article PDF–1.9M

Select item 40056944.

Archaeal aminoacyl-tRNA synthetases interact with the ribosome to recycle tRNAs

Vlatka Godinic-Mikulcic, Jelena Jaric, Basil J. Greber, Vedran Franke, Vesna Hodnik, Gregor Anderluh, Nenad Ban, Ivana Weygand-Durasevic

Nucleic Acids Res. 2014 Apr; 42(8): 5191–5201. Published online 2014 Feb 24. doi: 10.1093/nar/gku164

PMCID:: PMC4005694

Abstract Article PDF–2.8M

Select item 37734075.

Prokaryotic Phylogenies Inferred from Whole-Genome Sequence and Annotation Data

Wei Du, Zhongbo Cao, Yan Wang, Ying Sun, Enrico Blanzieri, Yanchun Liang

Biomed Res Int. 2013; 2013: 409062. Published online 2013 Aug 29. doi: 10.1155/2013/409062

PMCID:: PMC3773407

Abstract Article PDF–2.0M

Select item 37342776.

Comprehensive Genomic Characterization of Campylobacter Genus Reveals Some Underlying Mechanisms for its Genomic Diversification

Yizhuang Zhou, Lijing Bu, Min Guo, Chengran Zhou, Yongdong Wang, Liyu Chen, Jie Liu

PLoS One. 2013; 8(8): e70241. Published online 2013 Aug 5. doi: 10.1371/journal.pone.0070241

PMCID:: PMC3734277

Abstract Article PDF–3.4M

Select item 32829427.

Tracing Lifestyle Adaptation in Prokaryotic Genomes

Eric Altermann

Front Microbiol. 2012; 3: 48. Published online 2012 Feb 21. doi: 10.3389/fmicb.2012.00048

PMCID:: PMC3282942

Abstract Article PDF–2.7M

Select item 30874158.

More Than 200 Genes Required for Methane Formation from H₂ and CO₂ and Energy Conservation Are Present in Methanothermobacter marburgensis and Methanothermobacter thermautotrophicus

Anne-Kristin Kaster, Meike Goenrich, Henning Seedorf, Heiko Liesegang, Antje Wollherr, Gerhard Gottschalk, Rudolf K. Thauer

Archaea. 2011; 2011: 973848. Published online 2011 Apr 27. doi: 10.1155/2011/973848

PMCID:: PMC3087415

Abstract Article PDF–1.0M

Select item 28730029.

The primary divisions of life: a phylogenomic approach employing composition-heterogeneous methods

Peter G. Foster, Cymon J. Cox, T. Martin Embley

Philos Trans R Soc Lond B Biol Sci. 2009 Aug 12; 364(1527): 2197–2207. doi: 10.1098/rstb.2009.0034

PMCID:: PMC2873002

Abstract Article PDF–500K

Select item 284924710.

Detection and Quantification of Functional Genes of Cellulose- Degrading, Fermentative, and Sulfate-Reducing Bacteria and Methanogenic Archaea

L. P. Pereyra, S. R. Hiibel, M. V. Prieto Riquelme, K. F. Reardon, A. Pruden

Appl Environ Microbiol. 2010 Apr; 76(7): 2192–2202. Published online 2010 Feb 5. doi: 10.1128/AEM.01285-09

PMCID:: PMC2849247

Abstract Article PDF–370K

Select item 277243811.

Correlation of Methane Production and Functional Gene Transcriptional Activity in a Peat Soil

Thomas E. Freitag, James I. Prosser

Appl Environ Microbiol. 2009 Nov; 75(21): 6679–6687. Published online 2009 Sep 11. doi: 10.1128/AEM.01021-09

PMCID:: PMC2772438

Abstract Article PDF–333K

Select item 273596712.

Estimating the Fraction of Non-Coding RNAs in Mammalian Transcriptomes

Yurong Xin, Giulio Quarta, Hin Hark Gan, Tamar Schlick

Bioinform Biol Insights. 2008; 2: 75–94. Published online 2008 Mar 1. doi: 10.4137/bbi.s443

PMCID:: PMC2735967

Abstract Article PDF–670K

Select item 268556713.

Remarkable sequence signatures in archaeal genomes

Ahmed Fadiel, Stuart Lithwick, Gopi Ganji, Stephen W. Scherer

Archaea. 2003 Oct; 1(3): 185–190. Published online 2003 Feb 19. doi: 10.1155/2003/458235

PMCID:: PMC2685567

Abstract Article PDF–118K

Select item 268554814.

Identification of replication origins in archaeal genomes based on the Z-curve method

Ren Zhang, Chun-Ting Zhang

Archaea. 2005 May; 1(5): 335–346. Published online 2004 Nov 9. doi: 10.1155/2005/509646

PMCID:: PMC2685548

Abstract Article PDF–228K

Select item 248068615.

Prokaryotic Gene Finding Based on Physicochemical Characteristics of Codons Calculated from Molecular Dynamics Simulations

Poonam Singhal, B. Jayaram, Surjit B. Dixit, David L. Beveridge

Biophys J. 2008 Jun 1; 94(11): 4173–4183. Published online 2008 Mar 7. doi: 10.1529/biophysj.107.116392

PMCID:: PMC2480686

Abstract Article PDF–780K

Select item 185488816.

Modelling the evolution of the archeal tryptophan synthase

Rainer Merkl

BMC Evol Biol. 2007; 7: 59. Published online 2007 Apr 10. doi: 10.1186/1471-2148-7-59

PMCID:: PMC1854888

Abstract Article PDF–576K

Select item 163506617.

Browsing repeats in genomes: Pygram and an application to non-coding region analysis

Patrick Durand, Frédéric Mahé, Anne-Sophie Valin, Jacques Nicolas

BMC Bioinformatics. 2006; 7: 477. Published online 2006 Oct 26. doi: 10.1186/1471-2105-7-477

PMCID:: PMC1635066

Abstract Article PDF–1.1M

Select item 147564318.

Algebraic comparison of metabolic networks, phylogenetic inference, and metabolic innovation

Christian V Forst, Christoph Flamm, Ivo L Hofacker, Peter F Stadler

BMC Bioinformatics. 2006; 7: 67. Published online 2006 Feb 14. doi: 10.1186/1471-2105-7-67

PMCID:: PMC1475643

Abstract Article PDF–346K

Select item 127095119.

Predicting candidate genomic sequences that correspond to synthetic functional RNA motifs

Uri Laserson, Hin Hark Gan, Tamar Schlick

Nucleic Acids Res. 2005; 33(18): 6057–6069. Published online 2005 Oct 27. doi: 10.1093/nar/gki911

PMCID:: PMC1270951

Abstract Article PDF–691K

Select item 54955320.

Deciphering structure and topology of conserved COG2042 orphan proteins

Jean Armengaud, Alain Dedieu, Olivier Solques, Jean-Luc Pellequer, Eric Quemeneur

BMC Struct Biol. 2005; 5: 3. Published online 2005 Feb 8. doi: 10.1186/1472-6807-5-3

PMCID:: PMC549553

Abstract Article PDF–962K

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