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Select item 57173921.

Proposed Role for KaiC-Like ATPases as Major Signal Transduction Hubs in Archaea

Kira S. Makarova, Michael Y. Galperin, Eugene V. Koonin

mBio. 2017 Nov-Dec; 8(6): e01959-17. Published online 2017 Dec 5. doi: 10.1128/mBio.01959-17

PMCID:: PMC5717392

Abstract Article PDF–3.7M

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 37545893.

Novel Archaeal Adhesion Pilins with a Conserved N Terminus

Rianne N. Esquivel, Rachel Xu, Mechthild Pohlschroder

J Bacteriol. 2013 Sep; 195(17): 3808–3818. doi: 10.1128/JB.00572-13

PMCID:: PMC3754589

Abstract Article PDF–1.6M

Select item 32618244.

Purine biosynthesis in archaea: variations on a theme

Anne M Brown, Samantha L Hoopes, Robert H White, Catherine A Sarisky

Biol Direct. 2011; 6: 63. Published online 2011 Dec 14. doi: 10.1186/1745-6150-6-63

PMCID:: PMC3261824

Abstract Article PDF–3.8M

Select item 32049375.

Single-Domain Parvulins Constitute a Specific Marker for Recently Proposed Deep-Branching Archaeal Subgroups

Christoph Lederer, Dominik Heider, Johannes van den Boom, Daniel Hoffmann, Jonathan W. Mueller, Peter Bayer

Evol Bioinform Online. 2011; 7: 135–148. Published online 2011 Sep 19. doi: 10.4137/EBO.S7683

PMCID:: PMC3204937

Abstract Article PDF–1.5M

Select item 30715006.

The Human Postsynaptic Density Shares Conserved Elements with Proteomes of Unicellular Eukaryotes and Prokaryotes

Richard David Emes, Seth G. N. Grant

Front Neurosci. 2011; 5: 44. Published online 2011 Mar 31. doi: 10.3389/fnins.2011.00044

PMCID:: PMC3071500

Abstract Article PDF–1.3M

Select item 30682557.

Occurrence of L-iduronic acid and putative D-glucuronyl C5-epimerases in prokaryotes

John Raedts, Servé W. M. Kengen, John van der Oost

Glycoconj J. 2011; 28(2): 57–66. Published online 2011 Feb 24. doi: 10.1007/s10719-011-9324-7

PMCID:: PMC3068255

Abstract Article PDF–853K

Select item 79381228.

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

Abstract Article PDF–1.5M

Select item 50410069.

Gene-Family Extension Measures and Correlations

Gon Carmi, Alexander Bolshoy

Life (Basel) 2016 Sep; 6(3): 30. Published online 2016 Aug 3. doi: 10.3390/life6030030

PMCID:: PMC5041006

Abstract Article PDF–984K

Select item 491898110.

Phylogeny Reconstruction with Alignment-Free Method That Corrects for Horizontal Gene Transfer

Raquel Bromberg, Nick V. Grishin, Zbyszek Otwinowski

PLoS Comput Biol. 2016 Jun; 12(6): e1004985. Published online 2016 Jun 23. doi: 10.1371/journal.pcbi.1004985

PMCID:: PMC4918981

Abstract Article PDF–1.6M

Select item 457156711.

Exploring microbial dark matter to resolve the deep archaeal ancestry of eukaryotes

Jimmy H. Saw, Anja Spang, Katarzyna Zaremba-Niedzwiedzka, Lina Juzokaite, Jeremy A. Dodsworth, Senthil K. Murugapiran, Dan R. Colman, Cristina Takacs-Vesbach, Brian P. Hedlund, Lionel Guy, Thijs J. G. Ettema

Philos Trans R Soc Lond B Biol Sci. 2015 Sep 26; 370(1678): 20140328. doi: 10.1098/rstb.2014.0328

PMCID:: PMC4571567

Abstract Article PDF–677K

Select item 444452812.

Complex archaea that bridge the gap between prokaryotes and eukaryotes

Anja Spang, Jimmy H. Saw, Steffen L. Jørgensen, Katarzyna Zaremba-Niedzwiedzka, Joran Martijn, Anders E. Lind, Roel van Eijk, Christa Schleper, Lionel Guy, Thijs J. G. Ettema

Nature. Author manuscript; available in PMC 2015 Nov 14.

Published in final edited form as: Nature. 2015 May 14; 521(7551): 173–179. Published online 2015 May 6. doi: 10.1038/nature14447

PMCID:: PMC4444528

Abstract Article PDF–1.6M

Select item 439088013.

Archaeal Clusters of Orthologous Genes (arCOGs): An Update and Application for Analysis of Shared Features between Thermococcales, Methanococcales, and Methanobacteriales

Kira S. Makarova, Yuri I. Wolf, Eugene V. Koonin

Life (Basel) 2015 Mar; 5(1): 818–840. Published online 2015 Mar 10. doi: 10.3390/life5010818

PMCID:: PMC4390880

Abstract Article PDF–1.2M

Select item 432514514.

A Novel CO-Responsive Transcriptional Regulator and Enhanced H₂ Production by an Engineered Thermococcus onnurineus NA1 Strain

Min-Sik Kim, Ae Ran Choi, Seong Hyuk Lee, Hae-Chang Jung, Seung Seob Bae, Tae-Jun Yang, Jeong Ho Jeon, Jae Kyu Lim, Hwan Youn, Tae Wan Kim, Hyun Sook Lee, Sung Gyun Kang

Appl Environ Microbiol. 2015 Mar; 81(5): 1708–1714. Prepublished online 2014 Dec 29. Published online 2015 Feb 10. doi: 10.1128/AEM.03019-14

PMCID:: PMC4325145

Abstract Article PDF–697K

Select item 412294415.

The Molecular Evolution of the Q_o Motif

Wei-Chun Kao, Carola Hunte

Genome Biol Evol. 2014 Jul; 6(7): 1894–1910. Published online 2014 Jul 22. doi: 10.1093/gbe/evu147

PMCID:: PMC4122944

Abstract Article PDF–729K

Select item 362092416.

Mimiviridae: clusters of orthologous genes, reconstruction of gene repertoire evolution and proposed expansion of the giant virus family

Natalya Yutin, Philippe Colson, Didier Raoult, Eugene V Koonin

Virol J. 2013; 10: 106. Published online 2013 Apr 4. doi: 10.1186/1743-422X-10-106

PMCID:: PMC3620924

Abstract Article PDF–1.6M

Select item 357856717.

Geoarchaeota: a new candidate phylum in the Archaea from high-temperature acidic iron mats in Yellowstone National Park

Mark A Kozubal, Margaret Romine, Ryan deM Jennings, Zack J Jay, Susannah G Tringe, Doug B Rusch, Jacob P Beam, Lee Ann McCue, William P Inskeep

ISME J. 2013 Mar; 7(3): 622–634. Published online 2012 Nov 15. doi: 10.1038/ismej.2012.132

PMCID:: PMC3578567

Abstract Article PDF–2.1M

Select item 329666018.

Mathematical modeling and comparison of protein size distribution in different plant, animal, fungal and microbial species reveals a negative correlation between protein size and protein number, thus providing insight into the evolution of proteomes

Axel Tiessen, Paulino Pérez-Rodríguez, Luis José Delaye-Arredondo

BMC Res Notes. 2012; 5: 85. Published online 2012 Feb 1. doi: 10.1186/1756-0500-5-85

PMCID:: PMC3296660

Abstract Article PDF–820K

Select item 392760719.

Annotation of Protein Domains Reveals Remarkable Conservation in the Functional Make up of Proteomes Across Superkingdoms

Arshan Nasir, Aisha Naeem, Muhammad Jawad Khan, Horacio D. Lopez-Nicora, Gustavo Caetano-Anollés

Genes (Basel) 2011 Dec; 2(4): 869–911. Published online 2011 Nov 8. doi: 10.3390/genes2040869

PMCID:: PMC3927607

Abstract Article PDF–2.0M

Select item 306439120.

Evolution of introns in the archaeal world

Giuseppe D. Tocchini-Valentini, Paolo Fruscoloni, Glauco P. Tocchini-Valentini

Proc Natl Acad Sci U S A. 2011 Mar 22; 108(12): 4782–4787. Published online 2011 Mar 7. doi: 10.1073/pnas.1100862108

PMCID:: PMC3064391

Abstract Article PDF–1.2M

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