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PMC Full-Text Search Results

Items: 1 to 20 of 28

1.
Computational analysis of genes with lethal knockout phenotype and prediction of essential genes in archaea
Kira S. Makarova, Changyi Zhang, Yuri I. Wolf, Svetlana Karamycheva, Rachel J. Whitaker, Eugene V. Koonin
mBio. 2024 Feb; 15(2): e03092-23. Published online 2024 Jan 8. doi: 10.1128/mbio.03092-23
PMCID:
PMC10865827
AbstractArticlePDF–2.4M
2.
Archaea Microbiome Dysregulated Genes and Pathways as Molecular Targets for Lung Adenocarcinoma and Squamous Cell Carcinoma
Matthew Uzelac, Yuxiang Li, Jaideep Chakladar, Wei Tse Li, Weg M. Ongkeko
Int J Mol Sci. 2022 Oct; 23(19): 11566. Published online 2022 Sep 30. doi: 10.3390/ijms231911566
PMCID:
PMC9570029
AbstractArticlePDF–3.8M
3.
Impact of Warming on Greenhouse Gas Production and Microbial Diversity in Anoxic Peat From a Sphagnum-Dominated Bog (Grand Rapids, Minnesota, United States)
Max Kolton, Ansley Marks, Rachel M. Wilson, Jeffrey P. Chanton, Joel E. Kostka
Front Microbiol. 2019; 10: 870. Published online 2019 Apr 26. doi: 10.3389/fmicb.2019.00870
PMCID:
PMC6498409
AbstractArticlePDF–612K
4.
Misprediction of Structural Disorder in Halophiles
Rita Pancsa, Denes Kovacs, Peter Tompa
Molecules. 2019 Feb; 24(3): 479. Published online 2019 Jan 29. doi: 10.3390/molecules24030479
PMCID:
PMC6384707
AbstractArticlePDF–2.6M
5.
Metabolic models and gene essentiality data reveal essential and conserved metabolism in prokaryotes
Joana C. Xavier, Kiran Raosaheb Patil, Isabel Rocha
PLoS Comput Biol. 2018 Nov; 14(11): e1006556. Published online 2018 Nov 16. doi: 10.1371/journal.pcbi.1006556
PMCID:
PMC6283598
AbstractArticlePDF–3.4M
6.
More than just a gut feeling: constraint-based genome-scale metabolic models for predicting functions of human intestinal microbes
Kees C. H. van der Ark, Ruben G. A. van Heck, Vitor A. P. Martins Dos Santos, Clara Belzer, Willem M. de Vos
Microbiome. 2017; 5: 78. Published online 2017 Jul 14. doi: 10.1186/s40168-017-0299-x
PMCID:
PMC5512848
AbstractArticlePDF–836K
7.
Emerging facets of prokaryotic glycosylation
Christina Schäffer, Paul Messner
FEMS Microbiol Rev. Author manuscript; available in PMC 2017 Jul 1.
Published in final edited form as: FEMS Microbiol Rev. 2017 Jan; 41(1): 49–91. Published online 2016 Aug 26. doi: 10.1093/femsre/fuw036
PMCID:
PMC5266552
AbstractArticlePDF–2.3M
8.
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
AbstractArticlePDF–1019K
9.
Network portal: a database for storage, analysis and visualization of biological networks
Serdar Turkarslan, Elisabeth J. Wurtmann, Wei-Ju Wu, Ning Jiang, J. Christopher Bare, Karen Foley, David J. Reiss, Pavel Novichkov, Nitin S. Baliga
Nucleic Acids Res. 2014 Jan 1; 42(Database issue): D184–D190. Published online 2013 Nov 23. doi: 10.1093/nar/gkt1190
PMCID:
PMC3964938
AbstractArticlePDF–2.9M
10.
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
AbstractArticlePDF–850K
11.
Functional Promiscuity of Homologues of the Bacterial ArsA ATPases
Rostislav Castillo, Milton H. Saier, Jr.
Int J Microbiol. 2010; 2010: 187373. Published online 2010 Oct 20. doi: 10.1155/2010/187373
PMCID:
PMC2963123
AbstractArticlePDF–1.5M
12.
C-terminal domain of archaeal O-phosphoseryl-tRNA kinase displays large-scale motion to bind the 7-bp D-stem of archaeal tRNASec
R. Lynn Sherrer, Yuhei Araiso, Caroline Aldag, Ryuichiro Ishitani, Joanne M. L. Ho, Dieter Söll, Osamu Nureki
Nucleic Acids Res. 2011 Feb; 39(3): 1034–1041. Published online 2010 Sep 23. doi: 10.1093/nar/gkq845
PMCID:
PMC3035459
AbstractArticlePDF–5.8M
13.
DNA uracil repair initiated by the archaeal ExoIII homologue Mth212 via direct strand incision
Lars Schomacher, James P. J. Chong, Paul McDermott, Wilfried Kramer, Hans-Joachim Fritz
Nucleic Acids Res. 2009 Apr; 37(7): 2283–2293. Published online 2009 Feb 24. doi: 10.1093/nar/gkp102
PMCID:
PMC2673441
AbstractArticlePDF–2.5M
14.
Origins and evolution of eukaryotic RNA interference
Svetlana A. Shabalina, Eugene V. Koonin
Trends Ecol Evol. Author manuscript; available in PMC 2009 Jun 11.
Published in final edited form as: Trends Ecol Evol. 2008 Oct; 23(10): 578–587. Published online 2008 Aug 18. doi: 10.1016/j.tree.2008.06.005
PMCID:
PMC2695246
AbstractArticlePDF–219K
15.
Determination of the Amino Acid Recruitment Order in Early Life by Genome-Wide Analysis of Amino Acid Usage Bias
Mingxiao Zhao, Ruofan Ding, Yan Liu, Zhiliang Ji, Yufen Zhao
Biomolecules. 2022 Feb; 12(2): 171. Published online 2022 Jan 21. doi: 10.3390/biom12020171
PMCID:
PMC8961565
AbstractArticlePDF–9.1M
16.
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
AbstractArticlePDF–1.5M
17.
First Observation of an Acetate Switch in a Methanogenic Autotroph (Methanococcus maripaludis S2)
Chi Hung Vo, Nishu Goyal, Iftekhar A Karimi, Markus Kraft
Microbiol Insights. 2020; 13: 1178636120945300. Published online 2020 Jul 31. doi: 10.1177/1178636120945300
PMCID:
PMC7416134
AbstractArticlePDF–1.0M
18.
Wide diversity of methane and short-chain alkane metabolisms in uncultured archaea
Guillaume Borrel, Panagiotis S. Adam, Luke J. McKay, Lin-Xing Chen, Isabel Natalia Sierra-García, Christian M.K. Sieber, Quentin Letourneur, Amine Ghozlane, Gary L. Andersen, Wen-Jun Li, Steven J. Hallam, Gerard Muyzer, Valéria Maia de Oliveira, William P. Inskeep, Jillian F. Banfield, Simonetta Gribaldo
Nat Microbiol. Author manuscript; available in PMC 2019 Sep 4.
Published in final edited form as: Nat Microbiol. 2019 Apr; 4(4): 603–613. Published online 2019 Mar 4. doi: 10.1038/s41564-019-0363-3
PMCID:
PMC6453112
AbstractArticlePDF–2.1M
19.
A Reexamination of Thioredoxin Reductase from Thermoplasma acidophilum, a Thermoacidophilic Euryarchaeon, Identifies It as an NADH-Dependent Enzyme
Dwi Susanti, Usha Loganathan, Austin Compton, Biswarup Mukhopadhyay
ACS Omega. 2017 Aug 31; 2(8): 4180–4187. Published online 2017 Aug 3. doi: 10.1021/acsomega.7b00640
PMCID:
PMC5579543
AbstractArticlePDF–3.5M
20.
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
PMCID:
PMC4712552
AbstractArticlePDF–1.2M

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