Orthologs of the small RPB8 subunit of the eukaryotic RNA polymerases are conserved in hyperthermophilic Crenarchaeota and "Korarchaeota"

Koonin, Eugene V.; Makarova, Kira S.; Elkins, James G.

doi:10.1186/1745-6150-2-38

Orthologs of the small RPB8 subunit of the eukaryotic RNA polymerases are conserved in hyperthermophilic Crenarchaeota and "Korarchaeota"

Journal Article · Fri Dec 14 00:00:00 EST 2007 · Biology Direct

DOI:https://doi.org/10.1186/1745-6150-2-38· OSTI ID:1626622

Koonin, Eugene V. ^[1]; Makarova, Kira S. ^[2]; Elkins, James G. ^[3]

National Library of Medicine (NLM), Bethesda, MD (United States); DOE/OSTI
National Library of Medicine (NLM), Bethesda, MD (United States)
Oak Ridge National Laboratory (ORNL), Oak Ridge, TN (United States)

Although most of the key components of the transcription apparatus, and in particular, RNA polymerase (RNAP) subunits, are conserved between archaea and eukaryotes, no archaeal homologs of the small RPB8 subunit of eukaryotic RNAP have been detected. We report that orthologs of RPB8 are encoded in all sequenced genomes of hyperthermophilic Crenarchaeota and a recently sequenced "korarchaeal" genome, but not in Euryarchaeota or the mesophilic crenarchaeon Cenarchaeum symbiosum. These findings suggest that all 12 core subunits of eukaryotic RNAPs were already present in the last common ancestor of the extant archaea.

View Accepted Manuscript (DOE)

Research Organization:: Oak Ridge National Laboratory (ORNL), Oak Ridge, TN (United States)

Sponsoring Organization:: National Institutes of Health (NIH); USDOE Office of Science (SC), Biological and Environmental Research (BER). Biological Systems Science Division

Grant/Contract Number:: AC05-00OR22725

OSTI ID:: 1626622

Journal Information:: Biology Direct, Journal Name: Biology Direct Journal Issue: 1 Vol. 2; ISSN 1745-6150

Publisher:: BioMed CentralCopyright Statement

Country of Publication:: United States

Language:: English

References (15)

OB(oligonucleotide/oligosaccharide binding)-fold: common structural and functional solution for non-homologous sequences. Murzin, A. G. The EMBO Journal, Vol. 12, Issue 3 https://doi.org/10.1002/j.1460-2075.1993.tb05726.x	journal	March 1993
A Recombinant RNA Polymerase II-like Enzyme Capable of Promoter-Specific Transcription Werner, Finn; Weinzierl, Robert O. J. Molecular Cell, Vol. 10, Issue 3 https://doi.org/10.1016/s1097-2765(02)00629-9	journal	September 2002
Eukaryotic RNA polymerase subunit RPB8 is a new relativeof the OB family Krapp, Stephan; Kelly, Geoff; Reischl, Joachim Nature Structural Biology, Vol. 5, Issue 2 https://doi.org/10.1038/nsb0298-110	journal	February 1998
The complete genome of the crenarchaeon Sulfolobus solfataricus P2 She, Q.; Singh, R. K.; Confalonieri, F. Proceedings of the National Academy of Sciences, Vol. 98, Issue 14, p. 7835-7840 https://doi.org/10.1073/pnas.141222098	journal	June 2001
Transcription in archaea: similarity to that in eucarya. Langer, D.; Hain, J.; Thuriaux, P. Proceedings of the National Academy of Sciences, Vol. 92, Issue 13 https://doi.org/10.1073/pnas.92.13.5768	journal	June 1995
Perspectives on archaeal diversity, thermophily and monophyly from environmental rRNA sequences. Barns, S. M.; Delwiche, C. F.; Palmer, J. D. Proceedings of the National Academy of Sciences, Vol. 93, Issue 17 https://doi.org/10.1073/pnas.93.17.9188	journal	August 1996
A Fully Recombinant System for Activator-dependent Archaeal Transcription Ouhammouch, Mohamed; Werner, Finn; Weinzierl, Robert O. J. Journal of Biological Chemistry, Vol. 279, Issue 50 https://doi.org/10.1074/jbc.c400446200	journal	December 2004
The PSIPRED protein structure prediction server McGuffin, L. J.; Bryson, K.; Jones, D. T. Bioinformatics, Vol. 16, Issue 4 https://doi.org/10.1093/bioinformatics/16.4.404	journal	April 2000
Archaeal RNA polymerase subunits F and P are bona fide homologs of eukaryotic RPB4 and RPB12 Werner, F. Nucleic Acids Research, Vol. 28, Issue 21 https://doi.org/10.1093/nar/28.21.4299	journal	November 2000
MUSCLE: multiple sequence alignment with high accuracy and high throughput Edgar, R. C. Nucleic Acids Research, Vol. 32, Issue 5, p. 1792-1797 https://doi.org/10.1093/nar/gkh340	journal	March 2004
Functional organization of the Rpb5 subunit shared by the three yeast RNA polymerases Zaros, Cécile; Briand, Jean-François; Boulard, Yves Nucleic Acids Research, Vol. 35, Issue 2 https://doi.org/10.1093/nar/gkl686	journal	December 2006
PROMALS web server for accurate multiple protein sequence alignments Pei, J.; Kim, B. -H.; Tang, M. Nucleic Acids Research, Vol. 35, Issue Web Server https://doi.org/10.1093/nar/gkm227	journal	May 2007
Structural Basis of Transcription: RNA Polymerase II at 2.8 Angstrom Resolution Cramer, P. Science, Vol. 292, Issue 5523 https://doi.org/10.1126/science.1059493	journal	April 2001
Partners of Rpb8p, a Small Subunit Shared by Yeast RNA Polymerases I, II, and III Briand, Jean-François; Navarro, Francisco; Rematier, Peggy Molecular and Cellular Biology, Vol. 21, Issue 17 https://doi.org/10.1128/mcb.21.17.6056-6065.2001	journal	September 2001
Global analysis of mRNA stability in the archaeon Sulfolobus Andersson, Anders F.; Lundgren, Magnus; Eriksson, Stefan Genome Biology, Vol. 7, Issue 10, p. R99 https://doi.org/10.1186/gb-2006-7-10-r99	journal	January 2006

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59 BASIC BIOLOGICAL SCIENCES
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Orthologs of the small RPB8 subunit of the eukaryotic RNA polymerases are conserved in hyperthermophilic Crenarchaeota and "Korarchaeota"

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