Methanocaldococcus jannaschii

Methanocaldococcus jannaschii
Systematics
Department :	Euryarchaeota
Class :	Methanococci
Order :	Methanococcales
Family :	Methanocaldococcaceae
Genre :	Methanocaldococcus
Type :	Methanocaldococcus jannaschii
Scientific name
	Methanocaldococcus jannaschii
	( Jones et al. 1984) Whitman 2002

The picture shows the research submersible Alvin one year after the first exploration voyage to a hydrothermal spring (photo NOAA , 1978). The Alvin also hid the Archaeon M. jannaschi from the chimney base of a "white smoker " on the sea floor ( East Pacific Ridge , 20 ° 50'N, 109 ° 06'W, 2600 meters depth).

Methanocaldococcus jannaschii (formerly Methanococcus jannaschii ) is taxonomically a type of prokaryotic microorganism . As a methane generator, M. jannaschii belongsto the domain of the living beings Archaea .

M. jannaschii was isolated from a hydrothermal spring with a submarine from the Woods Hole Oceanographic Institution , is thermophilic and forms methane . It was the first archaeon to have its entire genome sequenced . According to Craig Venter , who led this sequencing project, the unique features of the genome provided strong evidence that there are three domains of living things.

Properties and metabolism

Methanocaldococcus jannaschii is a thermophilic, methanogenic organism, which means that methanogenesis produces methane as a by-product of metabolism. The archaeon can only grow with carbon dioxide and hydrogen as primary energy sources; this is in contrast to many other "methanococci" (such as Methanococcus maripalidus ), which can also use formate as the primary energy source. The genome includes many hydrogenases , such as a 5,10-methenyltetrahydromethanopterin hydrogenase, a ferredoxin hydrogenase (eha) and a coenzyme F420 hydrogenase.

M. jannaschii has a large number of inteins ; 19 intenins were discovered in a proteomics study.

Many novel metabolic pathways were developed in M. jannaschii , including the synthetic pathways for methanogenic cofactors, riboflavin, and polyamines (e.g.). In addition, an archaea-specific DNA polymerase family was investigated. Information on single-pass transmembrane proteins from M. jannaschii has been compiled in the Membranome database (e.g.).

Systematics

In 2002 a publication was published in which the domain Archaea is treated (book volume). Among other things, the Phylum Euryarchaeota (book chapter) and the new class Methanococci anchored in it (book section) are described there. The section on the new methanococci class with the new taxa and regroupings it contains, including the new species name Methanocaldococcus jannaschii, has been confirmed by the International Association of Microbiological Societies ( IUMS ).

Relevant publications in chronological order

Jones et al. (1983) - Effective publication on the new species Methanococcus jannaschii .

IUMS (1984) - List number 16, official publication of the International Association of Microbiological Societies ( IUMS ) for the validation of names, including “ Methanococcus jannaschii JONES et al. 1984 ".

Whitman (2001) - Effective publication on the genus Methanocaldococcus, including the species Methanocaldococcus jannaschii , which was recombined on the basis of the basonym Methanococcus jannaschii ( comb. Nov. ).

IUMS (2002) - validation list number 85, official publication of the International Association of Microbiological Societies ( IUMS ) for the validation of names, including for the species " Methanocaldococcus jannaschii (JONES et al. 1984) WHITMAN 2002 ".

Further literature

Lee et al. (2013) - EH Lee, K. Lee, KY Hwang: Structural characterization and comparison of the large subunits of IPM isomerase and homoaconitase from Methanococcus jannaschii. In: Acta crystallographica. Section D, Biological crystallography. Volume 70, Pt 4 April 2014, pp. 922-931, doi: 10.1107 / S1399004713033762 , PMID 24699638 .
Wang et al. (2013) - X. Wang, Y. Yuan, M. Teng, L. Niu, Y. Gao: Crystallization and preliminary X-ray diffraction analysis of MJ0458, an adenylate kinase from Methanocaldococcus jannaschii. In: Acta crystallographica. Section F, Structural biology and crystallization communications. Volume 69, Pt 11 November 2013, pp. 1272-1274, doi: 10.1107 / S1744309113026638 , PMID 24192367 , PMC 3818051 (free full text).
Allen et al. (2014) - KD Allen, H. Xu, RH White: Identification of a unique radical S-adenosylmethionine methylase likely involved in methanopterin biosynthesis in Methanocaldococcus jannaschii. In: Journal of bacteriology. Volume 196, number 18, September 2014, pp. 3315-3323, doi: 10.1128 / JB.01903-14 , PMID 25002541 , PMC 4135684 (free full text).
Wang et al. (2014) - Y. Wang, H. Xu, RH White: β-alanine biosynthesis in Methanocaldococcus jannaschii. In: Journal of bacteriology. Volume 196, number 15, August 2014, pp. 2869-2875, doi: 10.1128 / JB.01784-14 , PMID 24891443 , PMC 4135672 (free full text).

Databases

LPSN to search for Methanocaldococcus → http://www.bacterio.net/methanocaldococcus.html

NCBI taxonomy browser to search for M. jannaschii → https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=2190

MicrobeWiki for searching for M. jannaschii → http://microbewiki.kenyon.edu/index.php/Methanococcus_jannaschii

UCSC genome browser to search for M. jannaschii → http://microbes.ucsc.edu/cgi-bin/hgGateway?db=methJann1

KEGG for the search for M. jannaschii → http://www.genome.jp/kegg-bin/show_organism?org=mja

Bac Dive to search for strains of M. jannaschii → http://bacdive.dsmz.de/index.php?search=6981&submit=Search

Individual evidence

↑ ^a ^b ^c ^d W. J. Jones, JA Leigh, F. Mayer, CR Woese, RS Wolfe: Methanococcus jannaschii sp. nov., an extremely thermophilic methanogen from a submarine hydrothermal vent. In: Archives of Microbiology. 136, 1983, p. 254, doi: 10.1007 / BF00425213 .
↑ ^a ^b ^c International Union of Microbiological Societies: VALIDATION LIST No. 85; Validation of publication of new names and new combinations previously effectively published outside the IJSEM. International Journal of Systematic and Evolutionary Microbiology. In: International journal of systematic and evolutionary microbiology. Volume 52, May 2002, pp. 685-690, doi: 10.1099 / 00207713-52-3-685 , PMID 12054225 .
^ ^A ^b W. B. Whitman: Genus I. Methanocaldococcus gen. Nov. In: David R. Boone, Richard W. Castenholz, George M. Garrity (Eds.): Bergey's Manual of Systematic Bacteriology . Second ed. Volume one: The Archaea and the Deeply Branching and Phototrophic Bacteria. Springer Verlag, New York 2001, p. 243-245 , doi : 10.1007 / 978-0-387-21609-6 .
↑ CJ Bult, O. White, GJ Olsen, L. Zhou, RD Fleischmann, GG Sutton, JA Blake, LM FitzGerald, RA Clayton, JD Gocayne, AR Kerlavage, BA Dougherty, JF Tomb, MD Adams, CI Reich, R. Overbeek, EF Kirkness, KG Weinstock, JM Merrick, A. Glodek, JL Scott, NS Geoghagen, JC Venter: Complete genome sequence of the methanogenic archaeon, Methanococcus jannaschii. In: Science . Volume 273, Number 5278, August 1996, pp. 1058-1073, PMID 8688087 .
^ Nicolas Wade: Deep Sea Yields a Clue to Life's Origin. The New York Times Company, August 23, 1996, accessed January 31, 2019 .
↑ EJ Lyon, S. Shima, G. Buurman, S. Chowdhuri, A. Batschauer, K. Steinbach, RK Thauer: UV-A / blue-light inactivation of the 'metal-free' hydrogenase (Hmd) from methanogenic archaea. In: European Journal of Biochemistry . Volume 271, Number 1, January 2004, pp. 195-204, PMID 14686932 .
^ Rudolf K. Thauer, Anne-Kristin Kaster, Meike Goenrich, Michael Schick, Takeshi Hiromoto, Seigo Shima: Hydrogenases from Methanogenic Archaea, Nickel, a Novel Cofactor, and H Storage. In: Annual Review of Biochemistry. 79, 2010, p. 507, doi: 10.1146 / annurev.biochem.030508.152103 .
^ W. Zhu, CI Reich, GJ Olsen, CS Giometti, JR Yates: Shotgun proteomics of Methanococcus jannaschii and insights into methanogenesis. In: Journal of Proteome Research . Volume 3, Number 3, 2004 May-Jun, pp. 538-548, PMID 15253435 .
↑ RH White: Biosynthesis of the methanogenic cofactors. In: Vitamins and hormones. Volume 61, 2001, pp. 299-337, PMID 11153270 (review).
^ I. Haase, S. Mörtl, P. Köhler, A. Bacher, M. Fischer: Biosynthesis of riboflavin in archaea. 6,7-dimethyl-8-ribityllumazine synthase of Methanococcus jannaschii. In: European Journal of Biochemistry . Volume 270, Number 5, March 2003, pp. 1025-1032, PMID 12603336 .
↑ DE Graham, H. Xu, RH White: Methanococcus jannaschii uses a pyruvoyl-dependent arginine decarboxylase in polyamine biosynthesis. In: Journal of Biological Chemistry . Volume 277, Number 26, June 2002, pp. 23500-23507, doi: 10.1074 / jbc.M203467200 , PMID 11980912 .
^ Y. Ishino, K. Komori, IK Cann, Y. Koga: A novel DNA polymerase family found in Archaea. In: Journal of bacteriology. Volume 180, Number 8, April 1998, pp. 2232-2236, PMID 9555910 , PMC 107154 (free full text).
↑ AL Lomize, MA Lomize, SR Krolicki, ID Pogozheva: Membranome: a database for proteome-wide analysis of single-pass membrane proteins. In: Nucleic acids research. Volume 45, D101 2017, pp. D250 – D255, doi: 10.1093 / nar / gkw712 , PMID 27510400 , PMC 5210604 (free full text).
↑ Volume one: The Archaea and the Deeply Branching and Phototrophic Bacteria . In: David R. Boone, Richard W. Castenholz, George M. Garrity (Eds.): Bergey's Manual® of Systematic Bacteriology . Second ed.Springer Verlag , New York 2001, ISBN 978-0-387-98771-2 , doi : 10.1007 / 978-0-387-21609-6 .
↑ George M. Garrity, John G. Holt, William B. Whitman, Jyoti Keswani, David R. Boone, Yosuke Koga, et al .: Phylum AII. Euryarchaeota phy. nov. In: David R. Boone, Richard W. Castenholz, George M. Garrity (Eds.): Bergey's Manual® of Systematic Bacteriology . Second ed. Volume one: The Archaea and the Deeply Branching and Phototrophic Bacteria. Springer Verlag, New York 2001, ISBN 978-0-387-98771-2 , pp. 211 , doi : 10.1007 / 978-0-387-21609-6_17 .
^ ^A ^b David R. Boone: Class I. Methanococci class. nov. In: David R. Boone, Richard W. Castenholz, George M. Garrity (Eds.): Bergey's Manual® of Systematic Bacteriology . Second ed. Volume one: The Archaea and the Deeply Branching and Phototrophic Bacteria. Springer Verlag, New York 2001, p. 235 , doi : 10.1007 / 978-0-387-21609-6 .
↑ International Union of Microbiological Societies: Validation of the Publication of New Names and New Combinations Previously Effectively Published Outside the IJSB, List No. 16 . In: INTERNATIONAL JOURNAL OF SYSTEMATIC BACTERIOLOGY . tape 34 , no. 4 , 1984, pp. 503-504 .

[DOI10.1007/BF004252133-1] W. J. Jones, JA Leigh, F. Mayer, CR Woese, RS Wolfe: Methanococcus jannaschii sp. nov., an extremely thermophilic methanogen from a submarine hydrothermal vent. In: Archives of Microbiology. 136, 1983, p. 254, doi: 10.1007 / BF00425213 .

[PMID12054225222-2] International Union of Microbiological Societies: VALIDATION LIST No. 85; Validation of publication of new names and new combinations previously effectively published outside the IJSEM. International Journal of Systematic and Evolutionary Microbiology. In: International journal of systematic and evolutionary microbiology. Volume 52, May 2002, pp. 685-690, doi: 10.1099 / 00207713-52-3-685 , PMID 12054225 .

[Genus_1_Methanocaldococcus,_10.1007/978-0-387-21609-62-3] A ^b W. B. Whitman: Genus I. Methanocaldococcus gen. Nov. In: David R. Boone, Richard W. Castenholz, George M. Garrity (Eds.): Bergey's Manual of Systematic Bacteriology . Second ed. Volume one: The Archaea and the Deeply Branching and Phototrophic Bacteria. Springer Verlag, New York 2001, p. 243-245 , doi : 10.1007 / 978-0-387-21609-6 .

[PMID8688087-4] CJ Bult, O. White, GJ Olsen, L. Zhou, RD Fleischmann, GG Sutton, JA Blake, LM FitzGerald, RA Clayton, JD Gocayne, AR Kerlavage, BA Dougherty, JF Tomb, MD Adams, CI Reich, R. Overbeek, EF Kirkness, KG Weinstock, JM Merrick, A. Glodek, JL Scott, NS Geoghagen, JC Venter: Complete genome sequence of the methanogenic archaeon, Methanococcus jannaschii. In: Science . Volume 273, Number 5278, August 1996, pp. 1058-1073, PMID 8688087 .

[:0-5] Nicolas Wade: Deep Sea Yields a Clue to Life's Origin. The New York Times Company, August 23, 1996, accessed January 31, 2019 .

[PMID14686932-6] EJ Lyon, S. Shima, G. Buurman, S. Chowdhuri, A. Batschauer, K. Steinbach, RK Thauer: UV-A / blue-light inactivation of the 'metal-free' hydrogenase (Hmd) from methanogenic archaea. In: European Journal of Biochemistry . Volume 271, Number 1, January 2004, pp. 195-204, PMID 14686932 .

[DOI10.1146/annurev.biochem.030508.152103-7] Rudolf K. Thauer, Anne-Kristin Kaster, Meike Goenrich, Michael Schick, Takeshi Hiromoto, Seigo Shima: Hydrogenases from Methanogenic Archaea, Nickel, a Novel Cofactor, and H Storage. In: Annual Review of Biochemistry. 79, 2010, p. 507, doi: 10.1146 / annurev.biochem.030508.152103 .

[PMID15253435-8] W. Zhu, CI Reich, GJ Olsen, CS Giometti, JR Yates: Shotgun proteomics of Methanococcus jannaschii and insights into methanogenesis. In: Journal of Proteome Research . Volume 3, Number 3, 2004 May-Jun, pp. 538-548, PMID 15253435 .

[PMID111532702-9] RH White: Biosynthesis of the methanogenic cofactors. In: Vitamins and hormones. Volume 61, 2001, pp. 299-337, PMID 11153270 (review).

[PMID12603336-10] I. Haase, S. Mörtl, P. Köhler, A. Bacher, M. Fischer: Biosynthesis of riboflavin in archaea. 6,7-dimethyl-8-ribityllumazine synthase of Methanococcus jannaschii. In: European Journal of Biochemistry . Volume 270, Number 5, March 2003, pp. 1025-1032, PMID 12603336 .

[PMID11980912-11] DE Graham, H. Xu, RH White: Methanococcus jannaschii uses a pyruvoyl-dependent arginine decarboxylase in polyamine biosynthesis. In: Journal of Biological Chemistry . Volume 277, Number 26, June 2002, pp. 23500-23507, doi: 10.1074 / jbc.M203467200 , PMID 11980912 .

[PMID9555910-12] Y. Ishino, K. Komori, IK Cann, Y. Koga: A novel DNA polymerase family found in Archaea. In: Journal of bacteriology. Volume 180, Number 8, April 1998, pp. 2232-2236, PMID 9555910 , PMC 107154 (free full text).

[PMID27510400-13] AL Lomize, MA Lomize, SR Krolicki, ID Pogozheva: Membranome: a database for proteome-wide analysis of single-pass membrane proteins. In: Nucleic acids research. Volume 45, D101 2017, pp. D250 – D255, doi: 10.1093 / nar / gkw712 , PMID 27510400 , PMC 5210604 (free full text).

[Archaea,_Buchband,_10.1007/978-0-387-21609-6_17-14] Volume one: The Archaea and the Deeply Branching and Phototrophic Bacteria . In: David R. Boone, Richard W. Castenholz, George M. Garrity (Eds.): Bergey's Manual® of Systematic Bacteriology . Second ed.Springer Verlag , New York 2001, ISBN 978-0-387-98771-2 , doi : 10.1007 / 978-0-387-21609-6 .

[Phylum_A2_Euryarchaeota,_10.1007/978-0-387-21609-6_17-15] George M. Garrity, John G. Holt, William B. Whitman, Jyoti Keswani, David R. Boone, Yosuke Koga, et al .: Phylum AII. Euryarchaeota phy. nov. In: David R. Boone, Richard W. Castenholz, George M. Garrity (Eds.): Bergey's Manual® of Systematic Bacteriology . Second ed. Volume one: The Archaea and the Deeply Branching and Phototrophic Bacteria. Springer Verlag, New York 2001, ISBN 978-0-387-98771-2 , pp. 211 , doi : 10.1007 / 978-0-387-21609-6_17 .

[Class_1_Methanococci,_10.1007/978-0-387-21609-6-16] A ^b David R. Boone: Class I. Methanococci class. nov. In: David R. Boone, Richard W. Castenholz, George M. Garrity (Eds.): Bergey's Manual® of Systematic Bacteriology . Second ed. Volume one: The Archaea and the Deeply Branching and Phototrophic Bacteria. Springer Verlag, New York 2001, p. 235 , doi : 10.1007 / 978-0-387-21609-6 .

[IUMS,_List_No_16,_Validation,_1984-17] International Union of Microbiological Societies: Validation of the Publication of New Names and New Combinations Previously Effectively Published Outside the IJSB, List No. 16 . In: INTERNATIONAL JOURNAL OF SYSTEMATIC BACTERIOLOGY . tape 34 , no. 4 , 1984, pp. 503-504 .