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Methanosarcina

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Title: Methanosarcina  
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Subject: List of sequenced archaeal genomes, In the news/Candidates/April 2014, Pyrrolysine, List of MeSH codes (B07), Nickel
Collection: Archaea Genera
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Methanosarcina

Methanosarcina is a genus of anaerobic methanogens that produce methane using all three metabolic pathways for methanogenesis. They live in diverse environments where they can remain safe from the effects of oxygen, whether on the earth's surface, in groundwater, in deep sea vents, and in animal digestive tracts. Methanosarcina grow in colonies.

The amino acid pyrrolysine was first discovered in a Methanosarcina species, M. barkeri. Primitive versions of hemoglobin have been found in M. acetivorans, suggesting the microbe or an ancestor of it may have played a crucial role in the evolution of life on Earth. Species of Methanosarcina are also noted for unusually large genomes. M. acetivorans has the largest known genome of any archaeon.

According to a theory published in 2014, Methanosarcina may have been largely responsible for the worst extinction event in the Earth's history, the

  • Putting Life's Puzzle Together from Astrobiology Magazine (May 17, 2006)
  • from The Microbial Biorealm at Kenyon CollegeMethanosarcina
  • GenomesMethanosarcinaComparative Analysis of (at DOE's IMG system)
  • Genome ProjectsMethanosarcina (from Genomes OnLine Database)

External links

  1. ^ a b c d Galagan, J. E.; Nusbaum, C.; Roy, A.; Endrizzi, M. G.; MacDonald, P.; Fitzhugh, W.; Calvo, S.; Engels, R.; Smirnov, S.; Atnoor, D.; Brown, A.; Allen, N.; Naylor, J.; Stange-Thomann, N.; Dearellano, K.; Johnson, R.; Linton, L.; McEwan, P.; McKernan, K.; Talamas, J.; Tirrell, A.; Ye, W.; Zimmer, A.; Barber, R. D.; Cann, I.; Graham, D. E.; Grahame, D. A.; Guss, A. M.; Hedderich, R.; Ingram-Smith, C. (2002). "The Genome of M. Acetivorans Reveals Extensive Metabolic and Physiological Diversity". Genome Research 12 (4): 532–542.  
  2. ^ a b Will Dunham (March 31, 2014). "Methane-spewing microbe blamed in Earth's worst mass extinction". Reuters. Retrieved March 31, 2014. 
  3. ^ a b c "Methane-Belching Bugs Inspire A New Theory Of The Origin Of Life On Earth". Space Daily. May 15, 2006. 
  4. ^ a b Michael Schirber (July 14, 2009). "Wanted: Easy-Going Martian Roommates". Space Daily. 
  5. ^ a b "Researchers ID Microbe Responsible for Methane from Landfills" (Press release). North Carolina State University - Raleigh. April 6, 2011. 
  6. ^ "Science Notebook". The Washington Post. May 27, 2002. p. A09. 
  7. ^ "New Amino Acid Discovered". Applied Genetics 22 (11). June 2002. 
  8. ^ Ian Kerman. "Methanosarcina barkeri". Retrieved Apr 9, 2014. 
  9. ^ G. D. Sprott; C. J. Dicaire; G. B. Patel. "The ether lipids of Methanosarcina mazei and other Methanosarcina species, compared by fast atom bombardment mass spectrometry". Retrieved Apr 9, 2014. 
  10. ^ a b "Oldest Hemoglobin ancestors Offer Clues to Earliest Oxygen-based Life" (Press release). The National Science Foundation. April 20, 2004. 
  11. ^ "Scientists find primitive hemoglobins". UPI. April 20, 2004. 
  12. ^ a b "Potential Role of Acetyl-CoA Synthetase (acs) and Malate Dehydrogenase (mae) in the Evolution of the Acetate Switch in Bacteria and Archaea : Scientific Reports". www.nature.com. Retrieved 2015-09-28. 
  13. ^ Buss, K. A.; Cooper, D. R.; Ingram-Smith, C.; Ferry, J. G.; Sanders, D. A.; Hasson, M. S. (2001-01-01). "Urkinase: structure of acetate kinase, a member of the ASKHA superfamily of phosphotransferases". Journal of Bacteriology 183 (2): 680–686.  
  14. ^ Sara Reardon (14 December 2012). "Permian mass extinction triggered by humble microbe".  
  15. ^ a b Rothman, D. H.; Fournier, G. P.; French, K. L.; Alm, E. J.; Boyle, E. A.; Cao, C.; Summons, R. E. (2014-03-31). "Methanogenic burst in the end-Permian carbon cycle". Proceedings of the National Academy of Sciences 111 (15): 5462–7.  
  16. ^ a b c Steve Connor (March 31, 2014). "Volcanoes? Meteors? No, the worst mass extinction in history - The Great Dying - could have been caused by microbes having sex". the Independent. Retrieved March 31, 2014. 
  17. ^ Laura Dattaro (March 31, 2014). "Biggest Extinction in Earth's History Caused By Microbes, Study Shows". The Weather Channel. Retrieved March 31, 2014. 
  18. ^ "Shimizu develops cheap, easy waste water treatment technique". The Japan Economic Journal. June 18, 1985. Chemicals & Textiles section, page 17. 
  19. ^ "Anaerobic Bioreactors Becoming Economical". Water Technology 2 (4). July 1994. 
  20. ^ "Researchers Engineer New Methane-production Pathway in Microoganism" (Press release). University of Arkansas. December 8, 2010. 

References

  1. ^ This value is the estimated date of the last common ancestor of those Methanosarcina strains able to grow readily on acetate.
  2. ^ A nickel-tetrapyrrole coenzyme, cofactor F430, is present in methyl coenzyme M reductase, which catalyzes the final step in the release of methane by methanogens.

Notes

Researchers have sought ways to utilize Methanosarcina's methane-producing abilities more broadly as an alternative power source. In December 2010, University of Arkansas researchers successfully spliced a gene into M. acetivorans that allowed it to break down esters. They argued that this would allow it to more efficiently convert biomass into methane gas for power production.[20] In 2011, it was shown that most methane produced during decomposition at landfills comes from M. barkeri. The researchers found that the microbe can survive in low pH environments and that it consumes acid, thereby raising the pH and allowing a wider range of life to flourish. They argued that their findings could help accelerate research into using archaea-generated methane as an alternate power source.[5]

In 1985, Shimizu Construction developed a bioreactor that uses Methanosarcina to treat waste water from food processing plants and paper mills. The water is fed into the reactor where the microbes break down the waste particulate. The methane produced by the bacteria is then used to power the reactor, making it cheap to run. In tests, Methanosarcina reduced the waste concentration from 5,000–10,000 parts per million (ppm) to 80–100 ppm. Further treatment was necessary to finish the cleansing process.[18] According to a 1994 report in Chemistry and Industry, bioreactors utilizing anaerobic digestion by Methanothrix soehngenii or Methanosarcina produced less sludge byproduct than aerobic counterparts. Methanosarcina reactors operate at temperatures ranging from 35 to 55 °C and pH ranges of 6.5-7.5.[19]

Use by humans

Earlier theories on the cause of the Permian–Triassic extinction event include volcanic activity, global climate change, and an asteroid impact. The microbe theory's proponents argue that it would better explain the observed rapid, but continual, rise in carbon isotope level in period sediment deposits than a volcano, which would cause a spike followed by a slow decline.[16] The microbe theory suggests that volcanic activity played a different role - supplying the nickel which Methanosarcina required as a cofactor. Thus, the microbe theory holds that Siberian volcanic activity was a catalyst for, but not the direct primary cause of the mass extinction.[2]

The scientists concluded that these new genes, combined with widely available organic carbon deposits in the ocean and a plentiful supply of nickel,[2] allowed Methanosarcina populations to increase dramatically. Under their theory, this led to the release of abundant methane as waste.[16] Then, some of the methane would have been broken down into carbon dioxide by other organisms.[17] The buildup of these two gases would have caused oxygen levels in the ocean to decrease dramatically, while also increasing acidity. Terrestrial climates would simultaneously have experienced rising temperatures and significant climate change from the release of these greenhouse gases into the atmosphere. It is possible the buildup of carbon dioxide and methane in the atmosphere eventually caused the release of hydrogen sulfide gas, further stressing terrestrial life. The team's findings were published in the Proceedings of the National Academy of Sciences in March 2014.[15]

In December 2012, it was hypothesized that Methanosarcina's methane production may have been the cause of the Permian–Triassic extinction event, in which an estimated 90% of all life on Earth went extinct.[14] A study conducted by Chinese and American researchers supports that hypothesis. Using genetic analysis of about 50 Methanosarcina genomes, the team concluded that the microbe likely acquired the ability to efficiently consume acetate using acetate kinase and phosphoacetyl transferase roughly 240 ± 41 million years ago,[1] about the time of the extinction event 252 million years ago.[15] The genes for these enzymes may have been acquired from a cellulose-degrading bacterium via gene transfer.[16]

Role in the Permian–Triassic extinction event

Recently researchers have proposed an evolution hypothesis for acetate kinase and phosphoacetyl transferase with genomic evidence from Methanosarcina.[12] Scientists hypothesize acetate kinase could be the urkinase in a major protein superfamily that includes actin.[13] Evidence suggests acetate kinase evolved in an ancient halophilic Methanosarcina genome through duplication and divergence of the acetyl coA synthetase gene.[12]

Inspired by M. acetivorans, a team of Penn State researchers led by James G. Ferry and Christopher House proposed a new "thermodynamical theory of evolution" in 2006. Observing that M. acetivorans converts carbon monoxide into acetate, the scientists hypothesized that early "proto-cells" attached to mineral could have similarly used primitive enzymes to generate energy while excreting acetate. The theory thus sought to unify the "heterotrophic" theory of early evolution, where the primordial soup of simple molecules arose from non-biological processes, and the "chemoautotrophic" theory, where the earliest lifeforms created most simple molecules. The authors observed that though the "debate between the heterotrophic and chemotrophic theories revolved around carbon fixation", in actuality "these pathways evolved first to make energy. Afterwards, they evolved to fix carbon."[3] The scientists further proposed mechanisms which would have allowed the mineral-bound proto-cell to become free-living and for the evolution of acetate metabolism into methane, using the same energy-based pathways. They speculated that M. acetivorans was one of the first lifeforms on Earth, a direct descendent of the early proto-cells. The research was published in Molecular Biology and Evolution in June 2006.[3]

[10] of life, and is one of the most fundamental stages in the evolution of Earth's lifeforms.radiation, once there was free oxygen in Earth's atmosphere, the ability to process oxygen led to widespread Great Oxygenation Event Following the [11] In 2004, two primitive versions of

Role in early development of life on Earth

Methanosarcina cell membranes are made of relatively short lipids, primarily of C25 hydrocarbons and C20 ethers. The majority of other methanogens have C30 hydrocarbons and a mixture of C20 and C40 ethers.[8][9]

Both M. acetivorans and M. mazei have exceptionally large genomes. As of August 2008, M. acetivorans possessed the largest sequenced archaeal genome with 5,751,492 base pairs. The genome of M. mazei has 4,096,345 base pairs.[1]

In 2002, the amino acid pyrrolysine was discovered in M. barkeri by Ohio State University researchers.[6] Earlier research by the team had shown that a gene in M. barkeri had an in-frame amber (UAG) codon that did not signal the end of a protein, as would normally be expected. This behavior suggested the possibility of an unknown amino acid which was confirmed over several years by slicing the protein into peptides and sequencing them. Pyrrolysine was the first amino acid discovered since 1986, and 22nd overall.[7] It has subsequently been found throughout the family Methanosarcinaceae as well as in a single bacterium, Desulfitobacterium hafniense.

Methanosarcina are the world's most diverse methanogens in terms of ecology. They are found in environments such as landfills, sewage heaps, deep sea vents, deep subsurface groundwater, and even in the gut of many different ungulates, including cows, sheep, goats, and deer.[1][2] Methanosarcina have also been found in the human digestive tract.[3] M. barkeri can withstand extreme temperature fluctuations and go without water for extended periods. It can consume a variety of compounds or survive solely on hydrogen and carbon dioxide.[4] It can also survive in low pH environments that are typically hazardous for life.[5] Noting its extreme versatility, biologist Kevin Sowers postulated that M. barkeri could even survive on Mars.[4] Methanosarcina grow in colonies and show primitive cellular differentiation.[1]

Methanosarcina are the only known anaerobic methanogens that produce methane using all three known metabolic pathways for methanogenesis. Most methanogens make methane from carbon dioxide and hydrogen gas. Others utilize acetate in the acetoclastic pathway. In addition to these two pathways, species of Methanosarcina can also metabolize methylated one-carbon compounds through methylotrophic methanogenesis. Such one-carbon compounds include methylamines, methanol, and methyl thiols.[1]

Overview

  • Overview 1
  • Role in early development of life on Earth 2
  • Role in the Permian–Triassic extinction event 3
  • Use by humans 4
  • Notes 5
  • References 6
  • External links 7

Contents

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