Welcome to ArchaeaCast! In our ninth and final episode of this season, our hosts Dr. Priyanka Chatterjee and Dr. Connor Hines discuss archaea as model systems and how they are being used in biotechnology! In the second part of the episode, Theopi Rados interviews Dr. Kelly Zatopek from New England Biolabs Inc (NEB).

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For nomenclature changes, current nomenclature can be found here

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Sources

Cowan DA. 1992. Biotechnology of the Archaea. Trends Biotechnol 10:315–323.

Cabrera MaÁ, Blamey JM. 2018. Biotechnological applications of archaeal enzymes from extreme environments. Biol Res 51:37.

Eichler J. 2001. Biotechnological uses of archaeal extremozymes. Biotechnol Adv 19:261–278.

Schiraldi C, Giuliano M, De Rosa M. 2002. Perspectives on biotechnological applications of archaea. Archaea 1:436561.

Welcome to ArchaeaCast! In our 8th episode, our hosts Priyanka Chatterjee and Dr. Alex Phillips discuss archaeal viruses, the even littler guys that infect our friendly archaeal cells! In the second part of the episode, Theopi Rados interviews Prof. Rachel Whitaker, from the University of Illinois Urbana-Champaign.

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Virus diversity image 1

Virus diversity image 2

STIV structure

STIV pyramids 1

STIV pyramids 2

Project Microbe

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Sources

DeWerff SJ et al. 2020. Killer Archaea: Virus-Mediated Antagonism to CRISPR-Immune Populations Results in Emergent Virus-Host Mutualism. mBio.

Forterre P. 2006. The origin of viruses and their possible roles in major evolutionary transitions. Virus Research.

Häring M et al. 2005. Viral Diversity in Hot Springs of Pozzuoli, Italy, and Characterization of a Unique Archaeal Virus, Acidianus Bottle-Shaped Virus, from a New Family, the Ampullaviridae. J Virol.

Hendrix RW et al. 1999. Evolutionary relationships among diverse bacteriophages and prophages: All the world’s a phage. PNAS.

Koonin EV et al. 2017. Inevitability of the emergence and persistence of genetic parasites caused by evolutionary instability of parasite-free states. Biology Direct.

Krupovic M et al. 2018. Viruses of archaea: Structural, functional, environmental and evolutionary genomics. Virus Res.

Krupovic M et al. 2019. Origin of viruses: primordial replicators recruiting capsids from hosts. Nat Rev Microbiol.

Leão P et al. 2024. Asgard archaea defense systems and their roles in the origin of eukaryotic immunity. Nat Commun.

Mushegian AR. 2020. Are There 1031 Virus Particles on Earth, or More, or Fewer? J Bacteriol.

Peng X et al. 2020. Anti-CRISPR Proteins in Archaea. Trends Microbiol.

Prangishvili D et al. 2017. The enigmatic archaeal virosphere. Nat Rev Microbiol.

Quemin ERJ et al. 2016. Eukaryotic-Like Virus Budding in Archaea. mBio.

Quemin ERJ & Quax TEF. 2015. Archaeal viruses at the cell envelope: entry and egress. Front. Microbiol.

Rice G et al. 2004. The structure of a thermophilic archaeal virus shows a double-stranded DNA viral capsid type that spans all domains of life. PNAS.

Rice G et al. 2001. Viruses from extreme thermal environments. PNAS.

Snyder JC et al. 2011. Sulfolobus Turreted Icosahedral Virus c92 Protein Responsible for the Formation of Pyramid-Like Cellular Lysis Structures. J Virol.

Wang F et al. 2022. Spindle-shaped archaeal viruses evolved from rod-shaped ancestors to package a larger genome. Cell.

Welcome to ArchaeaCast! In our seventh episode, our hosts Priyanka Chatterjee and Dr. Connor Hines discuss Methanogens, the dinosaur killing Archaea! In the second part of the episode, Connor interviews Prof. Nicole Buan, from the University of Nebraska - Lincoln.

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For nomenclature changes, current nomenclature can be found here

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Sources

Lloyd, David. "Methanogenesis: Ecology, physiology, biochemistry and genetics: Edited by JG Ferry. Chapman & Hall, New York, 1993. ISBN 0-412-03531-6, pp. x+ 536." (1996): 65.

Buan, Nicole R. "Methanogens: pushing the boundaries of biology." Emerging Topics in Life Sciences 2.4 (2018): 629-646.

Thauer, Rudolf K., et al. "Methanogenic archaea: ecologically relevant differences in energy conservation." Nature Reviews Microbiology 6.8 (2008): 579-591.

https://www.eesi.org/papers/view/fact-sheet-landfill-methane

https://www.epa.gov/lmop/landfill-gas-energy-project-development-handbook

https://www.fao.org/news/story/en/item/197623/icode/

Rothman, Daniel H., et al. "Methanogenic burst in the end-Permian carbon cycle." Proceedings of the National Academy of Sciences 111.15 (2014): 5462-5467.

Fournier, Gregory P., and J. Peter Gogarten. "Evolution of acetoclastic methanogenesis in Methanosarcina via horizontal gene transfer from cellulolytic Clostridia." Journal of bacteriology 190.3 (2008): 1124-1127.

Ogden, Darcy E., and Norman H. Sleep. "Explosive eruption of coal and basalt and the end-Permian mass extinction." Proceedings of the National Academy of Sciences 109.1 (2012): 59-62.

Mah, R. A., et al. "Biogenesis of methane." Annual Reviews in Microbiology 31.1 (1977): 309-341.

Leigh, John A. "Nitrogen fixation in methanogens: the archaeal perspective." Current issues in molecular biology 2.4 (2000): 125-131.

Bae, Hee-Sung, et al. "Methanogens are major contributors to nitrogen fixation in soils of the Florida Everglades." Applied and environmental microbiology 84.7 (2018): e02222-17.

Boyd, E. S., et al. "A late methanogen origin for molybdenum‐dependent nitrogenase." Geobiology 9.3 (2011): 221-232.

Webster, Christopher R., et al. "Background levels of methane in Mars’ atmosphere show strong seasonal variations." Science 360.6393 (2018): 1093-1096.

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