Exploring microbial dark matter to resolve the deep archaeal ancestry of eukaryotes

Saw, Jimmy H.; Spang, Anja; Zaremba-Niedzwiedzka, Katarzyna; Juzokaite, Lina; Dodsworth, Jeremy A.; Murugapiran, Senthil K.; Colman, Dan R.; Takacs-Vesbach, Cristina; Hedlund, Brian P.; Guy, Lionel; Ettema, Thijs J. G.

doi:10.1098/rstb.2014.0328

Title: Exploring microbial dark matter to resolve the deep archaeal ancestry of eukaryotes

Journal Article · Mon Aug 31 00:00:00 EDT 2015 · Philosophical Transactions of the Royal Society of London, Series B: Biological Sciences

DOI:https://doi.org/10.1098/rstb.2014.0328· OSTI ID:1343570

Saw, Jimmy H. ^[1]; Spang, Anja ^[1]; Zaremba-Niedzwiedzka, Katarzyna ^[1]; Juzokaite, Lina ^[1]; Dodsworth, Jeremy A. ^[2]; Murugapiran, Senthil K. ^[3]; Colman, Dan R. ^[4]; Takacs-Vesbach, Cristina ^[4]; Hedlund, Brian P. ^[5]; Guy, Lionel ^[1]; Ettema, Thijs J. G. ^[1]

Uppsala Univ., Uppsala (Sweden)
Univ. of Nevada, Las Vegas, NV (United States); California State Univ. (CalState), San Bernardino, CA (United States)
Univ. of Nevada, Las Vegas, NV (United States)
Univ. of New Mexico, Albuquerque, NM (United States)
Univ. of Nevada, Las Vegas, NV (United States). School of Life Sciences

The origin of eukaryotes represents an enigmatic puzzle, which is still lacking a number of essential pieces. Whereas it is currently accepted that the process of eukaryogenesis involved an interplay between a host cell and an alphaproteobacterial endosymbiont, we currently lack detailed information regarding the identity and nature of these players. A number of studies have provided increasing support for the emergence of the eukaryotic host cell from within the archaeal domain of life, displaying a specific affiliation with the archaeal TACK superphylum. Recent studies have shown that genomic exploration of yet-uncultivated archaea, the so-called archaeal 'dark matter', is able to provide unprecedented insights into the process of eukaryogenesis. Here, we provide an overview of state-of-the-art cultivation-independent approaches, and demonstrate how these methods were used to obtain draft genome sequences of several novel members of the TACK superphylum, including Lokiarchaeum, two representatives of the Miscellaneous Crenarchaeotal Group (Bathyarchaeota), and a Korarchaeum-related lineage. In conclusion, the maturation of cultivation-independent genomics approaches, as well as future developments in next-generation sequencing technologies, will revolutionize our current view of microbial evolution and diversity, and provide profound new insights into the early evolution of life, including the enigmatic origin of the eukaryotic cell.

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Research Organization:: Univ. of Nevada, Las Vegas, NV (United States)

Sponsoring Organization:: USDOE; National Aeronautics and Space Administration (NASA); National Science Foundation (NSF); EU; ERC; Swedish Research Council (SRC); Marie Curie

Grant/Contract Number:: SC0006771; EE-0000716; EXO-NNX11AR78G; 621-2009-4813

OSTI ID:: 1343570

Journal Information:: Philosophical Transactions of the Royal Society of London, Series B: Biological Sciences, Vol. 370, Issue 1678; ISSN 0962-8436

Publisher:: The Royal Society PublishingCopyright Statement

Country of Publication:: United States

Language:: English

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Cited by: 30 works

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Microbial Community Response to Simulated Petroleum Seepage in Caspian Sea Sediments Stagars, Marion H.; Mishra, Sonakshi; Treude, Tina Frontiers in Microbiology, Vol. 8 https://doi.org/10.3389/fmicb.2017.00764	journal	April 2017
Cultivation and Genomic Analysis of “Candidatus Nitrosocaldus islandicus,” an Obligately Thermophilic, Ammonia-Oxidizing Thaumarchaeon from a Hot Spring Biofilm in Graendalur Valley, Iceland Daebeler, Anne; Herbold, Craig W.; Vierheilig, Julia Frontiers in Microbiology, Vol. 9 https://doi.org/10.3389/fmicb.2018.00193	journal	February 2018
Data from: Exploring microbial dark matter to resolve the deep archaeal ancestry of eukaryotes Saw, J. H.; Sprang, A.; Zaremba-Niedzwiedzka, K. Dryad, 821.0 Kb https://doi.org/10.5061/dryad.df264	dataset	December 2015
Accessing the genomic information of unculturable oceanic picoeukaryotes by combining multiple single cells Mangot, Jean-François; Logares, Ramiro; Sánchez, Pablo Scientific Reports, Vol. 7, Issue 1 https://doi.org/10.1038/srep41498	journal	January 2017