Origin & Evolution of Life

New Clues About The Origin Of Complex Life

By Keith Cowing
Press Release
University of Texas Austin
June 23, 2023
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New Clues About The Origin Of Complex Life
ML tree (IQ-TREE, WAG+C60+R4+F+PMSF model) of concatenated protein sequences from at least 5 genes, encoded on a single contig, of a RP15 gene cluster retrieved from publicly available and newly reported Asgard archaeal MAGs. Bootstrap support (100 pseudo-replicates) is indicated by circles at branches, with filled and open circles representing values equal to or larger than 90% and 70% support, respectively. Leaf names indicate the geographical source and isolate name (inner and outer label, respectively) for the MAGs reported in this study. Only the in-group is shown (263 out of 542 total sequences). Scale bar denotes the average number of substitutions per site. AB, Aarhus Bay (Denmark); ABE, ABE vent field, Eastern Lau Spreading Center; ALCG, Asgard Lake Cootharaba Group; Asgard, Asgardarchaeia; Baldr, Baldrarchaeia; GB, Guaymas Basin (Mexico); Gerd, Gerdarchaeales; Hel, Helarchaeales; Heimdall, Heimdallarchaeaceae; Hermod, Hermodarchaeia; Hod, Hodarchaeales; Jord, Jordarchaeia; JZ, Jinze (China); Kari, Kariarchaeaceae; Loki, Lokiarchaeales; Mar, Mariner vent field, Eastern Lau Spreading Center; Njord, Njordarchaeales; Odin, Odinarchaeia; QC, QuCai village (China); QZM, QuZhuoMu village (China); RP, Radiata Pool (New Zealand); SHR, South Hydrate Ridge; Sif, Sifarchaeia; Thor, Thorarchaeia; TNS, Taketomi Island (Japan); WOR: White Oak River (USA); Wukong, Wukongarchaeia. – Nature/University of Texas Austin

Thor, the legendary Norse god from the mythological city of Asgard, is not alone. According to groundbreaking research published in the journal Nature, we humans — along with eagles, starfish, daisies and every complex organism on Earth — are, in a sense, Asgardians.

Analyzing the genomes of hundreds of different microbes called archaea, researchers at The University of Texas at Austin and other institutions have discovered that eukaryotes — complex life forms with nuclei in their cells, including all the world’s plants, animals, insects and fungi — trace their roots to a common Asgard archaean ancestor. That means eukaryotes are, in the parlance of evolutionary biologists, a “well-nested clade” within Asgard archaea, similar to how birds are one of several groups within a larger group called dinosaurs, sharing a common ancestor. The team has found that all eukaryotes share a common ancestor among the Asgards.

No fossils of eukaryotes have been found from farther back than about 2 billion years ago, suggesting that before that, only various types of microbes existed.

“So, what events led microbes to evolve into eukaryotes?” said Brett Baker, UT Austin associate professor of integrative biology and marine science. “That’s a big question. Having this common ancestor is a big step in understanding that.”

Led by Thijs Ettema of Wageningen University in the Netherlands, the research team identified the closest microbial relative to all complex life forms on the tree of life as a newly described order called the Hodarchaeales (or Hods for short). The Hods, found in marine sediments, are one of several subgroups within the larger group of Asgard archaea.

According to this latest study, all complex life forms (a.k.a. eukaryotes) trace their roots back to a common ancestor among a group of microbes called the Asgard archaea. CREDIT University of Texas at Austin

The Asgard archaea evolved more than 2 billion years ago, and their descendants are still living. Some have been discovered in deep sea sediments and hot springs around the world, but so far only two strains have been successfully grown in the lab. To identify them, scientists collect their genetic material from the environment and then piece together their genomes. Based on genetic similarities with other organisms that can be grown in the lab and studied, the scientists can infer metabolism and other features of the Asgards.

“Imagine a time machine, not to explore the realms of dinosaurs or ancient civilizations, but to journey deep into the potential metabolic reactions that could have sparked the dawn of complex life,” said Valerie De Anda, a researcher in Baker’s lab. “Instead of fossils or ancient artifacts, we look at the genetic blueprints of modern microbes to reconstruct their past.”

The researchers expanded the known Asgard genomic diversity, adding more than 50 undescribed Asgard genomes as input for their modelling. Their analysis indicates that the ancestor of all modern Asgards appears to have been living in hot environments, consuming CO2 and chemicals to live. Meanwhile, Hods, which are more closely related to eukaryotes, are metabolically more similar to us, eating carbon and living in cooler environments.

“This is really exciting because we are looking for the first time at the molecular blueprints of the ancestor that gave rise to the first eukaryotic cells,” De Anda said.

In Norse mythology, Hod (also spelled Höd, Höðr or Hoder) is a god, the blind son of Odin and Frigg, who is tricked into killing his own brother Baldr.

“I keep joking in my talks that ‘We are all Asgardian’,” Baker said. “Now that’s probably going to be on my tombstone.”

Other authors from UT Austin are Kiley W. Seitz and Nina Dombrowski. In addition to Ettema, authors from other institutions are Laura Eme, Daniel Tamarit, Eva Caceres, Courtney Stairs, Max Schön, William Lewis, Felix Homa, Jimmy Saw, Jonathan Lombard, Takuro Nunoura, Wen-Jun Li, Zheng-Shuang Hua, Lin-Xing Chen, Jillian Banfield, Emily St. John, Anna-Louise Reysenbach, Matthew Stott, Andreas Schramm, Kasper Kjeldsen and Andreas Teske.

Support for this research was provided by the Origin of Eukaryotes program at the Moore and Simons Foundations, U.S. National Science Foundation, the Wellcome Trust Foundation, the European Research Council, the Swedish Research Council, the Dutch Research Council, the National Natural Science Foundation of China, the Wenner-Gren Foundation, the Science for Life Laboratory (Sweden) and the European Commission’s Marie Skłodowska-Curie Actions.

“To me, the most exciting thing is that we’re starting to see the transition from what biologists think is an archaeon to this organism Hodarchaeales that is more like a eukaryote,” Baker explained. “Another way to put it is that these Hods are our sister group in the archaeal world.”

Baker said it makes sense that of all the archaea, the Asgards are the ones that spawned eukaryotes. Like eukaryotes, members of the Asgard archaea have many genes with multiple copies in their genomes. In eukaryotes, when genes became duplicated, the new copies often took on new functions, giving organisms new abilities. It was one of the big drivers of evolution.

“We don’t know, in these Asgards specifically, what the gene duplications led to,” Baker said. “But we know in eukaryotes that gene duplications led to new functions and an increasing of cellular complexity. So, we think that that’s one of the ways that Asgards led to the innovations that define eukaryotes.”

Scientists studying archaea have found many proteins that were once thought to be exclusive to eukaryotes. Baker said that raises the question: What functions are these eukaryotic proteins serving in the archaea?

“I think studying these simpler forms of life and their eukaryotic characteristics is going to tell us a lot about ourselves,” Baker said.

Inference and reconstruction of the heimdallarchaeial ancestry of eukaryotes, Nature (Open access)


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