Carl Woese in the context of "Three domains of life"

In biological taxonomy, a domain (/dəˈmeɪn/ or /doʊˈmeɪn/) (Latin: regio or dominium), also dominion, superkingdom, realm, or empire, is the highest taxonomic rank of all organisms taken together. It was introduced in the three-domain system of taxonomy devised by Carl Woese, Otto Kandler and Mark Wheelis in 1990.

According to the domain system, the tree of life consists of either three domains, Archaea, Bacteria, and Eukarya, or two domains, Archaea and Bacteria, with Eukarya included in Archaea. In the three-domain model, the first two are prokaryotes, single-celled microorganisms without a membrane-bound nucleus. All organisms that have a cell nucleus and other membrane-bound organelles are included in Eukarya and called eukaryotes.

Otto Kandler (23 October 1920 in Deggendorf – 29 August 2017 in Munich, Bavaria) was a German botanist and microbiologist. Until his retirement in 1986 he was professor of botany at the Ludwig Maximilian University of Munich.

His most important research topics were photosynthesis, plant carbohydrate metabolism, analysis of the structure of bacterial cell walls (murein/peptidoglycan), the systematics of Lactobacillus, and the chemotaxonomy of plants and microorganisms.He presented the first experimental evidence for the existence of photophosphorylation in vivo. His discovery of the basic differences between the cell walls of bacteria and archaea (up to 1990 called "archaebacteria") convinced him that archaea represent an autonomous group of organisms distinct from bacteria. This was the basis for his cooperation with Carl Woese and made him the founder of research on the Archaea in Germany. In 1990, together with Woese, he proposed the three domains of life: Bacteria, Archaea, Eucarya. Finally, on the basis of his lifelong interest in the early evolution and diversification of life on this planet, Kandler presented his pre-cell theory, suggesting that the three domains of life did not emerge from an ancestral cell, e.g. the last universal common ancestor (LUCA), but from a population of pre-cells.

Mark L. Wheelis is an American microbiologist. Wheelis is currently a professor in the College of Biological Sciences, University of California, Davis. Carl Woese and Otto Kandler with Wheelis wrote the important paper Towards a natural system of organisms: proposal for the domains Archaea, Bacteria, and Eucarya that proposed a change from the Two-empire system of Prokaryotes and Eukaryotes to the Three-domain system of the domains Eukaryota, Bacteria and Archaea.

Wheelis's research interests include the history of biological warfare. He co-authored (with Larry Gonick) The Cartoon Guide to Genetics (1983). Wheelis provided the scientific knowledge and text, while Gonick contributed the illustrations and humor.

16S ribosomal RNA (or 16S rRNA) is the RNA component of the 30S subunit of a prokaryotic ribosome (SSU rRNA). It binds to the Shine-Dalgarno sequence and provides most of the SSU structure.

The genes coding for it are referred to as 16S rRNA genes and are used in reconstructing phylogenies, due to the slow rates of evolution of this region of the gene. Carl Woese and George E. Fox were two of the people who pioneered the use of 16S rRNA in phylogenetics in 1977. Multiple sequences of the 16S rRNA gene can exist within a single bacterium.

The eocyte hypothesis in evolutionary biology proposes that the eukaryotes originated from a group of prokaryotes called eocytes (later classified as Thermoproteota, a group of archaea). After his team at the University of California, Los Angeles discovered eocytes in 1984, James A. Lake formulated the hypothesis as "eocyte tree" that proposed eukaryotes as part of archaea. Lake hypothesised the tree of life as having only two primary branches: prokaryotes, which include Bacteria and Archaea, and karyotes, that comprise Eukaryotes and eocytes. Parts of this early hypothesis were revived in a newer two-domain system of biological classification which named the primary domains as Archaea and Bacteria.

Lake's hypothesis was based on an analysis of the structural components of ribosomes. It was largely ignored, being overshadowed by the three-domain system which relied on more precise genetic analysis. In 1990, Carl Woese and his colleagues proposed that cellular life consists of three domains—Eucarya, Bacteria, and Archaea – based on the ribosomal RNA sequences. The three-domain concept was widely accepted in genetics, and became the presumptive classification system for high-level taxonomy, and was promulgated in many textbooks.