Redefining Microbiology: Discovery of a 3-in-1 Microorganism Upends Textbooks

Microorganisms are crucial in maintaining the sulfur cycle, influencing climate processes. Research has discovered diverse and multifunctional sulfate-reducing microorganisms, capable of simultaneous sulfate reduction and oxygen respiration, upending previous scientific consensus. (Artistic concept.)

Study on environmentally relevant microorganisms shows greater diversity than previously assumed.

A team of researchers has shown that there is an incredibly high biodiversity of environmentally relevant microorganisms in nature. This diversity is at least 4.5 times greater than previously known. The researchers recently published their findings in the prestigious journals Nature Communications and FEMS Microbiology Reviews.

The hidden world of microorganisms is often overlooked, even though many climate-relevant processes are influenced by microorganisms, often associated with an incredible diversity of species within the groups of bacteria and archaea (“primitive bacteria”). For example, sulfate-reducing microorganisms convert a third of the organic carbon in marine sediments into carbon dioxide. This produces toxic hydrogen sulfide. On the positive side, sulfur-oxidizing microorganisms quickly use this as an energy source and render it harmless.

“These processes also play an important role in lakes, bogs, and even in the human gut to keep nature and health in balance,” says Prof. Michael Pester, Head of the Department of Microorganisms at the Leibniz Institute DSMZ and Professor at the Institute of Microbiology at Technische Universität Braunschweig. A study examined the metabolism of one of these novel microorganisms in more detail, revealing a multifunctionality that was previously unattainable.

Extremely high species diversity of sulphate-reducing microorganisms discovered. Sulfate reducers are now found in a total of 27 phyla within the bacteria and archaea instead of the six previously known. Credit: DSMZ

The Sulfur Cycle’s Critical Balance

The sulfur cycle is one of the most important and oldest biogeochemical cycles on our planet. At the same time, it is closely linked to the carbon and nitrogen cycles, underlining its importance. It is mainly driven by sulfate-reducing and sulphur-oxidising microorganisms. On a global scale, sulfate reducers convert about a third of the organic carbon that reaches the seafloor each year. In return, sulfur oxidizers consume about a quarter of the oxygen in marine sediments.

When these ecosystems become unbalanced, the activities of these microorganisms can rapidly lead to oxygen depletion and the accumulation of toxic hydrogen sulfide. This leads to the formation of ‘dead zones’ where animals and plants can no longer survive. This not only causes economic damage, for example to fisheries, but also social damage through the destruction of important local recreational areas. It is therefore important to understand which microorganisms keep the sulfur cycle in balance and how they do this.

The published results show that the species diversity of sulfate-reducing microorganisms includes at least 27 phyla (strains). Previously, only six phyla were known. By comparison, 40 phyla are currently known in the animal kingdom, with vertebrates belonging to only one phylum, the Chordata.

Schematic representation of the degradation of plant pectin – both by sulphate reduction and by respiration with oxygen in a newly discovered acidobacterium. Credit: DSMZ

Newly Discovered Multifunctional Bacterial Species

The researchers were able to assign one of these novel “sulfate reducers” to the little-researched phylum of acidobacteriota and to study it in a bioreactor.

Using cutting-edge methods from environmental microbiology, they were able to show that these bacteria can obtain energy from both sulfate reduction and oxygen respiration. These two pathways are normally mutually exclusive in all known microorganisms. At the same time, the researchers were able to show that the sulfate-reducing acidobacteriota can break down complex plant carbohydrates such as pectin – another previously unknown property of “sulfate reducers.”

The researchers have thus turned textbook knowledge on its head. They show that complex plant compounds can be degraded under oxygen exclusion not only by the coordinated interaction of different microorganisms, as previously thought, but also by a single bacterial species via a shortcut.

Dr. Stefan Dyskma (left) and Prof. Dr. Michael Pester next to a bioreactor at the DSMZ, in which novel “sulfate reducers” could be studied. Credit: DSMZ

Another new finding is that these bacteria can use both sulfate and oxygen for this purpose. Researchers at the DSMZ and Technische Universität Braunschweig are currently investigating how the new findings affect the interplay of the carbon and sulfur cycles and how they are linked to climate-relevant processes.

References:

“Oxygen respiration and polysaccharide degradation by a sulfate-reducing acidobacterium” by Stefan Dyksma, and Michael Pester, 10 October 2023, Nature Communications.
DOI: 10.1038/s41467-023-42074-z

“Global diversity and inferred ecophysiology of microorganisms with the potential for dissimilatory sulfate/sulfite reduction” by Muhe Diao, Stefan Dyksma, Elif Koeksoy, David Kamanda Ngugi, Karthik Anantharaman, Alexander Loy and Michael Pester, 05 October 2023, FEMS Microbiology Reviews.
DOI: 10.1093/femsre/fuad058

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