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Julie’s Biggest TakeawaysDifferent depths of the ocean have different habitats, but the microbes vary continuously, based in part on light availability:
- Surface light facilitates photosynthesis by algal cells. These primary producers fix carbon for the entire ecosystem! Because nutrients are readily available, the cell concentration in surface waters can reach nearly 1,000,000 cells/ml.
- The twilight zone offers dim light. Microbes in this area mainly use carbon sources generated by the surface-dwelling microbes. Below a few hundred meters, cell concentrations drop to 10,000-100,000 cells/ml.
- The deep ocean has no light and the microbes that live here have significantly different biochemistries and metabolisms.
Naturally, the most abundant cells in the ocean have the most abundant parasites: bacteriophages called pelagiphages infect SAR11 all over the world. SAR11 and pelagiphages are under constant evolution, though there doesn’t seem to be a CRISPR system in the Pelagibacter genome; these bacteria largely use other mechanisms to evade phage infection.
SAR11 is like a house with the lights on all the time, in that the cells constitutively express most metabolic genes. For example, SAR11 metabolizes dimethylsulfoniopropionate (DMSP) into dimethyl sulfide (DMS) and methanethiol (MeSH), which can be produced as soon as the cells are exposed to DMSP. While this may seem energetically expensive, the cells must capitalize on their encounters with this transient resource, often found only at low concentrations, and this capitalization requires the investment of protein production. The cost of metabolic gene regulation outweighs the benefits in this particular case.
SAR11 and SAR202 are the poles on the spectrum of heterotrophic marine bacteria. SAR11 is very efficient at accessing and using the organic compounds that come from the phytoplankton (also called the labile organic matter). SAR202, found in the deeper part of the ocean, specializes in hard-to-access carbon compounds that other bacteria can’t access.
“The difference between the photic zone (the region where there’s light) and the dark part of the ocean is that in the photic zone, the nutrients are all gone: there’s plenty of power but there’s not enough nitrogen, phosphorus and, often, not enough iron. In the deep ocean, there’s plenty of nitrogen, phosphorus and iron, but the only source of power is only those things—dead cells and organic compounds—that are raining down from the surface.”
“In a global sense, what’s happening in the ocean that makes it so different from what’s happening on land is that most of the carbon that’s being fixed every single day is being turned back into carbon dioxide by heterotrophic cells. How is that different from what happens on land? On land, there are trees; there are large plants. In the ocean, there are really teeny single cells, and they turn over at a really high rate. The carbon cycle in the oceans is very different from the carbon cycle on land because of that very rapid turnover, which is almost all microbial.”
“It’s called SAR11 because it was the eleventh clone from the Sargasso Sea that we sequenced when we began to sequence DNA out of the oceans.”
“If you go the ocean, and you go for a swim, and you accidentally swallow a mouthful of seawater, you’ve probably swallowed a million SAR11 cells.”
“Sometimes we should try to ask the simplest questions. One of the simplest questions that my lab has concerned itself with over the last couple of decades is ‘how does a cell that is so simple—1.3 million base pairs, a little over 1000 genes—how does a cell that’s so simple succeed in capturing such a large part of all the organic matter entering the oceans?”
“In every age, at every stage, a lot of people think ‘well, most of the good stuff has been discovered.’ I was lucky that I and my students got to discover SAR11. But I can assure all the young scientists out there that there are many, many important things left to be discovered.”
Links for This Episode
- MTM Listener Survey, only takes 3 minutes. Thanks!
- Stephen Giovannoni website at Oregon State University
- OSU High Throughput Microbial Cultivation Lab
- Carini P. et al. Discovery of SAR11 Growth Requirement for Thiamin’s Pyrimidine Precursor and its Distribution in the Sargasso Sea. ISME J. 2014.
- Sun J. et al. The Abundant Marine Bacterium Pelagibacter Simultaneously Catabolizes Dimethylsulfoniopropionate to the Gases Dimethyl Sulfide and Methanethiol. Nature Microbiology. 2016.
- Moore E.R. et al. Pelagibacter Metabolism of Diatom-Derived Volatile Organic Compounds Imposes an Energetic Tax on Photosynthetic Carbon Fixation. Environmental Microbiology. 2019.
- HOM Tidbit: Sagan L. On the Origin of Mitosing Cells. 1967.
- HOM Tidbit: Cellmates (Radiolab podcast episode)
- ASM Article: The Origin of Eukaryotes: Where Science and Pop Culture Collide
History of Microbiology Tidbit
Lynn Margulis proposed that organelles, specifically the mitochondria, plastids, and basal bodies, had evolved from independently free-living cells. What evidence supports this? Well, consider the mitochondria, an organelle that I often joke has the best PR of all organelles: everyone who takes high school biology can tell you that mitochondria are the powerhouse of the cell.
- These ATP-generating organelles contain a small bit of their own DNA.
- The DNA of animal mitochondria is circular, similar to the chromosomes of bacteria, rather than linear, like the chromosomes inside the nucleus.
- Mitochondria can also divide autonomously from their home cell, and when they do divide, the division process is more similar to bacterial fission than to cell division.
- Mitochondria are surrounded by 2 lipid membranes, consistent with what happens during phagocytosis or internalization.
I found a freely available copy online of “On the Origin of Mitosing Cells,” published in the Journal of Theoretical Biology (linked above). Side note: the name under which this article was published was Lynn Sagan, as Margulis was married to Carl Sagan through her graduate studies and kept his name until remarrying crystallographer Nicholas Margulis. I was particularly pleased to cover this topic because learning about the endosymbiotic theory was one of those moments in my formative years that biology really clicked for me in an evolutionary sense.
Lynn Margulis had a notable career as an out-of-the-box thinker; finding evidence to promote the endosymbiotic theory is one example of that. It’s also clear from hearing her speak, which you can do on YouTube, that she valued her identity as a scientific outsider, someone who wasn’t afraid to challenge the establishment. Creative thinking is great for science, when evidence can support it. Unfortunately, Margulis’ activities toward the end of her life were contrarian without the scientific data to back her ideas. This was evident in her attitude of symbiosis: while it is clearly an important force within evolutionary history, it is not THE evolutionary force, and Margulis often felt symbiogenesis (the combination of 2 species) wasn’t given its proper due in natural history texts, juxtaposing herself against those she called neo-Darwinists. This was especially true in her outspoken questioning of HIV as the causative agent of AIDS, or whether HIV even existed as a virus at all; she attributed AIDS to syphilis. Largely because of her earlier scientific contributions, these ideas were given a platform in mainstream media outlets, where again, her status helped to spread them.
Margulis died in 2011, but having lived throughout the modern media era, much of her writings and speakings have been captured and can be found online (linked above).
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