Systems Microbiolog9

Systems Microbiolog9 - ° Biosynthesis pili and attachment...

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Systems Microbiology o Population biology, gene distributions, and speciation – hard to do on a macro-scale o It was really a surprise when people realized that different strains of E. coli can vary by a whole megabase. o Now that we know that these bacteria have this kind of rhodopsin, when we look for it we find it all over the place in the ocean ° The rhodopsin varies by depth o Lesson: we’ve barely explored microbial sequence space at all: six years ago we didn’t even know this rhodopsin existed, and now we know it’s one of the most common bacterial genes in the ocean. o Mapping organisms to their habitat ° Which genes are found at which depth in the ocean? It’s not random. ° Genes associated with flagella and chemotaxis were more highly represented in the shallow water
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Unformatted text preview: ° Biosynthesis, pili, and attachment genes were more common at the greater depths ° Look at clusters of orthologous genes ° Transposases increase with depth – we don’t know why this is, but it looks like a real trend • These transposases don’t just all come from one family or one organism – this trend is spread out across a wide variety of transposases. ° A lot of the viruses in this ocean sample came from cyanophage ° Samples from the Sargasso Sea ° We’re learning a lot about how these organisms evolve, how they adapt to their environment, and how they pick up variability ° Genomics doesn’t just lead us down a reductionist path – it allows us to zoom out and look at the larger picture....
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