Sally James

Seattle Science Writer

Blog post

Tiny invisible bosses

“We are bulky ornaments on life’s skin,

riding the surface, only dimly aware

of the microscopic multitudes

that make up the rest of the body,”

From the book, The Forest Unseen, by David Haskell.

Sometimes the scale of things makes all the difference. My microbes are invisible to my eyes, but increasingly important to how I “see” my own health and our collective public health.

My gradual change in thinking began a few years ago when I donated information from my home and my own body to two different research projects. One was the Ubiome project, which is mapping the microbes in thousands of human guts. The other was the Wild Life of our Homes project, which is mapping the microbes of homes in all 50 states in the United States.

For the Wild Life project, I used a swab that looked like an overgrown Q-tip to take samples from doorways and my kitchen counters and my pillow. I mailed that swab in a vial to the researchers. For the Ubiome project, I took a sample of feces from my toilet paper and sent that. In each case, the samples eventually were sequenced. A lab checked a portion of the RNA sequences in the samples to identify the microbes.

Do the microbes in my own gut make me healthy? Is the ecosystem of my gut different than my husband’s? Each project is asking a question about the vast largely uncharted multitudes of microbes that live in and on our bodies, and in our homes. I wrote in  earlier blog post about these projects.

Donating these microbes made me curious. Learning more about my own skin – literally what lives on my skin – made me wonder more and more. Living in Seattle, I am surrounded by science that probes what is known as “big data.” Our town is especially full of scientists who specialize in mind-bogglingly  large sets of data, including terabytes of information from the genetic sequences of thousands of bacteria living in the human gut, to name one example. These data scientists have to invent their own education, because typical classes don’t serve them. I met some of them when writing a story for Seattle Business magazine.

Many microbiologists will tell you – the microbes don’t just outnumber us on Earth, they add up to more biomass than all the terrestrial mammals of earth added together.  While the comparison may seem unfair, the point is that we should not overlook the microscopic world of our planet.  Our indifference to these creatures because of their scale is exactly what author David Haskell in the quote above eloquently points out is blindness.

During a recent conference of citizen scientists, I had reason to think about this blindness. Our session explained how people donate microbes  for a variety of research projects. The participation itself, I would argue, changes the way you look at the microbes. But it also changes the way you think about scale. You appreciate that the collective action of millions of small creatures may influence bulky organisms like ourselves. In a similar way, going to a conference can make one appreciate the collective ecosystem of thousands of citizens. Might we make big changes happen?

During the conference, many of us talked about whether people who volunteer to collect data for science emerge from the experience with new outlooks. There are more and more people involved in citizen science, so it is worth wondering whether they will vote or spend money differently because of it.

What may seem like an abstract discussion could save the life of someone you love, if they spend time in a hospital and come home with an infection from an organism known as clostridium difficile. These organisms can make people terribly sick and transplants of gut bacteria (in fecal matter) from healthy people have cured some of those patients. Recently, the Centers for Disease Control released new statistics suggesting that nearly half-a-million Americans are  infected per year.

Thinking differently about scale is one reason that pioneers thought of the fecal transplants to treat patients with C. diff infections. While we don’t understand enough to define a “healthy” microbiome, the change in thinking is mammoth. Most people share some similarities within their families of their gut microbiome and there’s some evidence we acquire our microbiome from our Mom.  Many questions spin out from this change in thinking.

One day when washing some carrots from a local farm, I wondered if the microbes in the dirt I was washing away might actually hold more benefit for me than the carrots themselves. At my local gym, I wondered if the reason people who exercise in groups seem to live longer could be related to to the microbe sharing that happens when we share mats and weights. I’m not suggesting either of these ideas is true but just pointing out that once you view the microbes as potential actors in your health, it makes you see differently.

Scientists around the world are now asking questions about microbial life in relation to human health, as well as the ecological health of our built environment and our wild places. They are demonstrating a new way to “see” questions about health. There is research on the relation of gut health to autism, obesity, diabetes and depression, just to give some examples.

As our knowledge about microbes increases, we may see our world very differently. We may be minor players in a game driven partly by these microscopic actors. Stay tuned for more posts on this topic. I welcome your questions.

Let me leave you with a wonderful 25-minute video by  microbiome reseacher,  Jonathan Eisen, who presented in March at a meeting called the Future of Genomic Medicine.  Sorry that the video begins with a short advertisement.

Image above used with permission of the Pacific Northwest National Labs. Taken by Janine Hutchison. Green is lactobacillus reuteri, purple is collagen microsphere, and brown is intestinal cell.

2 Responses

  1. +1! When you see the world as a place where microbes rule, you also begin to wonder who’s really in charge. There’s evidence that we have microbial cysts, even in healthy brains, that are affecting who knows what. Do we really have “free will”, or is it just something coming from a bug inside us?

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