Showing posts with label system proteomics. Show all posts
Showing posts with label system proteomics. Show all posts

Sunday, August 2, 2009

Single cells, memory, learning

Ever since I read Seth Grant's paper on synaptic evolution last year, which discusses proteomics at the level of synapses and how we have synaptic proteins in common with yeast, I've been thinking about synapses as gateways to information flow, controlled by proteins that are common to multiple life forms. It caught my full attention that we have synaptic proteins in common with yeast.

Last night I read "Microbes exploit groundhog day" in Nature's July issue. Excerpt:
"The proposal that microorganisms can associate a stimulus with an appropriate response to a future environment might seem far-fetched. After all, without cognition, microorganisms rely on simple regulatory networks to sense and respond to their environment. A canonical example of gene-regulation, the response of Escherichia coli to the sugar lactose, illustrates why it seems surprising that such networks can be used to anticipate environmental changes."
The write-up discusses a paper by Mitchell et al., Adaptive prediction of environmental changes by microorganisms (same issue).
"The insight of Mitchell et al., building on previous work, was to realize that the connection between stimulus and response can be offset in time. For example, if a non-lactose sugar consistently follows the availability of lactose, selection might favour the evolution of a regulatory network that directly links the presence of lactose to the expression of the non-lactose-utilization genes. This network would serve to 'prime' cells conferring an advantage by preparing them to use the non-lactose sugar in anticipation of its imminent availability and thereby reducing the lag time characteristic of de novo activation of response genes. Mitchell et al. call this mechanism adaptive anticipatory conditioning."
A clever experimental design was employed to examine the responses of E. coli and baker's yeast, Saccharomyces cerevisiae, to an environment simulating what each organism would ordinarily find in a typical higher intestinal tract (higher in lactose and low in maltose), compared to lower part of the tract (low in lactose and higher in maltose). Mitchell et al. found that "microorganisms can interpret their environment and respond in a way that provides a benefit only in following a future environmental change." A few wrinkles remain, but "one message is clear" -
"The regulatory networks that link environmental stimuli to microbial responses are complex and can evolve rapidly. The potential for microorganisms to offset responses from environments in which those responses are useful provides both a warning and an opportunity for researchers involved in testing the functional significance of links between stimuli and responses."
Possibly related, in some way, somewhere down the road, are these two recent tidbits from New Scientist:

1. Memristor minds: The future of artificial intelligence
by Justin Mullins. It discusses artificial intelligence and a "fourth" ingredient, "memristor" (in addition to resistor, capacitor and inductor):
"Chua had anticipated the idea that memristors might have something to say about how biological organisms learn. While completing his first paper on memristors, he became fascinated by synapses - the gaps between nerve cells in higher organisms across which nerve impulses must pass. In particular, he noticed their complex electrical response to the ebb and flow of potassium and sodium ions across the membranes of each cell, which allow the synapses to alter their response according to the frequency and strength of signals. It looked maddeningly similar to the response a memristor would produce. "I realised then that synapses were memristors," he says. "The ion channel was the missing circuit element I was looking for, and it already existed in nature."

To Chua, this all points to a home truth. Despite years of effort, attempts to build an electronic intelligence that can mimic the awesome power of a brain have seen little success. And that might be simply because we were lacking the crucial electronic components - memristors." - (my bold)


2. Evolution's third replicator: Genes, memes, and now what? by Susan Blackmore. She comments (excerpts):

"We humans have let loose something extraordinary on our planet - a third replicator - the consequences of which are unpredictable and possibly dangerous.

What do I mean by "third replicator"? The first replicator was the gene - the basis of biological evolution. The second was memes - the basis of cultural evolution. I believe that what we are now seeing, in a vast technological explosion, is the birth of a third evolutionary process. We are Earth's Pandoran species, yet we are blissfully oblivious to what we have let out of the box."

"Billions of years ago, free-living bacteria are thought to have become incorporated into living cells as energy-providing mitochondria. Both sides benefited from the deal. Perhaps the same is happening to us now. The growing web of machines we let loose needs us to run the power stations, build the factories that make the computers, and repair things when they go wrong - and will do for some time yet. In return we get entertainment, tedious tasks done for us, facts at the click of a mouse and as much communication as we can ask for. It's a deal we are not likely to turn down."

Additional resources:

1. BrainScience Podcast #51 Dr. Seth Grant on Synapse Evolution

Sunday, May 17, 2009

Neuroplasticity with Michael Merzenich

A friend and fellow PT, Jon Newman, recently sent me a link to a TED video released for public viewing only in April, it seems - Michael Merzenich on rewiring the brain. If you have ever wondered what neuroplasticity is, check this out. It runs about 23 minutes and I guarantee you'll come away with a deeper grasp of what the brain is and does.

Here is an excerpt I thought was particularly interesting:
"Now, one of the characteristics of this change process is that information is always related to other inputs or other information that's occurring in immediate time, in context. And that's because the brain is constructing representations of things that are correlated in little moments of time, and that relate to one another in little moments of successive time. The brain is recording all information and driving all change in temporal context.

Now, overwhelmingly, the most powerful context that occurred in your brain, is "you". Billions of events occurred in history that are related in time to your "self" as the receiver, your "self" as the actor, your "self" as the thinker, your "self" as the mover.

Billions of times, little pieces of sensation have come in from the surface of your body, that are always associated with "you," the receiver, and result in the embodiment of "you". "You" are constructed. Your "self" is constructed from these billions of events; it's constructed, it's created in your brain and it's created in the brain by physical change. This is the marvelously constructed thing that results in individual form, because each one of us has vastly different histories, and vastly different experiences, that drive into us this marvelous differentiation of self, of personhood."


I love this video. It makes me glad I picked the sort of work I did. I quite like the idea that when I put my hands on someone else, I'm helping them learn more about who they are, helping that brain add to its construction of "self" outside of a pain construction (if I'm careful, and I am). I like that I'm adding more "little pieces of sensation" to their temporally correlated process of embodied self, minus nociceptive input, i.e., more "danger" signals. Yeah, I can live with that.

I also like the idea that I learn more about/add to my own self-construct at the same time, as "little pieces of sensation" from my own skin (on my hands) enters my brain and is temporally correlated to what is already in there.

What is already in there? Circuitry routes, billions of neurons, receptor sites on them (lots and lots of receptors that can change to different ones, alter what they are sensitive to, thanks to "synaptic plasticity") and transmitters. There are convergence zones and arborizations, ascending and descending fibers, switchback and feed forward stations, and lots of somatotopic representational areas (brain maps of body parts). There is brain behaviour, and parts or areas that light up for pain as well as for other functions on fMRI, a vastly complex ecosystem, embedded within another outer ecosystem called the "body," with which it is completely integrated, both of which must exist co-mingled and learn to help each other within the greater outer planetary ecosystem, via a construct called "self."


Additional Reading

1. Michael Merzenich's TED bio
2. A page from my website, About Pain


Older blogposts on Neuroplasticity

1. Neuroplasticity (Dec 11, 2007)
2. Learning (Dec 12, 2007)
3. History of Neuroplasticity (Dec 12/2007)
4. Paradigm (Dec 16, 2007)
5. About mirror therapy (Dec 16, 2007)
6. Get your game on, ease your pain (Dec 17, 2007)
7. The devil is in the details (Dec 18, 2007)
8. A few types of Learning (Dec 18, 2007)
9. Cart ruts: More about UN-doing something (Dec 29, 2007)
10. And it's about brain parts: like hippocampus (Dec 30, 2007)
11. Function only (January 15 2008)
12. Smart prosthetics, smart nerves, smart brains (February 10, 2008)
13. Nervous System Basics VIII: PLASTICITY (May 10, 2008)
14. More about neurogenesis (June 7, 2008)
15. "Dialogues in Clinical Neuroscience" online (August 23, 2008)