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COMPLEX TIME: Adaptation, Aging, & Arrow of Time

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Irreversible Processes in Ecological Evolution/Cooperation and specialization in dynamic fluids

From Complex Time

January 31, 2019
8:45 am - 9:45 am

Presenter

Dervis Can Vural (Univ. Notre Dame)

Abstract

Community ecology is built on the notion of interspecies interactions. The strengths of interactions are almost invariably taken as fixed parameters, which must either be measured or assumed. The few available models that do consider the formation and evolution of interactions, including some built by myself, are based on ad hoc definitions of fitness. In this talk I will present a first-principles approach to how interactions between and within species change. In this picture, the black box of "interspecies interactions" will be replaced with advection, diffusion, dispersal, chemical secretions and domain geometry. I will show that the fundamental laws of fluid dynamics and the physical parameters describing the fluid habitat determine whether species will be driven towards individualism, social cooperation, specialization, or extinction. I will end my talk by proposing ways to tailoring the interaction structure of a microbial community by manipulating flow patterns and domain geometry.    

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Post-meeting Reflection

Dervis Can Vural (Univ. Notre Dame) Link to the source page

To discuss: Could we make a grocery list of all irreversible processes mentioned in the workshop? Few that come to mind immediately: (1) Priyanga's idea on hot to cold invasion (2) Ecological succession. (3) Niche filling (4) something funky happens with the lottery model when there is a big mutation event (is there a name for this? Surely it is a generic thing that can happen in many other systems) (4) formation of interdependences / mutualism / specialization (I will mention in my talk tomorrow) (5) gene duplication (I couldn't follow all there steps here). Anything else I'm missing?

More specific thoughts on individual talks:

Otto Cordero:

Succession of species on hydrogel microspheres. Otto uses spheres with four kinds of nutrition. (1) why are species either specialist (able to digest only one type of sphere) or generalist (able to digest all types). (2) Why don't the cheaters (those who do not produce digestive enzymes) take over. (3) Prima facie, I would expect cheaters to have much lower detachment rate. They should just stick onto spheres and wait for the digestive bacteria to arrive. For the bacteria doing the work a better strategy is to detach quicker, at least before cheaters arrive. Is this observed in experiments? (4) is the interaction between bacteria indirect (i.e. they compete for the same resource) or do they secrete antibiotics or consume one other? (5) what is the role of diffusion lengths? The commensalist bacteria (those who do not secrete enzymes, do not compete for the main resource, but utilize the metabolic byproducts of others) gather whatever they can within diffusion length. So we can calculate the limit the number of layers of bacteria on a surface. For resources (e.g. dead crab shells) that are smaller than the diffusion length, the shape and size of the resource will also make a difference. Also calculable.

Pamela Martinez:

Markov process to describe the spread of pathogen with multiple serotypes (a kind of SIR model). How to differentiate between different models with sparse data. Data could be equally consistent with randomly connected states or even a single Poisson process with appropriate mean. A good suggestion during the talk: generate synthetic sparse data using the model, pretend the data is real, and estimate model parameters. Do they have a similar value? (1) why does the efficacy of vaccines not show up in the population data (they do make a significant difference in controlled studies). (2) why does the vaccine work on some countries but not the others (3) Rotavirus somehow interacts with the gut microbiome. There is some literature that shows that vaccines work for people with microbiomes of the "european kind".

Annette Ostling

Starts with Lotka-Volterra type fitness function. Species are assigned traits between 0-1 and and the interaction matrix is structured such that species with similar traits antagonize each other. This is done with a gaussian kernel in the sum. Questions: (1) what determines the number of clusters. Can I use Turing analysis to solve this analytically? (2) Can I view phylogenetic branches as "clusters"? e.g. animal kingdom, plant kingdom etc. are, in some sense, clusters. And then, there are sub-clusters within these clusters, and sub-sub clusters. What feature should be added to the model to obtain sub-clusters. (3) Given an empirical distribution of features (within a species or within multiple species supposedly filling a niche) how do I distinguish between environmental filtering vs exclusion?

Priyanga Amarasekare: Her argument is, species respond to temperature in an "asymmetric way" (specifically, you hit a wall at high temperatures, but the negative response to cold is more gradual). This leads to an irreversible flow of species (via mutant invasions) from hot regions to cold ones. Comments: (1) I like the idea a lot, very plausible. Here is my alternative (and quite possibly false) point of view: A high population is more evolvable, because there will be more mutants/innovation. Warmer climates have higher biomass (just because it receives more energy) and will therefore generate viable invaders at a higher rate. Maybe.

(2) She had some discussion about constraints vs selection. It's a possible to dichotomize, but I view these two things as one thing. A constrained region in phenotype space is just one with fitness=minusinfinity, so no one visits there. Possibly just a matter of semantics, but in any case, I don't see how a constraint implies irreversibility.

Jacopo Grilli: Three-body interactions surprisingly stabilize the community (unlike those with two-body interactions). I found this surprising because the model with three-body interactions is really an effective model of a two-body interactions. e.g. species A,B,C come together; first A interacts with B, then the winner interacts with C. (and you symmetrize this, because sometimes first A interacts with C first). As such, the outcomes of this model should reduce to a Lotka-Volterra model, (with specific structure, under specific conditions). However, I was not able to figure out what this structure is, and what the conditions are. Whatever the structure and conditions, the stability of the system with three-body interactions should not be a surprise if the equivalent Lotka-Volterra equations are also stable. Either way, I would like to understand this better.

Greg Dwyer: The viruses that infect the pests have multiple DNA's, so I thought that might give rise to an interesting cooperation/cheating dilemma, similar to the one we see in sperm trains. Also there is an interesting three-species coevolution going on between the pests, and the virus and fungus that infect the pests.

Greg likes things he can measure and doesn't like discussing the meaning of life. But then he was converted, and found the meaning of life. Turns out meaning of life is measurable after all.

Reference Material

Title Author name Source name Year Citation count From Scopus. Refreshed every 5 days. Page views Related file
The organization and control of an evolving interdependent population Dervis C. Vural, Alexander Isakov, L. Mahadevan Journal of the Royal Society Interface 2015 3 1
Increased Network Interdependency Leads to Aging Physical Review E - Statistical, Nonlinear, and Soft Matter Physics 2013 0 0
Shearing in flow environment promotes evolution of social behavior in microbial populations Gurdip Uppal, Dervis Can Vural eLife 2018 0 0