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title: Evo & Domestication
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title: Evo & Domestication
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> Documentation [name=MrDr.Staffan]
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# Domestication

*First thoughts* // Why this page

[What happens when a species is domesticated? Their evolution becomes intertwined with that of the domesticating species (Set-species ~set-Evolutionary biosystem)

The selection pressure Of the target is (What's the granularity? / gradients? ) controllEd by the Set-species. 

The human variant is controlling from our appreciated desire/need.

Irrespective, the species genome/continued evolution will be directly linked to the reproduction of the set-species. 

There is a filtering between the species development in the world that is strongly governed by the set-species. And the set-species Whole behaviour e.g. selfimage. 

But why is this interesting?
It suggests a mechanism in evolution that shapes the development of species that is not easy to find the logic in.



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[but isn't all I am doing is trying to see the overall logic in how life behaves and exist?
This is not a contradiction as all systems have the potential to be understood logically (reductively), but to predict that logic is difficult.

You need to find multilevel logics. Allowing for (local level) irregularities and surprising interactions.

Studying nature without looking att the flow off mass is like studying
Pure pathway papers need to be segregated. 
(that's what science publishing does/contributes, they segregate - but does so errously. Should be much more quantitative. E. G. One experiment one publication. Etc.) 


# emergence / philosophy 
[our experienced need being what our brain predicts we should have.

The brain is logic, nature is not. Nature has emergent properties all over which per definition heavily influence the overarching logic of the system. 

Science act through logic. And can therefore on its own only describe Things as logical machines.

Pathways, cascades, gradients.

Nature is more elusive. It flows, finds entropy loopholes, entirely unguided and where more always mean larger chance for the unlikely.

With vast numbers alot becomes reasonable.




[hypothesis
DNA is not an instruction. It's an archive. Of things that contribute to the archives continuation. ] 



# Domestication and symbiosis
["Interspecis genome interaction through the emergence of symbiosis"]

[H: When a species is domesticated. there is a genetic relaxation, in BOTH species. E.g. we get a dog. Our hearing becomes less important, their aggressiveness all that is not selected for - meaning it degrades over time. Freeing up these genes to find new (emergent) functions in the cells. Any severe changes are selected hard for (in utero), the new version needs to fit almost perfectly the old since the system is chaotic and is easily disturbed. [Thats why poor life looks sick and not "decomposing as matter"?]. A glass pillar. Therefore functional mutations becomes a not randomly distributed probability? With . It makes up a system where
A bacteria we carry that kill other bacteria, etc...]

https://sci.bban.top/pdf/10.1016/j.cell.2014.07.047.pdf#view=FitH

- Mutualisms that become evolutionarily stable give rise to organismal interdependencies. Some insects have developed intracellular associations with communities of bacteria, where the interdependencies are manifest in patterns of complementary gene loss and retention among members of the symbiosis.


- In some but not all cicada species of the genus Tettigades, the endosymbiont Candidatus Hodgkinia cicadicola has split into two new cytologically distinct but metabolically interdependent species.
 
- Although these new bacterial genomes are partitioned into discrete cell types, the **intergenome patterns of gene loss and retention are almost perfectly complementary**.


==These results defy easy classification: they show genomic patterns consistent with those observed after both speciation and whole-genome duplication. We suggest that our results highlight the potential power of nonadaptive forces in shaping organismal complexity==

[And like that know these yrstals can merge](https://hackmd.io/@sholmqvist/BJpKurTBB/%2FjBAO5xWKTsOxPbKNSNHUfw)