That happens to anything recombinant we produce: crops, cattle, bacteria. That even applies to dog breeds.
"Advantageous" changes as the environment changes. Being a large long lived strong dinosaur is advantageous until meteorite? Then being a small mammal is advantageous. A population explosion of locusts ravages all plants successfully, until a fungus infects and kills almost all, thankfully for locusts some of them which were not "the best" survived that one infection.
And the same homogeneity means that developing a defense for any future hostile organism is much more straightforward, just like e.g. developing software that works on windows is much easier than developing software that works on windows, Linux and mac.
This is also happening with other types of pathogens - antibiotic resistant illnesses are on the rise because we used quickly created defenses to eliminate all but the strongest versions of them. We have very few effective anti-fungal medications, and most of those are very risky.
If we were good at developing defenses for homogeneity, farmers all over the world wouldn't be fungi destroying the monocultures we depend on for modern agriculture (bananas and corn are really great examples). Estimates are that as much of 30% of global crops are lost to fungal infections; I sincerely doubt that homogeneity is the panacea you assume it is.
> Making fungus-resistant agriculture is challenging because fungi share many cellular similarities with humans, making it difficult to develop fungicides that target fungi without harming plants or humans.
Think again about your statement, what you're saying is the fitest is the easiest to manipulate? Thats just mindboggling bad, cause you'd also be a honey pot for all the other bacteria and viruses out there.
https://news.stanford.edu/stories/2024/06/stanford-explainer...
These tools arn't magic, they use the very thing you'd find a virus or bacteria doing to infect you.