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A couple posters have nailed it already, but it's best to grow one variety or heirloom tomatoes and save a shit ton of seeds.
I LOVE several types, but for future gardening, pick one variety per year.
ETA: same with peppers!
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Yeah. I mean, bagging is pretty freakin simple and you can just dedicate a couple flowers or one whole plant for genetic purity.
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I grow several types of peppers and tomatoes every year, and I just bag a couple inflorescences to keep back for seed. I like variety in my garden. Some tomatoes are great for canning and sauce, while others are great for slicing.
Add bagging to your practice and you can grow whatever you want, while retaining seed for next year.
Or, of course, just deal with a tiny bit of genetic drift. The reality is that the tomatoes (heirloom or hybrid) you grow in your garden are very genetically similar. Cross pollination between the plants isn't going to destroy the lines.
Think of it this way:
Here is the total genetic spread for all tomato types: |-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------|
Here is the spread for edible, garden variety tomatoes: ||
Now if there's a wild-type introduced, that's where you can run into problems. But wild-types are extremely rare and not abundant, so the risk is really really low.
Like I said above, the odds of cross pollination occurring in your home garden are pretty damn low. Almost all tomatoes and peppers self-pollinate. There might be a flower or two (visited early by an insect/bee) that gets some pollen crossed over, but eh. Not a huge deal, even for seed storage purposes.
ETA I guess I'll share my source. I'm a research assistant working on wild-type gene expression and reintroduction to polluted hybrid genetic strains of tomato. I'm also a professional horticulturalist with a degree in horticultural science.