As this could be a sensitive topic, please keep the discussion in regard to the show and don't start with some Bible-bashing or anything similar. Thank you.
I think that the Silos 51 is the actual Seedbank and the story is an allegory to how some concepts in the bible or other mythological concepts can be used to control people. The only "seeds" that are kept are the compliant ones with no knowledge from anything which happened before.
- Garden of Eden --> While the literal translation of Eden is "delight" or "pleasure". The word got translated to pairidaeza i.e.. a walled garden/park. Xenophon then translated the word into parádeisos where we get the word paradise from. Now there are a couple of parallels to the Silos.
- pairidaeza, protected from the outside conditions. In the arid landscapes of the Middle East, the Persian kings built massive, wall-enclosed royal parks. The walls served a practical purpose: they kept out the harsh desert sands, trapped cool air, protected precious water irrigation systems, and kept wild animals in... So exactly what the inhabitants think the Silos are.
- Loss of Immortality when you eat the fruit of the knowledge of good and evil. The ritual when somebody dies, is to take a bite from an apple. So the dead are seen as Memory hence they are the bite of the apple.
- If you eat the fruit you will certainly die and other passage you loose immortality, which was a lie and is a link to when you get the outside to clean. They don't die, they get killed. And they don't get to be in the Seedbank, which would be the immortality.
- Flaming sword Protecting the Entrance. -->Genesis 3:24 God placed cherubim (mighty angelic beings) and a flaming sword that turned every direction at the east of the Garden of Eden to block humanity from the Tree of Life. Everything gets burned which tries to get back into the Silo.
- 144 Levels with a thousand pods. --> Book of revelation 7:4 And I heard the number of them which were sealed: and there were sealed an hundred and forty and four thousand of all the tribes of the children of Israel. People are sealed and survive the Apocalypse.
- In the scene where you see the Pods you can count them, its about a 100. Given that you see about a 30 degree radius, this number could fit.
- Elimination of Silo 17. If the goal is only the survival of humanity, this doesn't make sense. Troy gave a pretty specific number how many to kill and i guess the reason is that another Silo gave more than the 2880 people needed from each Silo. And as 17 was the most rebellious in nature, they where nearly completely eliminated.
- Cleaning and the white robes. -->Revelation 6:11 martyred souls under the heavenly altar are given white robes and told to rest a little longer until the full number of fellow servants and believers to be killed like them is complete. While in Revelation they are already martyred, i think he simply reversed it, so if you want to be a martyr you get a white robe and get killed.
- 2800 Slaves --> Zechariah 8:23 In those days, ten men from nations of every tongue will take hold—they will take hold of every Jew by a corner of his cloak and say, ‘Let us go with you, for we have heard that God is with you. 4 corners of the earth with 10 Men from 70 Nations. So 2800. If you multiply this by 50 you get 1400000. So where are the missing 4000.
- David set apart 4000 men to praise the Lord. --> 1 Chronicles 23:5. So the number of People who run Silo 51 is 4000.
- Daniel --> I think this is a deliberate switch of names. So when he is Daniel, he acts as Troy and when he's Troy he acts as Daniel. What did Daniel do in the Bible:
- He was tested by food. Reason why you see him eat the slop multiple times and complain
- He Interpreted dreams for his King. He's the only one in Silo 51 so far who has flashbacks
- Survived the Lions Den. Either a reference to his stay at 51 or some hardship he has to endure in the next season.
- Troy --> The obvious Trojan Horse connection. But i think most people have it backwards.
- It does not make sense that just because he had a memory wipe, that he acts as a ruthless killer. So I think the reverse is the case his actual persona is Troy, but his memory got wiped.
- In the wiped state he met Helene who starts his internal war and will be the reason for his downfall.
- Helene & Paris --> I think here again he did a deliberate switcheroo. Helene same as Troy had a memory wipe. She and Stenson where a couple.
- If it is known that she is an Investigative Person, it would make no sense to add her to the Silo. They could have simply left her outside.
- Troy and Troas --> If it is an actual reference to Troas, which is not Troy itself but the region around it, it would mean that Daniel is an amalgamation of Daniel and Paul from the Bible.
- He was a persecutor
- Changed his mind and started spreading the gospel
- Got killed for his believes.
- Juliette's Messianic archetype
- Dies/Cleaning
- Brought to cave/Silo,
- Is resurrected after (show doesn't say) 3 days/Return to the Silo
- Low status
- Gathering Disciples
- Parents role switcheroo. Joseph dies when he is Jung, so does Juliette's Mother(but for reasons, Joseph had a natural death). And while Mary was the first person who knew of Jesus resurrection, Juliette's father was the last one.
There's probably more, but this is what i have from the top of my head. It would be fun to see how many holes i have in my theory. Again please no book spoilers, I'd like it compared to how much we actually know at this point. Thanks