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Oldest Human DNA Contains Clues To Mysterious Species

sciencehabit writes "Analysis of the oldest known genetic material ever to be recovered from an early human reveals an unexpected chapter in the story of human evolution. Researchers extracted mitochondrial DNA from the femur of a 400,000-year-old hominin found in the Sima de los Huesos ('pit of bones'), an underground cave in the Sierra de Atapuerca in northern Spain. Because the early hominins looked a little like Neanderthals, researchers expected their mitochondrial DNA to share a common ancestor. However, mitochondrial DNA from the Spanish hominin was found to share a common ancestor with an enigmatic eastern Eurasian sister group to the Neanderthals, the Denisovans."

16 of 93 comments (clear)

  1. Very interesting, but by ColdWetDog · · Score: 5, Interesting

    1. They had problems with modern human DNA contamination (not sure why they couldn't get everything clean but since they're the leading edge lab in this sort of thing, it must be a real issue).
    2. They had to limit analysis to fragment lengths around 45 base pairs to avoid this contamination. That's tiny compared to what one normally uses.
    3. They only had enough to sequence the mitochondrial DNA.
    4. It's only one person.

    So, it's confusing but it seems from the outside to be due to a limited data set. Now, this sort of thing is at the limit of our current technology and the lab is working to replicate and amplify the data (and work on the somatic genome). So stay confused and stay tuned.

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    1. Re:Very interesting, but by ColdWetDog · · Score: 4, Interesting

      And one other thing, if anybody out there knows:

      They eliminated modern contaminating DNA by analyzing only DNA segments with uracil, a base usually found in RNA and a signature of older, degraded DNA.

      Uracil is a modified Thymine, in vivo DNA where uracil is incorporated into the chain is repaired by a specific enzyme. Does the Thymine naturally degrade to Uracil over time?

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      Faster! Faster! Faster would be better!
    2. Re:Very interesting, but by HiChris! · · Score: 5, Informative

      No, but Cytosine does - the amine group gets hydrolyzed, leaving a Uracil nucleobase. (Also Thymine is a modified Uracil, it's also know as 5-methyl uracil)

    3. Re:Very interesting, but by Concerned+Onlooker · · Score: 2

      "1. They had problems with modern human DNA contamination (not sure why they couldn't get everything clean but since they're the leading edge lab in this sort of thing, it must be a real issue)."

      Just as an observation, I think this is going to be an increasing problem the more sensitive DNA testing gets. It is now possible for some DNA tests to detect a single cell's worth of evidence. Think about that. Then think about the trail of DNA evidence you leave behind everywhere. Getting a "clean" lab may end up being more tricky and costly than you think, not to mention the treatment the specimen got before it got to the lab.

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    4. Re:Very interesting, but by Jane+Q.+Public · · Score: 2

      "1. They had problems with modern human DNA contamination (not sure why they couldn't get everything clean but since they're the leading edge lab in this sort of thing, it must be a real issue)."

      Unlikely that there were not later visitors to the cave. Pissing in the corner is eventually going to contaminate the DNA. This is one of the things the "DNA Forensics" folks like to play down: it is ridiculously easy to contaminate DNA evidence.

      "2. They had to limit analysis to fragment lengths around 45 base pairs to avoid this contamination. That's tiny compared to what one normally uses."

      See my point above. But also: time damages DNA as well. You get more accurate fragments if you limit the size of the fragments. (I.e., statistically, you're less likely to see a fractured or contaminated chemical bond, the smaller the sample you take.)

      "3. They only had enough to sequence the mitochondrial DNA."

      The mitochondrial DNA may have been the best preserved, because it's inside walled micro-structures in the cell.

      "4. It's only one person."

      Bingo.

  2. mitochondrial dna! by schlachter · · Score: 2

    That's from the maternal line. It's the DNA that's directly passed down only from the mother. Just because no maternal Neanderthals DNA is present doesn't mean there isn't Neanderthals DNA present from Neanderthal fathers. I'm not arguing that this is the answer, only that the findings above don't prohibit this from being true.

    Besides, we all know those Neanderthals mean were the one's hitting our ancestral women on the heads, dragging them back their caves, and spreading their DNA. :P

    --
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  3. underground cave... by Kaenneth · · Score: 2

    "underground cave" is there another kind?

    1. Re:underground cave... by Nkwe · · Score: 5, Informative

      "underground cave" is there another kind?

      Man Cave

    2. Re:underground cave... by camperdave · · Score: 2

      "underground cave" is there another kind?

      Yes, that annoys me too. However, there are snow caves and ice caves

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      When our name is on the back of your car, we're behind you all the way!
    3. Re:underground cave... by M.+Baranczak · · Score: 3, Funny

      Nick Cave. Does he still count as "underground"?

    4. Re:underground cave... by slashmojo · · Score: 2

      Does he still count as "underground"?

      Not since the duet with Kylie Minogue..

  4. Re:Hominin? by a_n_d_e_r_s · · Score: 4, Informative

    Hominin a subtribe of homonids

    Homonids is great apes thus humans gorillas chimpanzea orangutans

    Homonin are all those related closer to humans than chimpanzees thus neantherthals etc

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    Just saying it like it are.
  5. Re:science writer knows nothing of science by wonkey_monkey · · Score: 3, Funny

    So what exactly is the "clues" that have been gained?

    are

    Sorry.

    So what exactly is the "clues" that are been gained?

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  6. Re:Hominin? by Nerdfest · · Score: 4, Funny

    ... because hominem is a homonym of hominim.

  7. Re:Happy Wednesday from The Golden Girls! by werewolf1031 · · Score: 2

    If I understand the subject correctly: Humans, yes; homo sapiens, no.

    That is, 'human' encapsulates more than just us modern homo sapiens, and includes other species of the genus homo, such as homo neanderthalensis (or sub-species homo sapiens neanderthalensis, depending on where you're reading).

  8. Re:Happy Wednesday from The Golden Girls! by jc42 · · Score: 4, Informative

    We were human 100000 years ago? Weren't we human-LIKE way back then? I mean, denisovians and Neanderthals weren't human, were they?

    Well, if you're talking about the conventional usage of "human" in scientific circles, the answer is: Yes, they were; they just weren't modern humans.

    But "human" really isn't a technical term; For that you want something like "Homo" or "hominin", depending on how far back in the tree you want to describe. The term "human" is used informally to mean just about any critters later than the split from the Pan (chimpanzee) branch. It's used when you don't want to be too precise about such things.

    OTOH, "human" is widely used in common speech to refer to anyone "not like us". Sometimes it means "white people", especially in writings from before the 20th century. But you don't much hear such usages in scientific settings. You do see it a lot in media coverage of science, but then it means whatever the journalist thinks it means.

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