Human Evolution

Creationism, Evolution, and other science issues

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Jose
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Human Evolution

Post #1

Post by Jose »

jcrawford and I have been having some interesting discussions in other threads, which have led to the notion that we really need a thread on human evolution. So, here it is.

The Rules
We want to work from data. Data that is discussed must be accessible in the scientific literature. Personally, I would prefer the peer-reviewed literature, because, as those of us in science know all too well, the peer reviewers are usually one's competitors. Thus, they are typically extremely critical of what we write.

Any other information that is brought to bear must also be accessible to everyone. Where requested, direct quotes from the sources will be important.

The questions for discussion

1. What is the current best understanding of human origins?

2. What "confounds" are there in the interpretation of data?

3. Given that there is always genetic diversity within populations, how easily can we assign hominid fossils to different groups?
Here, the term "form-species" is probably most useful, referring to similar fossils with similar forms, but in the absence of information on the capacity for interbreeding. In many cases, different form-species are different species (fossil trees vs fossil insects), but sometimes they are not (fossil leaves vs fossil roots of the same tree).

4. Does information based on fossil data mesh with information based on genetic data? The true history must be genetically feasible. The fossils must have been left by individuals who were produced by normal genetic methods. To be valid, any explanation of origins must incorporate both fossil and genetic data.

5. What are the parts of human history that are most at odds with (some) Christian views, and what suggestions can we offer for reaching a reconciliation?

I will begin by posting the following genetic data, which is pictorial representation of the differences and similarities in mitochondrial DNA sequence of a whole bunch of people. Relative difference/similarity is proportional to the lengths of the vertical lines. Horizontal lines merely separate the vertical lines so we can see them.
Image
How do we interpret these data?

[If appropriate, I will edit this post to ensure that the OP of this thread lists the important questions.
Panza llena, corazon contento

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Post #41

Post by jcrawford »

The Happy Humanist wrote:
jcrawford wrote:
The Happy Humanist wrote:Yes, this is exciting, could be the thread of the year. Jose vs. Jcrawford...is anyone selling popcorn?
Not yet. Jose and I still haven't decided who should get the concession.

Interested?
If it includes an exclusive merchandising contract with the winner...sure!
I'll have to discuss your generous concession offer with Jose, but remember, if I win, you have to sell 50,000 copies of "Bones of Contention" by Lubenow.

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Post #42

Post by The Happy Humanist »

jcrawford wrote:
The Happy Humanist wrote:
jcrawford wrote:
The Happy Humanist wrote:Yes, this is exciting, could be the thread of the year. Jose vs. Jcrawford...is anyone selling popcorn?
Not yet. Jose and I still haven't decided who should get the concession.

Interested?
If it includes an exclusive merchandising contract with the winner...sure!
I'll have to discuss your generous concession offer with Jose, but remember, if I win, you have to sell 50,000 copies of "Bones of Contention" by Lubenow.
And if Jose wins, you'll agree to buy 50,000 copies of "The Panda's Thumb"?
Jim, the Happy Humanist!
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Any sufficiently advanced worldview will be indistinguishable from sheer arrogance --The Happy Humanist (with apologies to Arthur C. Clarke)

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Re: Human Evolution

Post #43

Post by jcrawford »

Jose wrote:1. That mtDNA is passed on only by the mother. - refuted by John Maynard Smith, Richard Hudson and Henry Harpending.Usually, the mitochondria are stripped from the sperm tail on fertilization, so the paternal mitochondria don't enter the egg. Perhaps it doesn't work this way once in a while, but it only matters if one insists on claiming that the mitochondrial data are only the maternal lineage. In this case, I don't think it matters at all. We're asking who our ancestors were, and we really don't care whether we find the ancestral Mom or Dad.
Speak for yourself here, Jose, since billions of folks wouldn't mind knowing for sure who the real mother and father of us all were in the beginning.
Besides, the Y chromosome data give the same pattern. See Cavalli-Sforza & Feldman, Nature Genetics March 2003, Volume 33 No 3s The application of molecular genetic approaches to the study of human evolution pp266 - 275.
Eleftherios Zouros et al. cite thier studies showing "extensive paternal mitochondrial DNA inheritance in the marine mussel Mytilus." They also cite evidence for paternal mtDNA inheritance in fruit flies, mice, and, by inference, in anchovies. They conclude, "This diverse collection of animals suggests that the phenomenon might be widespread, with obvious implications for the use of the mtDNA molecule for population and phylogenetic studies." - Eleftherios Zouros, Kenneth R. Freeman, Amy Oberhauser Ball, and Grant H. Pogson, "Direct evidence for extensive paternal mitochondrial DNA inheritance in the marine mussel Mytilus," Nature 359 (1 October 1992): 412, 414. (Lubenow)

"A mere trickle of Adam's genes" is serious because such "leakage distorts the DNA clock." - Phillip E. Ross, "Crossed Lines," Scientific American (October 1991): 32. (Lubenow)

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Post #44

Post by jcrawford »

The Happy Humanist wrote:
jcrawford wrote:
The Happy Humanist wrote:
jcrawford wrote:
The Happy Humanist wrote:Yes, this is exciting, could be the thread of the year. Jose vs. Jcrawford...is anyone selling popcorn?
Not yet. Jose and I still haven't decided who should get the concession.

Interested?
If it includes an exclusive merchandising contract with the winner...sure!
I'll have to discuss your generous concession offer with Jose, but remember, if I win, you have to sell 50,000 copies of "Bones of Contention" by Lubenow.
And if Jose wins, you'll agree to buy 50,000 copies of "The Panda's Thumb"?
Only if you up your original generous offer for the popcorn concession.

You don't have any extra copies of "Of Pandas and People," do you?

Believe it or not, my wife just awakened from her afternoon nap and asked if I wanted some popcorn!

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Re: Human Evolution

Post #45

Post by jcrawford »

Jose wrote:2. That mtDNA mutations are regular and serve as a molecular "clock." - refuted by Neil Howard.This is known not to be a valid assumption, because we know mutation rates are not regular. Hence the variation in the heights of the bars in the diagram. This would be an issue if we wanted to say that the data tell us that the ancestor lived 193,000 years ago, but we can't make that claim. The "temporal calibration" of these kinds of trees depends on archeological and paleontological data. Again, however, this consideration is not an issue when interpreting the pattern of the data.
"A recent article in Science states that the clock may be in error by as much as twentyfold." (Lubenow) - Ann Gibbons, "Calibrating the Mitochondrial clock," Science 279 (2 January 1998):28.

"We've been treating this like a stopwatch and I'm concerned that it's as precise as a sun-dial." - Neil Howard, Ibid:28. (Lubenow)

"Using the new clock, myDNA Eve would be a mere 6000 years old." - Ibid., 29. (Lubenow)

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Re: Human Evolution

Post #46

Post by jcrawford »

Jose wrote:3. That mtDNA can be used to dertermine human and primate relationships. - refuted by G.A. Clark and Jonathon Marks.This, too, is a non-issue. Mitochondrial DNA was chosen for this study because it has a fairly high mutation rate, and is thus able to reveal evolutionary changes over relatively short times. By the time we get to species divergences, the time-frames are long enough that there would be too much change to build reliable trees. But that's not what's being done here. The comparison is within one species.
If your diagram has nothing to do with the evolution of human 'species' from other 'human' and non-human primate 'species,' how does it qualify, or of what use is it, as an "issue" regarding mtDNA or other genetic sequencing in reference to the common ancestral origins of human beings and their various respective racial groups?

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Post #47

Post by The Happy Humanist »

Only if you up your original generous offer for the popcorn concession.
Already he's asking for concessions!
You don't have any extra copies of "Of Pandas and People," do you?
Sorry, used my only copy to line my parakeet's cage.
Believe it or not, my wife just awakened from her afternoon nap and asked if I wanted some popcorn
It's a sign!
Jim, the Happy Humanist!
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Any sufficiently advanced worldview will be indistinguishable from sheer arrogance --The Happy Humanist (with apologies to Arthur C. Clarke)

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Post #48

Post by Jose »

jcrawford wrote:I wouldn't go so far as to theorize that H. heidlebergensis is ancestral to everyone in the world, because such early/archaic H. sapiens fossils are dated to have been living contemporaneously in Asia, Africa and Europe, and, using neo-Darwinist logic about one or more mutations leading to their developing "modern" characteristics, their inter-sterility with other racial groups, and these new characterisics not spreading throughout the rest of the heidelbergensis racial groups, we inevitably end up with these guys reproducing and their population increasing to the point of fighting for survival with other racial groups in the world for world domination.

As I see it, H. heidlebergensis was contemporaneous with other racial groups within H. erectus in China, H. ergaster in Africa, H. antecessor in Spain, H. neandertalensis and other H. sapiens throughout Eurasia, the Middle East, Africa and the rest of the world, and no human evolution from one species to another ever occurred.
OK, here's a question for which I would like a very seriously-considered answer. As a biology professor and perpetrator (if that's the word I want) of professional development workshops for secondary science teachers, I'm always on the lookout for someone who is articulate enough to help me see things I don't understand. Here's the question: how, or why, should it matter if two species are contemporaneous? What I'm getting at here is the model that you have in mind for how evolution is "supposed to happen." If you have one thing in mind, and I have something else in mind, we'll end up talking about different things when we think we're talking about the same thing. Rather than have either of us imagine that the other guy is an idiot for "not getting it," we might want to deal with this kind of thing whenever it comes up.

I am reminded of a cute little conversation I had with a faculty recruit years ago. He was an ecologist; I'm a molecular biologist. We speak different languages. We thought we were having a conversation, but ended up each thinking the other was a complete idiot. Years later, after we'd become friends and learned enough about each other's fields that we could actually communicate, we looked back on that conversation with a certain amount of mirth. We'd each assumed that we'd known what the other was saying, but it turned out that neither of us had actually had any idea. It's no wonder we'd failed to communicate.

But back to the issues. I think that it is inappropriate "lumping" to jump to the conclusion that someone (e.g. myself) is automatically using "neo-Darwinist logic" when interpreting data or describing a scenario. That, after all, would be assuming the interpretation before assessing the data. I won't play that game. However, because I know what mutations are, and how they lead to morphological or biochemical changes, and how new alleles may or may not spread through a population over time, I can, and do, develop my own models for how things happen. Sometimes, those models happen to be similar to the models that others have described. Other times, they differ. What I described concerning the acquisition of mutations in a population is simply the only way that it can happen and remain consistent with the chemistry and biology. If that scenario happens to match "neo-Darwinist logic," why, then I'd have to conclude that maybe their logic might be OK.
jcrawford wrote:In these cases we would be using members of the same species (Crawford and Jose) as outgroups, so it's not similar to using a chimp at all. Using a chimp as the outcrop influences the genetic data in the diagram.
It turns out that it actuall is quite similar. In fact, we'd get the identical result for the jcrawford and Jose trees using chimp DNA as the outgroup as we would if we used each other, or if we used Bill Clinton for the outgroup. I've prepared a little figure to make this more clear:
Image
The arrows identify the "root" of the tree. The Jose tree can have its root defined by jcrawford (tree A, black) or by a chimp (tree C, red). The root comes out in the same place. (I've drawn the vertical line connecting the tree to the outgroup as rather longer for the chimp, to indicate that chimps are rather different from us.) The jcrawford tree has its root in the same place, whether defined by Jose (tree B, blue) or by a chimp (tree D, green). Of course, if we used chimps for the outgroup, then we could build a larger tree in which we can link both of our trees onto a single tree that we could call a human tree (tree E, purple). It turns out that it doesn't matter who we use for the outgroup; we still end up with the same relationships for everyone in the jcrawford family.
jcrawford wrote:How do we know that you "redrew the figure" accurately?
Two ways. (1) I said so. O:) (2) I gave you the reference to the source, so you can look it up.
jcrawford wrote:How do we know that 'similar' sequences to humans in fossils are not overlooked and rejected because they are thought to be the result of contamination by modern humans doing the fossil examination?
As I noted for the folks in my building who do this, they have samples of DNA from everyone who is likely to be anywhere near their lab, so if they get a sequence that looks "modern," they check their database. If it's Jenny's DNA, then Jenny has to move to a desk in a different lab (indeed, Jenny did have to move to a different lab for this reason--but they'll never put that into the paper). They won't just take the first sequence they get and call it quits, either. They'll get as many as they can to have statistical confidence that they are looking at something real.

Nonetheless, your point is valid. A modern sequence cannot be distinguished from contamination unless it is in a region that has lots of polymorphisms, and they can rule out its being DNA from one of the investigators. If it's non-polymorphic DNA (ie, conserved among humans), then they cannot distinguish between contamination and the fossil actually having the same sequence. I'd conclude that it was contamination, and that we didn't get sequencable DNA from the fossil.

So, modern sequence (say, from Cro-Magnon) is uninterpretable. Different sequence (say, from neanderthals) can be interpreted with more ease. If it's different sequence, and doesn't match any of the polymorphisms known, and can be "theoretically constructed" only by a separate route from a theoretical ancestral sequence, then it seems likely that it's from an individual in a different lineage.

This is pretty much the same as what Kahn and Gibbons said.
jcrawford wrote:
Jose wrote:We're asking who our ancestors were, and we really don't care whether we find the ancestral Mom or Dad.
Speak for yourself here, Jose, since billions of folks wouldn't mind knowing for sure who the real mother and father of us all were in the beginning.
If we really want to know who the absolute first anatomically-modern human was, then we need to find a technique that can figure it out. While it may be the case that many people would like to know, they're just going to have to wait. This method can't get it. That's why I say "we don't really care"--because we can't answer that question.

The question is even more difficult than you suggest here. Suppose we pretend that we have found the "ancestral Mom" identified in a great big DNA tree of all humans. Who was her Mom? The way genetics works is that every organism reproduces according to its kind. So, she had to have parents. This type of data can only go back a little ways into the past--but there is no indication that the past wasn't much, much longer than that. So, our "mitochondrial Eve" had parents, who had parents, who had parents, and so on until the beginning of life. 450 million years ago, there was plenty of life, but none of it was what we have today. Genetic continuity, and the fact that fossils can be found in all ages of rock after its inception, suggest that among those living things 450 MYA were some of our ancestors--another Eve, if you will, and she too had to have parents.

Where did the first anatomically modern humans arise? Probably in one place, in one small group. Where did their human-like ancestors live? Probably in that area, and probably in other areas as well, if they could walk. Where did their pre-human-like ancestors live, and what were they like? What about their ancestors? I think the immediate questions of this thread are the first couple of these; however, all such questions are really a part of it.

Anyone need a snack?
Image
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Post #49

Post by jcrawford »

The Happy Humanist wrote:
Only if you up your original generous offer for the popcorn concession.
Already he's asking for concessions!
You're the one wanted the popcorn concession along with complete marketing and merchandising rights to the good name and image of the winner of this bout. We're asking for a legitimate offer on your part. What's in it for us. Free popcorn?
jcrawford wrote:You don't have any extra copies of "Of Pandas and People," do you?
Sorry, used my only copy to line my parakeet's cage.
Sounds like usable material for my new book, "Of People and Parakeets."
jcrawford wrote:Believe it or not, my wife just awakened from her afternoon nap and asked if I wanted some popcorn
It's a sign!
Definitely. Guess what? I awarded her half the popcorn concession and all marketing and merchandising rights in Jose's good name and image just in case I lose this world-class match.

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Post #50

Post by jcrawford »

Jose wrote:
jcrawford wrote:As I see it, H. heidlebergensis was contemporaneous with other racial groups within H. erectus in China, H. ergaster in Africa, H. antecessor in Spain, H. neandertalensis and other H. sapiens throughout Eurasia, the Middle East, Africa and the rest of the world, and no human evolution from one species to another ever occurred.
OK, here's a question for which I would like a very seriously-considered answer. As a biology professor and perpetrator (if that's the word I want) of professional development workshops for secondary science teachers, I'm always on the lookout for someone who is articulate enough to help me see things I don't understand. Here's the question: how, or why, should it matter if two species are contemporaneous? What I'm getting at here is the model that you have in mind for how evolution is "supposed to happen." If you have one thing in mind, and I have something else in mind, we'll end up talking about different things when we think we're talking about the same thing. Rather than have either of us imagine that the other guy is an idiot for "not getting it," we might want to deal with this kind of thing whenever it comes up.
This is rather an excellent point on your part, Jose, since we are both obviously operating on two different wave lengths or in different worlds or paradigms, to say the least. You see, I don't accept the neo-Darwinist paradigm at all, including the division and classification of ancestral racial groups into separate 'species' or the dating techniques used to establish the age of any human fossil.

Did you hear about the case where some creationists sent some igneous rocks belched forth from a 35 year old vocanic eruption in the form of lava to a reputable rock-dating lab? Some came back dated thousands of years old, some hundreds of thousands and a couple more than a million years old. Of course the creationists didn't tell the lab about the origin of the volcanic rocks, and the lab qualified its results by saying they were based on the available evidence and data.
But back to the issues. I think that it is inappropriate "lumping" to jump to the conclusion that someone (e.g. myself) is automatically using "neo-Darwinist logic" when interpreting data or describing a scenario. That, after all, would be assuming the interpretation before assessing the data. I won't play that game.
Your logic was based on typical neo-Darwinist theory though. Just like Darwin used original biblical concepts and ideas of the common ancestral origins of human beings in his own speculations on the origin of species from a common ancestor.

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