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General fitness, health and nutrition
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15 April 2004
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Chupacabra
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  1. Quoted message said:

    LM:- Okay. So, if we take into account ALL evolutionary
    change then you agree that random genetic drift is the
    most important mechanism?

    BOH:- I think I can still use my same question: Doesn't that
    depend on how you measure evolutionary change? It's not
    clear to me that we have to measure it at the sequence
    level. If we measure it at the phenotpyic level, we get a
    different answer. Most paleontologists will probably take a
    phenotypic view, most geneticists will take a sequence point
    of view. Both are, I think, equally right, unless one
    defines organisms purely as their sequences.

    JE:- Both are not "equally right" because all the
    documented inherited phenotypes that we know of within man
    cannot be coded in a simple additive way with just 30,000
    or so, genes. By only examining the genetic code sequence
    of these genes we cannot construct every known heritable
    phenotype. Where is all the missing information? Non
    additive genetic epistasis which is, even today, defined as
    "inherited" but "non heritable" information just to suit
    the needs of population geneticists and their heuristic
    over simplified models.

    Regards,

    John Edser Independent Researcher (Posting from Bonn
    Germany)

    PO Box 266 Church Pt NSW 2105 Australia

    [email hidden]

  2. Larry Moran <[email hidden]> wrote or quoted:

    Quoted message said:
    Tim Tyler said:

    Larry Moran <[email hidden]> wrote or
    quoted:

    Quoted message said:

    Anon. <[email hidden]> wrote:
    > Larry Moran wrote:

    Quoted message said:
    Quoted message said:
    Quoted message said:

    >> In terms of total amount of evolutionary change,
    >> random genetic drift is the main mechanism of
    >> evolution, by far. Almost all evolutionary
    >> biologists know this.

    > Doesn't that depend on how you measure evolutionary
    > change? [...] At the sequence level, I would agree
    > (well, until someone shows me some evidence to the
    > contrary).

    Okay. So, if we take into account ALL evolutionary
    change then you agree that random genetic drift is the
    most important mechanism?

    The means of quantifying "all evolutionary change" here
    is not clear.

    State the metric used - and the question of whether
    genetic drift comes in at the #1 position will probably
    be clearer.

    I mean the sum all evolutionary changes of any sort by
    whatever definitions are used by a large number of
    scientists.

    That's not a clear enough definition to permit any kind of
    quantative analysis.

    The differences in question are different in kind.

    How do you "sum" morphological changes with genetic changes?
    Is another set of limbs "worth" one mutation? - or ten? It
    certainly isn't obvious how you add such things up.

    Quoted message said:

    Did you have something else in mind that would shift
    random genetic drift into second place? Is there some
    definition of "all evolutionary change" that would cause
    you to question my statement? If so, perhaps you could
    share it with me?

    Emphasising the significance of morphological changes - on
    the grounds that most genetic changes that persist for very
    long are useless random noise with little or no effect on
    the phenotype - could have the effect of making genetic
    drift much less important.
    --
    __________
    |im |yler timtyler.orgtimtyler.org [email hidden] Remove
    lock to reply.

  3. Larry Moran <[email hidden]> wrote or quoted:

    Quoted message said:
    Tim Tyler said:

    Larry Moran <[email hidden]> wrote or
    quoted:

    Quoted message said:

    On Sun, 23 May 2004 18:07:21 +0000 (UTC), Tim Tyler
    <[email hidden]> wrote:
    > Larry Moran <[email hidden]> wrote
    > or quoted:
    >> Anon. <[email hidden]>
    >> wrote:
    >> > Larry Moran wrote:

    Quoted message said:
    Quoted message said:
    Quoted message said:

    >> >> In terms of total amount of evolutionary change,
    >> >> random genetic drift is the main mechanism of
    >> >> evolution, by far. Almost all evolutionary
    >> >> biologists know this.
    >>
    >> > Doesn't that depend on how you measure
    >> > evolutionary change? [...] At the sequence level,
    >> > I would agree (well, until someone shows me some
    >> > evidence to the contrary).
    >>
    >> Okay. So, if we take into account ALL evolutionary
    >> change then you agree that random genetic drift is
    >> the most important mechanism?
    >
    > The means of quantifying "all evolutionary change"
    > here is not clear.
    >
    > State the metric used - and the question of whether
    > genetic drift comes in at the #1 position will
    > probably be clearer.

    I mean the sum all evolutionary changes of any sort by
    whatever definitions are used by a large number of
    scientists.

    That's not a clear enough definition to permit any kind
    of quantative analysis.

    Hmmm ... I think I see your objection. You want a precise
    definition of evolutionary change so you can objectively
    analyze the mechanisms. I've been assuming all along that
    changes are most easily quantified by adding up mutations
    in DNA but you don't seem to accept that particular
    measure.

    It's a great measure - but not the /only/ one - and as I
    mentioned in another post, it has some definite flaws as a
    metric of evolutionary change.

    I am not my mind. I am not my body. I am not my DNA
    sequence ;-)

    Quoted message said:

    It was obvious to me. If a new set of limbs is due to 74
    different base substitutions in DNA then that's how you
    measure it and compare it to, for example, 74 single
    neutral base substitutions. I think you want to substitute
    a subjective measure where a new set of limbs has a much
    higher score because it's more significant to your way of
    thinking. This is a new idea to me. Do you have a clear
    quantitative way of calculating the score of morphological
    changes or is this just a sleight-of-hand way of trying to
    argue in favor of the supremacy of natural selection?

    I hope not the latter ;-)

    Quanifying phenotypic change is difficult.

    However, the phenotypes of living organisms still form a
    tree where qualities very along the branches.

    Taxonomists don't *have* to look at an organisms' DNA
    sequence to begin to answer questions about which other
    organisms it is most closely related to.

    As for general-purpose metrics - there are several of them.
    Length, lifespan, mass and number of cell types are all
    fairly useful means of quantifying evolutionary change.

    Quoted message said:
    Quoted message said:
    Quoted message said:

    Did you have something else in mind that would shift
    random genetic drift into second place? Is there some
    definition of "all evolutionary change" that would
    cause you to question my statement? If so, perhaps you
    could share it with me?

    Emphasising the significance of morphological changes -
    on the grounds that most genetic changes that persist
    for very long are useless random noise with little or no
    effect on the phenotype - could have the effect of
    making genetic drift much less important.

    I understand. This is the adaptionist position. Can you
    turn it into a quantitative, scientific, statement or is
    it just a gut "feeling"?

    BTW, I'm not conceding that all morphological change is
    due to natural selection. Do you have a quantifiable
    measure of the amount of morphological change that's due
    to natural selection?

    My impression is that this depends in a big way on the
    effective population size.

    In "small" populations, the founder effect is the main
    force.

    In "large" populations, the founder effect is of low
    relevance, and selective forces tend to dominate as causes
    of phenotypic change.

    This is *only* if you ignore neutral mutations, of course.

    *If* you use a metric that measures raw genome hamming
    distance, random noise is indeed the cause of most changes.

    However, random noise is like radio static - interesting if
    you are wondering how far away the transmitter is - but if
    you are trying to listen to the radio program, it just gets
    in the way.
    --
    __________
    |im |yler timtyler.orgtimtyler.org [email hidden] Remove
    lock to reply.

  4. Tim Tyler said:


    Humanity is doing a reasonable job of spreading out. Human
    speciation doesn't seem to be immediately on the cards -
    but that's not a big deal.

    Overall, [censored] Sapiens as a species seems to be doing OK
    just at the moment. I reckon it has bright prospects in
    the role of founder.

    Sorry. I meant malfunctioning from the perspective of the
    design constraints a few of us take seriously when we invoke
    the theory of natural selection as an explanatory
    hypothesis.

    I really don't quite know how to argue with someone who
    thinks flying planes into building qualifies as evidence of
    genes that have been endlessly honed to maximize
    reproductive success. We've obviously been reading
    different authors. Since I can't imagine how this
    conversation can lead to anything substantive, I think I'll
    just sign off for now.

    Cheers!

    PR

    --

    Phil Roberts, Jr.

    Why We Turned Out Like Captain Kirk Instead of Mr. Spock:
    The Psychodynamics of Genetic Indeterminism
    fortunecity.comKirk.htm

  5. Tim Tyler said:

    Larry Moran <[email hidden]> wrote
    or quoted:

    Quoted message said:
    Tim Tyler said:

    Larry Moran <[email hidden]> wrote or
    quoted:
    > Anon. <[email hidden]> wrote:
    > > Larry Moran wrote:
    > >> In terms of total amount of evolutionary change,
    > >> random genetic drift is the main mechanism of
    > >> evolution, by far. Almost all evolutionary
    > >> biologists know this.
    >
    > > Doesn't that depend on how you measure evolutionary
    > > change? [...] At the sequence level, I would agree
    > > (well, until someone shows me some evidence to the
    > > contrary).
    >
    > Okay. So, if we take into account ALL evolutionary
    > change then you agree that random genetic drift is the
    > most important mechanism?

    The means of quantifying "all evolutionary change" here
    is not clear.

    State the metric used - and the question of whether
    genetic drift comes in at the #1 position will probably
    be clearer.

    I mean the sum all evolutionary changes of any sort by
    whatever definitions are used by a large number of
    scientists.

    That's not a clear enough definition to permit any kind of
    quantative analysis.

    Hmmm ... I think I see your objection. You want a precise
    definition of evolutionary change so you can objectively
    analyze the mechanisms. I've been assuming all along that
    changes are most easily quantified by adding up mutations in
    DNA but you don't seem to accept that particular measure. I
    apologize for not recognizing earlier that my basic
    assumption was being challenged.

    Quoted message said:

    The differences in question are different in kind.

    How do you "sum" morphological changes with genetic
    changes? Is another set of limbs "worth" one mutation? -
    or ten? It certainly isn't obvious how you add such
    things up.

    It was obvious to me. If a new set of limbs is due to 74
    different base substitutions in DNA then that's how you
    measure it and compare it to, for example, 74 single neutral
    base substitutions. I think you want to substitute a
    subjective measure where a new set of limbs has a much
    higher score because it's more significant to your way of
    thinking. This is a new idea to me. Do you have a clear
    quantitative way of calculating the score of morphological
    changes or is this just a sleight-of-hand way of trying to
    argue in favor of the supremacy of natural selection?

    Quoted message said:
    Quoted message said:

    Did you have something else in mind that would shift
    random genetic drift into second place? Is there some
    definition of "all evolutionary change" that would cause
    you to question my statement? If so, perhaps you could
    share it with me?

    Emphasising the significance of morphological changes - on
    the grounds that most genetic changes that persist for
    very long are useless random noise with little or no
    effect on the phenotype - could have the effect of making
    genetic drift much less important.

    I understand. This is the adaptionist position. Can you turn
    it into a quantitative, scientific, statement or is it just
    a gut "feeling"?

    BTW, I'm not conceding that all morphological change is due
    to natural selection. Do you have a quantifiable measure of
    the amount of morphological change that's due to natural
    selection? Would you subdivide morphological change into
    "significant" and "non-significant" in order to make natural
    selection the predominant mechanism?

    Larry Moran

  6. On Sun, 23 May 2004 18:07:23 +0000 (UTC), A

    non. said:
    Larry Moran said:
    Anon. said:

    Larry Moran wrote:

    [snip]

    Quoted message said:
    Quoted message said:
    Quoted message said:

    >In terms of total amount of evolutionary change, random
    >genetic drift is the main mechanism of evolution, by
    >far. Almost all evolutionary biologists know this.

    Quoted message said:

    Doesn't that depend on how you measure evolutionary
    change?

    I suppose. One could presumably eliminate or ignore some
    kinds of evolutionary change in order to make natural
    selection seem more important.

    Quoted message said:

    At the sequence level, I would agree (well, until someone
    shows me some evidence to the contrary).

    Okay. So, if we take into account ALL evolutionary change
    then you agree that random genetic drift is the most
    important mechanism?


    I think I can still use my same question: Doesn't that
    depend on how you measure evolutionary change? It's
    not clear to me that we have to measure it at the
    sequence level.

    I didn't say you *have* to measure it at the sequence level.
    I just said that when you take into account ALL evolutionary
    change, including change at the sequence level, then drift
    is the main mechanism.

    Quoted message said:

    If we measure it at the phenotpyic level, we get a
    different answer.

    Perhaps. What you are saying is that if we only look at
    *some* evolutionary change then drift may not be the main
    mechanism of that subset. I'm sure you could find a subset
    of evolutionary change where natural selection is the
    dominant mechanism. You could also find a subset of
    evolutionary change where molecular drive is the main
    mechanism ... or species sorting. What the point?

    Quoted message said:

    Most paleontologists will probably take a phenotypic view,
    most geneticists will take a sequence point of view. Both
    are, I think, equally right, unless one defines organisms
    purely as their sequences.

    They are not both equally right if they claim different
    mechanisms for the majority of ALL evolutionary change. The
    only way the adaptionists can win such an argument is to
    claim that changes by random genetic drift are not
    evolution. Some of them try to do this. I don't think that's
    what you're trying to do, is it?

    Larry Moran

  7. Phil Roberts said:
    John Wilkins said:

    Phil Roberts, Jr. <[email hidden]> wrote:

    Quoted message said:
    Quoted message said:


    Assume for the sake of argument that most ampliative
    inference is more a matter of COGNIZING a rule
    (i.e., order) than a matter of FOLLOWING a rule (e.g.,
    logic) and, along with it, the OPTION of following
    a rule or NOT once it has been cognized. If such
    were the case, then we might readily expect to find
    AN INVERSE CORRELATION between 'being rational' and
    'being determined'. Who knows? We might even
    eventually find a species that was beginning to
    question the most central natural mandate of all,
    'maximize your own self-interest', taking the form
    of an increased volatility in self-value, and an
    insatiable appetite for self-significating
    experience. In other words, we might find a species
    becoming less and less concerned with staying alive
    (e.g., the 9/11 terrorists) and more and more concerned
    with sustaining REASONS for staying alive (e.g.,
    needs for love, attention, religion, moral
    integrity, wealth, power, autonomy, justice,
    meaning purpose, etc.) precisely as can currently
    be observed in nature's most rational species.
    Would that be such a bad thing?

    Whew... let's take 'em one at a time.

    We have heuristics - rules of thumb, which we employ.
    They are always gained on the basis of past experience
    (for that matter, I am one of those deluded souls who
    thinks logic is itself the result of past learned
    experience).

    I agree with you about logic. One of the brightest among
    us (Aristotle for instance) managed to cognize the order
    in the manner in which we cognize order. But unlike my
    read of you so far, I believe who ever this individual
    was, he had intellectual acuities that went far beyond
    rote learning and trial and error, the so-called
    "darwinian" approach as you have deemed it, I believe.

    Well, all I can say is that there is no way I can conceive
    of for this to occur, apart from noetic rays or clairvoyance
    or divine revelation.

    Quoted message said:


    Quoted message said:


    Rational, in philosophical usage, means able to maximise
    coherence, warrant of belief, and conceptual and
    empirical adequacy, or some such.

    Rationality is widely construed as comprised of two
    domains, an epistemic/cognitive domain and a practical
    domain. The first domain might be construed as more or
    less corresponding with epistemology, although epistemics
    would probably be a better term for it. The latter domain
    is dominated by the means/end theory, in which rationality
    is construed as a matter of efficiency or expected
    utility, in its game theoretic formulations at least. But
    it is also important to note that the originators of game
    theory adopted this stance purely for the purposes of
    simplification. They were not attempting to make any sort
    of pronouncements about the rationality of ends. They just
    wanted to bypass this murkey issue, which was probably not
    such a bad idea:

    I am not in this sense a Kantian (which is whence we get the
    pure and practical reason distinction, and the means and end
    contrast).

    Quoted message said:



    Let's fill out the quote you give for context: One might
    argue: if it is pointed out to both [player] 1 and [player]
    2 that alpha3 and beta2 [two strategies in a game] are in
    equilibrium, then 1 _should_ choose alpha3. Possibly, but
    nothing in game theory says so.. If we were player 1 in this
    case, we certainly would choose alpha3, but we would not
    call another "irrational" if he did otherwise. Even if we
    were tempted at first to call an alpha3-non-conformist
    "irrational," we would have to admit that player 2 might be
    "irrational" in which case it would be "rational" for player
    1 to be "irrational" - to be an alpha3-non- conformist. We
    belabor this point because we

    Quoted message said:

    feel that it is crucial that the social scientist
    recognize that game theory is not descriptive, but
    rather (conditionally) normative. It states neither
    how people do behave nor how they should behave in an
    absolute sense, but how they should behave if they
    wish to achieve certain ends (Luce and Raiffa, 1957).


    It prescribes for given assumptions courses of action
    for the attainment of outcomes have certain formal
    "optimum" properties. These properties may or may not
    be deemed pertinent in any given real world conflict
    of interest. If they are, the theory prescribes the
    choices which _must_ be made to get to that optimum."
    page 63, by the way.

    The rationality here is one of a course of action to be
    taken in a situation of agreed value and conflict of
    interest. But this is a very limited form of rationality.
    This is why game theory is applicable to evolution - the
    "rational egoism" is specified in a very specific sense
    - of maximising the number of copies of a gene. But this
    does not transfer to social behaviors directly. Social
    action is not selfish because we can model genes as if
    they were selfish (something Dawkins notes quite
    explicitly in the Afterword to the 1989 edition of The
    Selfish Gene).

    Genes can be considered *as if* they were selfish players in
    a game, and the end result of this selection can be
    apparently altruistic behavior on the part of the organisms,
    due to kin selection, and the fact that iterated Prisoner's
    Dilemmas (uncommunicative dilemmas where either one player
    loses out or both do less well than the optimum) will, if
    the initial population is suitably composed, evolve into
    equilibrium of "[censored] for tat" strategies.

    In short, cooperation can evolve through the maximisation of
    genetic fitness. It won't always, but there is absolutely no
    justification for the direct transference of selfishness
    from the level of the gene to that of the individual or
    social group, contrary to Ghiselin's sarcastic and cynical
    comment, "scratch an altruist and watch a hypocrite bleed).
    It's all about keeping your levels straight when determining
    the interest bearers.

    Quoted message said:
    Quoted message said:

    This is only feasible ahead of time if we have some
    noetic projective power, which we don't.

    Not quite sure what you mean by this. We have a certain
    amount of predictive power, but that is apparently not
    what you have in mind.

    No. We have that because we learn from experience what sort
    of projection works, whether that experience is individual
    through learning or evolutionarily in our innate cognitive
    machinery.

    Quoted message said:

    If, on the other hand, you arguing that 'being rational'
    is a matter of 'being objective', and in spite of the
    fact that we might never know for sure when that might be
    the case, then I would quite agree. Indeed, I would argue
    that we can clear up lots of rationality paradoxes by
    adopting just such an assumption, that 'being rational'
    is simply a matter of 'being objective'. We can also
    clear up an evolutionary anomaly, but that's a litte far
    down the road.

    Nope, "being rational" in a game merely means that you are
    completely consistent in carrying out the "calculation" of
    what will maximise the outcome. That is different to being
    rational in the philosophical sense (which, incidentally,
    means to maximise conceptual coherence, as I said).

    Quoted message said:


    Quoted message said:

    So we can only tell if we are rational over long periods
    and in populations, just as we can only tell if a novel
    trait is fit the sameway.

    Yes. We are rational when we are objective, but its damn
    difficult to tell just exactly when that is and we can
    never be sure.

    Which is why, in the end, the only test is success at
    maximising fitness, either conceptual or biological.

    There are three, and so far as I can tell *only* three,
    sources for our abilities to model the environment
    successfully:

    1. Individual learning (through trial, error elimination,
    and selective retention of what works);

    2. Cultural learning (through trial, error elimination and
    selective retention of what works); and

    3. Evolutionary adaptation (through trial, error
    elimination, and selective retention of what works).

    That each of these applies to differing substrates in no way
    undercuts the claim that the same general process is
    occurring. After all, biological evolution applies to a
    range of differing substrates too...

    Quoted message said:


    Quoted message said:

    It's not a matter of maximising self-interest; since
    Marx's "false consciousness" we have understood that self-
    interest can be served often by self-delusion, and that
    "interest" can be interpreted as a political term,
    leaving scientific knowledge to be a political
    weathercock.

    Ahmen!

    Special concern for one's own future would be selected
    by evolution: Animals without such concern would be
    more likely to die before passing on their genes. Such
    concern would remain, as a natural fact, even if we
    decided that it was not justified. By thinking hard
    about the arguments, we might be able briefly to stun
    this natural concern. But it would soon revive... The
    fact that we have this attitude cannot therefore be a
    reason for thinking it justified. Whether it is
    justified [i.e. rational] is an open question, waiting
    to be answered (Derek Parfit, 'Reasons and Persons'๐Ÿ˜‰.

    But what Parfit does not deal with in this passage (which,
    by the way, you sling around like biblical texts; watch
    that) is the fact which we now understand that selection on
    "selfish genes" coupled with sufficient random variation
    (drift and mutation) to allow differing population
    structures to arise (for density dependent selection changes
    fitness values locally) can give rise to robust altruistic
    strategies at the organismic level. It's too easy to say
    "anything that is not useful to the individual will be
    eliminated". This is not true - it is what is useful to
    maximise the inclusive fitness of many copies of genes.

    Quoted message said:


    Quoted message said:


    I prefer to think of scientific knowledge as post hoc
    tendencies to do the right thing empirically. As Quine
    once said, in _From a Logical Point of View_ (one of the
    first attempts to reconcile evolution and epistemology
    after the logical whatevertheyweres), "creatures
    inveterately wrong in their inductions have a pathetic,
    but praiseworthy, tendency to die before reproducing
    their kind".

    Objectivity in cognitive affairs is adaptive. Agreed. But
    objectivity in valuative affairs is not, since selfishness
    is usually going to be more efficient in perpetuating
    one's self and one's genetic blueprints.

    Human and baboon have evolved by natural selection. If
    you look at the way natural selection works, it seems
    to follow that anything that has evolved by natural
    selction should be selfish. Therefore we must expect
    when we go and look at the behavior of baboons,
    humans, and all other living creatures, we will find
    it to be selfish. If we find that our expectation is
    wrong, if we observe that human behavior is truly
    altruistic, then we will be faced with something
    puzzling, SOMETHING THAT NEEDS EXPLAINING. [my
    emphasis].


    Who are you quoting now? What do they go on to say? Please
    don't argue like this.

    Quoted message said:

    Selfishness is the exact opposite of valuative
    objectivity (impartiality). So we have reason to assume
    that nature is selecting for objectivity/ rationality in
    cognitive affairs, and selecting AGAINST
    objectivity/rationality in valuative affairs (e.g.,
    Dawkins has pointed out that there is a surprising amount
    of mitochondrial DNA from a single individual floating
    around Europe, its origins tracable to the time of Attila
    the Hum ๐Ÿ™‚ Or think of what Joseph Stalin was able to
    accomplish without the inefficiency of moral qualms
    constantly getting in the way)

    And this does not necessarily translate to long term
    fitness. A couple of generations don't matter - if [censored]
    genes spread, the likelihood is that a [censored] population
    will eventually encounter conditions in which the [censored]
    strategy does less well than NiceGuy genes overall.

    Quoted message said:


    Quoted message said:

    Organisms adapted to conditions, and then they can leave
    those conditions or the conditions change around them.
    We have cognitive capabilities that once were highly
    adaptive, but we have changed our environment faster
    than our genes can track. So it is unsurprising that we
    do things that are not adaptive. But the ideas
    themselves still adapt. That's why I think cultural
    evolution is darwinian, even if not Darwinian.

    But the problem is not just in our ideas. More
    importantly, we have VALUES that look radically askew, at
    least from the perspective of the authors I have grown to
    respect (Price, Hamilton, Dawkins, Smith, Williams,
    Campbell, etc.).

    Even with qualifications regarding the possibility of
    group selection, the portrait of the biologically based
    social personality that emerges is one of predominantly
    self-serving opportunism EVEN FOR THE MOST SOCIAL
    SPECIES, for all species in which there is genetic
    competition among the social co- operators, that is,
    where all members have the chance of parenthood (Donald
    Campbell).


    And the question is why? My own view is that we have a
    tradeoff between generations; I call it "social
    investment". We are all trying to maximise the assistance
    we get from our troop for our progeny. This strategy will
    tend to evolve cooperators of a kind (not naive
    cooperators, though). Don Campbell is one of the Good Guys
    as far as I am concerned, BTW.

    Quoted message said:


    Rather than "ruthlessly selfish", as predicted by our
    formal models, [censored] sapiens might more accurately be
    described as benevolently selfish and, even more bizarre,
    plagued with moral qualms that sometime lead to self-
    termination.

    Quoted message said:
    Quoted message said:


    But that IS Dawkins' idea, isn't it?

    The new [primeval] soup is the soup of human
    culture. We need a name for the new replicator, a
    noun that conveys the idea of a unit of cultural
    transmission, or a unit of imitation. 'Mimeme' comes
    from a suitable Greek root, but I want a
    monosyllable that sounds a bit like 'gene'. I hope
    my classicist friends will forgive me if I
    abbreviate mimeme to meme .

    But Dawkins only allowed that memes might be adaptive,
    as do a great many evolutionary epistemologists.

    I don't think so, John. Dawkins was the one who made the
    radical and I believe, totally honest remarks about just
    how selfish we "ought" (an epistemic ought, not a moral
    one) to be given our formal models of natural selection.
    That's why he went out of his way to provide an entire
    last chapter that was a DISCLAIMER for any assumption that
    you can apply these conclusions directly to human nature.
    Dawkins was contending that we currently have an
    explanatory void between the theory of natural selection
    (at least as it shows up in the formal models) and humam
    nature as it is currently observed. "Memetics" is just a
    placemarkder for whatever theory its going to take to fill
    this expalantory void.

    I think Dawkins is close to being a panadaptationist, and I
    agree about the placeholding of memes (I would rather strip
    cultural evolution of gene-metaphors and replicators and
    talk about the dynamics - so I'd rather speak of "cultural
    Darwinism"๐Ÿ˜‰. But one thing his meme theory does do is point
    up that the evolutionary dynamics of culture are distinct
    from, but constrained by, the evolutionary dynamics of
    biology. My own metaphor is the layers of currents in a
    river - the deeper ones are not necessarily guiding the
    superficial ones; each has its own dynamics.

    Quoted message said:


    Quoted message said:

    It makes a lot of sense if you allow that they can be
    the result of nearly neutral drift, or adaptation to
    something other than "reality" (for example, adaptation
    to local cultural conditions).

    I think the 9/11 terrorst (and others) are like red flags
    being waved in front of natural scientists saying, "Quess
    what boys, its time to go back to the drawing boards". I
    also think the difference between a scientist and an
    academic or a technologist is precisely in his ability to
    notice when something is askew, possibly requiring a
    paradigm shift (e.g., the periphilons of Mercury come to
    mind). The fact that just about every contributor to this
    thread so far seems to be complacent about the 9/11
    terrorists, for example, is pretty sad. But then I just
    attended a conference in which I was the only one in the
    room who thought morality might not be adaptive, so I'm
    gettin' kinda used to it (with the exception of Matt
    Ridley, that is, but only in private conversation after
    the meeting).


    4/11 poses nothing we didn't already know from a couple of
    millenia of documented fanaticism. It just hit America
    hard, that's all (from a theoretical perspective; it hit
    me hard as I had friends near there, and I had just been
    there a couple of months prior). There is no anomaly to
    deal with, but a well-known fact of cultural dynamics.

    --
    John S Wilkins PhD - www.wilkins.id.au a little emptier, a
    little spent as always by that quiver in the self,
    subjugated, yes, and obedient. -- Seamus Heaney

  8. [email hidden] (Larry Moran) wrote in
    :"]news:[email hidden]:

    Quoted message said:
    A non. said:
    Larry Moran said:

    On Sat, 22 May 2004 02:26:53 +0000 (UTC), Anon.
    <[email hidden]> wrote:
    >Larry Moran wrote:

    [snip]

    Quoted message said:
    Quoted message said:

    >>In terms of total amount of evolutionary change, random
    >>genetic drift is the main mechanism of evolution, by
    >>far. Almost all evolutionary biologists know this.

    >Doesn't that depend on how you measure evolutionary
    >change?

    I suppose. One could presumably eliminate or ignore some
    kinds of evolutionary change in order to make natural
    selection seem more important.

    >At the sequence level, I would agree (well, until
    >someone shows me some evidence to the contrary).

    Okay. So, if we take into account ALL evolutionary
    change then you agree that random genetic drift is the
    most important mechanism?


    I think I can still use my same question: Doesn't that
    depend on how you measure evolutionary change? It's
    not clear to me that we have to measure it at the
    sequence level.

    I didn't say you *have* to measure it at the sequence
    level. I just said that when you take into account ALL
    evolutionary change, including change at the sequence
    level, then drift is the main mechanism.

    Quoted message said:

    If we measure it at the phenotpyic level, we get a
    different answer.

    Perhaps. What you are saying is that if we only look at
    *some* evolutionary change then drift may not be the main
    mechanism of that subset. I'm sure you could find a subset
    of evolutionary change where natural selection is the
    dominant mechanism. You could also find a subset of
    evolutionary change where molecular drive is the main
    mechanism ... or species sorting. What the point?

    Quoted message said:

    Most paleontologists will probably take a phenotypic
    view, most geneticists will take a sequence point of
    view. Both are, I think, equally right, unless one
    defines organisms purely as their sequences.

    They are not both equally right if they claim different
    mechanisms for the majority of ALL evolutionary change.
    The only way the adaptionists can win such an argument is
    to claim that changes by random genetic drift are not
    evolution. Some of them try to do this. I don't think
    that's what you're trying to do, is it?

    I know there has been a previous discussion on the
    definition of evolution, and in many ways I can agree with
    the definition of any change in gene frequency as evolution,
    but I'm having difficulty resisting the temptation of
    playing devil's advocate.

    Now first I would like to clarify something. Bob's original
    agreement was that drift is unquestionably the main
    mechanism of change at the sequence level. I also agree with
    this. However change at the sequence level is not evolution
    by the generally accepted definition of evolution as change
    in "gene" frequency, at least not until the change in
    sequence affects the function of the "gene".

    Now as to actual changes in gene function, as far as I know
    there is still debate as to the relative importance of drift
    vs. selection in gene frequencies, so I would have to take
    issue with your characterization "by far", although you may
    well be correct about "majority".

    But in either case:

    Since the extent of drift due to sampling error is dependent
    on effective population size, and since effective population
    size is dependent on the niche, and since selection pressure
    is also governed by the niche, it is clear to me that
    ecological niche development is the main mechanism of
    evolutionary change.

    Yours,

    Bill Morse

  9. Larry Moran said:
    A non. said:
    Larry Moran said:

    On Sat, 22 May 2004 02:26:53 +0000 (UTC), Anon.
    <[email hidden]> wrote:

    >Larry Moran wrote:

    [snip]

    Quoted message said:
    Quoted message said:

    >>In terms of total amount of evolutionary change, random
    >>genetic drift is the main mechanism of evolution, by
    >>far. Almost all evolutionary biologists know this.
    >
    >Doesn't that depend on how you measure evolutionary
    >change?

    I suppose. One could presumably eliminate or ignore some
    kinds of evolutionary change in order to make natural
    selection seem more important.

    >At the sequence level, I would agree (well, until
    >someone shows me some evidence to the contrary).

    Okay. So, if we take into account ALL evolutionary change
    then you agree that random genetic drift is the most
    important mechanism?

    I think I can still use my same question: Doesn't that
    depend on how you measure evolutionary change? It's
    not clear to me that we have to measure it at the
    sequence level.

    I didn't say you *have* to measure it at the sequence
    level. I just said that when you take into account ALL
    evolutionary change, including change at the sequence
    level, then drift is the main mechanism.


    To measure "all evolutionary change" you have to measure
    both phenotypic and genotypic change. How do you put these
    onto the same scale? You have to weight them somehow, and
    it's not clear to me that there is a unique way of doing
    this - it will depend on your ideas about the relative
    importance of the genotypic and phenotypic levels in
    evolution. You can, I think, get either selection, or drift,
    (or contingency?) as being the most important mechanism,
    depending on how you weight them.

    Bob

    --
    Bob O'Hara

    Dept. of Mathematics and Statistics
    P.O. Box 4 (Yliopistonkatu 5) FIN-00014 University of
    Helsinki Finland Telephone: +358-9-191 23743 Mobile:
    +358 50 599 0540 Fax: +358-9-191 22 779 WWW:
    rni.helsinki.fi~boh Journal of Negative
    Results - EEB: jnr-eeb.orgjnr-eeb.org

  10. John Wilkins said:
    Phil Roberts said:


    I agree with you about logic. One of the brightest among
    us (Aristotle for instance) managed to cognize the order
    in the manner in which we cognize order. But unlike my
    read of you so far, I believe who ever this individual
    was, he had intellectual acuities that went far beyond
    rote learning and trial and error, the so-called
    "darwinian" approach as you have deemed it, I believe.

    Well, all I can say is that there is no way I can conceive
    of for this to occur, apart from noetic rays or
    clairvoyance or divine revelation.

    Nah! It just presupposes that there's a little more to
    reasoning than rote learning, that perceptiveness,
    intuitiveness, brilliant insights that just pop up with Aha!
    experiences are central to scientific progress, and that
    most of this occurres at subconscious levels and about which
    little is currently understood. But I think Hume at least
    gave us a nudge forward in his recognition of the centrality
    of the role of comparing. We'll just have to agree to
    disagree on this. But your contention that my claim that a
    central feature of reaoning is 'the capacity to cognize
    abstruse similarity and difference' requires invoking divine
    creation to explain its presence is one hell of a stretch,
    if you don't mind my saying so.

    Quoted message said:


    I am not in this sense a Kantian (which is whence we get
    the pure and practical reason distinction, and the means
    and end contrast).

    Actually, the paradigm for the rationalty of ends is not the
    categorical imperative but rather 'the equal weight'
    criterion:

    My feelings a year hence should be just as important to
    me as my feelings next minute, if only I could make an
    equally sure forecast of them. Indeed this equal and
    impartial concern for all parts of one's conscious life
    is perhaps the most prominent element in the common
    notion of the _rational_. (Henry Sidgwick, 'The Methods
    of Ethics'๐Ÿ˜‰.

    All these theories [of rational self-interest] also
    claim that, in deciding what would be best for someone,
    we should give equal weight to all the parts of this
    person's future. Later events may be less predictable;
    and a predictable event should count for less if it is
    less likely to happen. But it should not count for less
    merely because, if it happens, it will happen later
    (Derek Parfit, 'Reasons and Persons'๐Ÿ˜‰.

    Notice that this criterion entails two assumptions:

    1. That rationality entails self-interest.
    2. That within the perimeter of self-interest,
    rationality entails VALUATIVE OBJECTIVITY.

    I believe 1 is highly suspect, as exemplified in the Parfit
    quote on self-interest I posted last time.

    Quoted message said:
    Quoted message said:


    Let's fill out the quote you give for context: One might
    argue: if it is pointed out to both [player] 1 and
    [player] 2 that alpha3 and beta2 [two strategies in a
    game] are in equilibrium, then 1 _should_ choose alpha3.
    Possibly, but nothing in game theory says so.. If we were
    player 1 in this case, we certainly would choose alpha3,
    but we would not call another "irrational" if he did
    otherwise. Even if we were tempted at first to call an alpha3-non-
    conformist "irrational," we would have to admit that
    player 2 might be "irrational" in which case it would be
    "rational" for player 1 to be "irrational" - to be an alpha3-non-
    conformist. We belabor this point because we

    Quoted message said:

    feel that it is crucial that the social scientist
    recognize that game theory is not descriptive, but
    rather (conditionally) normative. It states neither
    how people do behave nor how they should behave in an
    absolute sense, but how they should behave if they
    wish to achieve certain ends (Luce and Raiffa, 1957).

    It prescribes for given assumptions courses of
    action for the attainment of outcomes have certain
    formal "optimum" properties. These properties may or
    may not be deemed pertinent in any given real world
    conflict of interest. If they are, the theory
    prescribes the choices which _must_ be made to get
    to that optimum." page 63, by the way.

    The rationality here is one of a course of action to be
    taken in a situation of agreed value and conflict of
    interest. But this is a very limited form of rationality.

    Its also a "theory" of rationality that is self-defeating
    (e.g., see
    p. 12 of Parfit's 'Reasons and Persons' and sanctions
    rational irrationalty. So, although of practical value,
    from an epistemic perspective such theories of
    rationality are non-starters. There also lots of other
    limitations, as Coleman points out, in addition to the
    long standing acknowledged ones (Newcomb's problem,
    prisoner's dillema, etc.). BTW, all these paradoxes and
    contradictions can be circumvented if you simply assume
    that 'being rational' is a matter of 'being objective',
    not only cognitively, but valuatively as well. You also
    arrive at the conslusion that the increased valuative
    objectivity observable in man (increased intrinsic
    valuing of non-related other juxtaposed with an incrased
    volatility in self-value) constitutes evidence that our
    species has become TOO RATIONAL (too valuative objective)
    relative to the "ruthless selfishness" predicted by our
    formal models. It doesn't explain the anomality in our
    valuative profile, but it at least offers us a new way of
    looking at the problem.

    Quoted message said:

    This is why game theory is applicable to evolution - the
    "rational egoism" is specified in a very specific sense
    - of maximising the number of copies of a gene. But this
    does not transfer to social behaviors directly. Social
    action is not selfish because we can model genes as if
    they were selfish (something Dawkins notes quite
    explicitly in the Afterword to the 1989 edition of The
    Selfish Gene).

    But this gene selfishness should almost always translate to
    plain old selfishness. The exceptions are "limited" and
    "special". IOW, far from resolving the enigma of human
    morality, as Wilson seemed to be implying in the last
    chapter of Sociobiology, our fomral models have ONLY SERVED
    TO DEEPEN THE MYSTERY.

    Your confusing co-operation with true concern for others.
    The first can be explained, the second isn't so simple.

    This is tricky stuff, but in general you should be able to
    get lots of instrumental valueing of others out of
    intellignece, but extremely limited intrinsic valuing of
    others (immediate kin) out of natural selection, at least to
    the extent that natural selection operates in the manner in
    which it has been mathematically modeled. Humans are wildly
    outside the parameters predicted by these models by the way,
    which is precisely why Dawkins has thrown up his hands and
    declared the need for a full fledged addendum to the theory
    in order to accomodate the benevolent selfishness found in
    man (e.g., concern for a bird with a broken wing) and to a
    lesser extent, in species phylogenetically proximal to man.

    Quoted message said:


    Genes can be considered *as if* they were selfish players
    in a game, and the end result of this selection can be
    apparently altruistic behavior on the part of the
    organisms, due to kin selection, and the fact that
    iterated Prisoner's Dilemmas (uncommunicative dilemmas
    where either one player loses out or both do less well
    than the optimum) will, if the initial population is
    suitably composed, evolve into equilibrium of "[censored] for
    tat" strategies.

    This is all pretty old stuff. Axelrod is the authority most
    often cited that I'm aware of.

    I agree with you that you can get lots of co-operation and
    social contracts out of intelligence. And I agree that most
    of this will be adaptive. But I disagree that that
    automatically constitutes an explanation of the VALUATIVE
    ANOMALIES in our species valuative profile (an inceased
    intrinsic valuing of non-related others juxtaposed with an
    increased volatility in self-value). That's an entirely
    different subject altogether. And so far nothin you have
    brought up even scratches the surface on the topic I assumed
    we were discussing (valuative anomalies).

    Quoted message said:

    In short, cooperation can evolve through the maximisation
    of genetic fitness. It won't always, but there is
    absolutely no justification for the direct transference of
    selfishness from the level of the gene to that of the
    individual or social group, contrary to Ghiselin's
    sarcastic and cynical comment, "scratch an altruist and
    watch a hypocrite bleed). It's all about keeping your
    levels straight when determining the interest bearers.

    Agreed. But when do we get to start talking about the
    subject I am interested in, anomalies in our species
    valuative profile.

    Quoted message said:
    Quoted message said:


    9/11 poses nothing we didn't already know from a couple of
    millenia of documented fanaticism. It just hit America
    hard, that's all (from a theoretical perspective; it hit
    me hard as I had friends near there, and I had just been
    there a couple of months prior). There is no anomaly to
    deal with, but a well-known fact of cultural dynamics.

    True. But I'm not looking at 9/11 though my fellow human
    being glasses, but rather through my natural scientist
    glasses. There's one hell of a difference between what I
    have come to expect from my fellow man and what I have a
    right to expect from an organism designed by natural
    selection. The latter is not a free ride, but comes equipped
    with some fairly SEVERE CONSTRAINTS on what we have a right
    to expect. If flying planes into buildings is evidence to
    you of genes that have been endlessly honed to maximnize
    reproductive success, maybe you ought to think about going
    into a different occupation, John. ๐Ÿ™‚

    What would an organism have to do before you finally got
    around to considering its behavior anomalous? Or are you
    suggesting we simply adopt nat selection as an
    unfalisifiable dogma. Hey. If we're going to start a
    religion here, I got dibs on being the Pope. ๐Ÿ™‚

    PR

    --

    Phil Roberts, Jr.

    Why We Turned Out Like Captain Kirk Instead of Mr. Spock:
    The Psychodynamics of Genetic Indeterminism
    fortunecity.comKirk.htm

  11. On Tue, 25 May 2004 23:48:33 +0000 (UTC),

    Anon. said:
    Larry Moran said:

    On Sun, 23 May 2004 18:07:23 +0000 (UTC), A non.
    <[email hidden]> wrote:

    [snip]

    Quoted message said:
    Quoted message said:
    Quoted message said:

    I think I can still use my same question: Doesn't that
    depend on how you measure evolutionary change? It's
    not clear to me that we have to measure it at the
    sequence level.

    I didn't say you *have* to measure it at the sequence
    level. I just said that when you take into account ALL
    evolutionary change, including change at the sequence
    level, then drift is the main mechanism.


    To measure "all evolutionary change" you have to measure
    both phenotypic and genotypic change. How do you put these
    onto the same scale? You have to weight them somehow, and
    it's not clear to me that there is a unique way of doing
    this - it will depend on your ideas about the relative
    importance of the genotypic and phenotypic levels in
    evolution. You can, I think, get either selection, or
    drift, (or contingency?) as being the most important
    mechanism, depending on how you weight them.

    Why not give it a try? We already have an effective and
    quantitatvie way of measuring evolution by looking at
    changes in DNA sequence. If you want to find a more
    effective measure then let's see what you come up with. So
    far, all I've seen is some warm fuzzy feeling that
    "phenotypic change" should get a higher score in order to
    restore the supremacy of natural selection as a mechanism of
    evolution. Can you turn that subjective feeling into a
    scientific definition that we can examine?

    Let's take the evolution of humans and chimps as an example.
    We already know that they differ by about 2% in DNA
    sequence. How would you evaluate the "phenotypic changes"
    along each lineage in order to arrive at some quantitative
    measure of the amount of evolution in each species from the
    time of the last common ancestor? How much of that is due to
    natural selection?

    Larry Moran

  12. On Tue, 25 May 2004 23:48:32 +0000 (UTC),

    William Morse said:

    [email hidden] (Larry Moran) wrote in
    :"]news:[email hidden]:

    Quoted message said:

    On Sun, 23 May 2004 18:07:23 +0000 (UTC), A non.
    <[email hidden]> wrote:

    [snip]

    Quoted message said:
    Quoted message said:

    I didn't say you *have* to measure it at the sequence
    level. I just said that when you take into account ALL
    evolutionary change, including change at the sequence
    level, then drift is the main mechanism.

    Quoted message said:

    If we measure it at the phenotpyic level, we get a
    different answer.

    Perhaps. What you are saying is that if we only look at
    *some* evolutionary change then drift may not be the main
    mechanism of that subset. I'm sure you could find a
    subset of evolutionary change where natural selection is
    the dominant mechanism. You could also find a subset of
    evolutionary change where molecular drive is the main
    mechanism ... or species sorting. What the point?

    Quoted message said:

    Most paleontologists will probably take a phenotypic
    view, most geneticists will take a sequence point of
    view. Both are, I think, equally right, unless one
    defines organisms purely as their sequences.

    They are not both equally right if they claim different
    mechanisms for the majority of ALL evolutionary change.
    The only way the adaptionists can win such an argument is
    to claim that changes by random genetic drift are not
    evolution. Some of them try to do this. I don't think
    that's what you're trying to do, is it?

    I know there has been a previous discussion on the
    definition of evolution, and in many ways I can agree with
    the definition of any change in gene frequency as
    evolution, but I'm having difficulty resisting the
    temptation of playing devil's advocate.

    No problem, playing devil's advocate can be a very effective
    learning tool. Let's see if we can learn something ....

    Quoted message said:

    Now first I would like to clarify something. Bob's
    original agreement was that drift is unquestionably the
    main mechanism of change at the sequence level. I also
    agree with this. However change at the sequence level
    is not evolution by the generally accepted definition
    of evolution as change in "gene" frequency, at least
    not until the change in sequence affects the function
    of the "gene".

    Evolution is the change in frequency of *alleles*, not
    genes. Alleles are any differences in base sequence at a
    particular position in the genome. This definition of
    alleles has evolved from the original definition since we've
    learned that lots of DNA isn't part of genes.

    Quoted message said:

    Now as to actual changes in gene function, as far as I
    know there is still debate as to the relative importance
    of drift vs. selection in gene frequencies, so I would
    have to take issue with your characterization "by far",
    although you may well be correct about "majority".

    If you want to redefine evolution so that it only refers to
    changes in the functions of genes then that's a possible way
    of restoring the supremacy of natural selection. I think
    this is carrying devil's advocacy too far but let's see
    where it takes us. Can you give me a more precise definition
    of evolution that your devil would like to defend? :-)

    Quoted message said:

    But in either case:

    Since the extent of drift due to sampling error is
    dependent on effective population size, and since
    effective population size is dependent on the niche, and
    since selection pressure is also governed by the niche, it
    is clear to me that ecological niche development is the
    main mechanism of evolutionary change.

    The overall rate and extent of evolution by random genetic
    drift is independent of population size. Your devil seems to
    be redefining random genetic drift as well as evolution. Can
    you give me his new definition of random genetic drift and
    the new population genetics equations that support his
    statement?

    Niches are vastly overrated but they are popular among the
    adaptionist crowd who believes that environmental change
    drives evolution. Can your devil give me an estimate of the
    total amount of evolution that is "driven" by niche
    development as opposed to evolution that occurs in the
    absence of any significant change in niches? Does your devil
    believe that natural selection can only occur when species
    move into a new niche?

    Larry Moran

  13. On Wed, 26 May 2004 23:12:57 +0000 (UTC),
    John Edser <[email hidden]> wrote:

    [snip]

    Quoted message said:

    The damage done to evolutionary theory via such consistent
    misuse is enormous. The recalcitrant attitude conveyed by
    Dr Moran within sbe discussion simply adds to the damage.

    Thank-you John. Coming from you that's a compliment.

    Larry (recalcitrant, curmudgeon) Moran

  14. John Edser said:

    Larry Moran <[email hidden]> wrote
    or quoted: Anon.

    Quoted message said:
    Quoted message said:

    >Larry Moran wrote:
    >
    >>In terms of total amount of evolutionary change, random
    >>genetic drift is the main mechanism of evolution, by
    >>far. Almost all evolutionary biologists know this.
    >

    Quoted message said:
    Quoted message said:

    >BOH:- Doesn't that depend on how you measure
    >evolutionary change? [...] At the sequence level, I
    >would agree (well, until someone shows me some evidence
    >to the contrary).

    Quoted message said:
    Quoted message said:

    LM:- Okay. So, if we take into account ALL evolutionary
    change then you agree that random genetic drift is the
    most important mechanism?


    Quoted message said:

    BOH:- The means of quantifying "all evolutionary change"
    here is not clear. State the metric used - and the
    question of whether genetic drift comes in at the #1
    position will probably be clearer.

    LM:- I mean the sum all evolutionary changes of any sort
    by whatever definitions are used by a large number of
    scientists.

    JE:- Pardon me butting in but..

    please state what would be EXCLUDED from such an
    _amazingly_ wide acceptance of what you insist can
    _scientifically_ constitute "evolution", i.e. please
    provide at least one example of a _non_ evolutionary
    change within a biological system.

    LM:- Did you have something else in mind that would shift
    random genetic drift into second place?

    JE:- Darwinian natural selection, exactly as Darwin stated
    it but with his implicit assumptions made explicit.


    I think I should point out that John's definition of fitness
    excludes the possibility of drift (because he defines
    fitness in terms of the actual number of offspring, rather
    than the expected value).

    The recalcitrant attitude

    Quoted message said:

    conveyed by Dr Moran within sbe discussion simply adds to
    the damage.


    This is unkind - although I disagree with Larry's point of
    view, I can see that it may be defensible. He is at least
    defending it, and sticking to debating the subject. It is
    possible that we'll reach some sort of compromise as a
    result of this - I certainly think we'll both learn
    something.

    So, Larry - go on recalcitrating!

    Bob

    --
    Bob O'Hara

    Dept. of Mathematics and Statistics
    P.O. Box 4 (Yliopistonkatu 5) FIN-00014 University of
    Helsinki Finland Telephone: +358-9-191 23743 Mobile:
    +358 50 599 0540 Fax: +358-9-191 22 779 WWW:
    rni.helsinki.fi~boh Journal of Negative
    Results - EEB: jnr-eeb.orgjnr-eeb.org

  15. Quoted message said:

    LM:- They are not both equally right if they claim
    different mechanisms for the majority of ALL
    evolutionary change. The only way the adaptionists can
    win such an argument is to claim that changes by
    random genetic drift are not evolution. Some of them
    try to do this. I don't think that's what you're
    trying to do, is it?

    BM:-

    Quoted message said:

    snip<


    Since the extent of drift due to sampling error is dependent
    on effective population size, and since effective population
    size is dependent on the niche, and since selection pressure
    is also governed by the niche, it is clear to me that
    ecological niche development is the main mechanism of
    evolutionary change.

    JE:- You are correctly joining the logic of random temporal
    variation to the logic of non random Darwinian selective
    change, thus demonstrating that at no time can the
    observation of just a random pattern be definitive for just
    a random process. This is old news. Historically science
    throws out all random patterns as not significant for this
    reason. Dr Moran et al have decided, in their wisdom, to
    reverse entirely, what constitutes testable science just to
    suit a non tenable position. Genetic drift is temporal
    variation and not evolution. Selection requires variation
    but it does not require temporal variation, i.e. selection
    can cause evolution without drift but drift cannot cause
    evolution without selection, it can only cause the
    dissipation of Darwinian selectee's.

    Regards,

    John Edser Independent Researcher (Posting from Bonn
    Germany)

    PO Box 266 Church Pt NSW 2105 Australia

    [email hidden]

  16. Quoted message said:

    JE:- The damage done to evolutionary theory via such
    consistent misuse is enormous. The recalcitrant attitude
    conveyed by Dr Moran within sbe discussion simply adds to
    the damage.

    LM:- Thank-you John. Coming from you that's a compliment.

    JE:- Dr Moran has yet again, evaded providing any answers to
    the detailed points that I raised. One can only wonder what
    sort of "science" Dr Moran teaches his students.

    AGAIN: Please state what would be EXCLUDED from such an
    _amazingly_ wide acceptance of what you insist can
    _scientifically_ constitute "evolution", i.e. please provide
    at least one example of a _non_ evolutionary change within a
    biological system.

    PLEASE COMMENT ON THE BELOW:-
    1) Drift defined as evolution is not testable because any
    random pattern can validly be assumed to be caused by
    either a random or non random process.

    2) It is only possible to halt all selection within a
    natural population by forcing the _total_ number of
    _fertile_ forms reproduced by each Darwinian selectee in
    one population to remain equal. Does Dr Moran agree or
    disagree? Only by controlling selection can random
    genetic drift patterns even be observed acting _alone_.
    Does Dr Moran dispute the fact that to just observe the
    effect of random patterns on their own, selection must be
    controlled? Does Dr Moran understand/teach the need for
    controlled experiments to his students? The predicted net
    result of drift without selection within a controlled
    experiment is the dissolution of every Darwinian selectee
    within that population. Does Dr Moran disagree with this
    prediction? If Dr Moran agrees with the prediction, how
    can he maintain that genetic dissolution that inevitably
    leads to a _lowering_ of Darwinian fitness for every
    selectee constitute "evolution"?

    Genetic drift without selection cannot cause evolution
    even it can cause gene freq changes in a deme. Selection
    can cause evolution without genetic drift but genetic
    drift cannot cause evolution without selection. Random
    genetic drift is just temporal variation; nothing more
    and nothing less. Evolution at the gene centric level can
    only be validly defined as any non random gene freq.
    change in a deme.

    Regards,

    John Edser Independent Researcher (Posting from Bonn,
    Germany)

    PO Box 266 Church Pt NSW 2105 Australia

    [email hidden]

  17. Quoted message said:
    Quoted message said:

    BOH:- The means of quantifying "all evolutionary change"
    here is not clear. State the metric used - and the
    question of whether genetic drift comes in at the #1
    position will probably be clearer.

    Quoted message said:

    LM:- I mean the sum all evolutionary changes of any sort
    by whatever definitions are used by a large number of
    scientists.

    Quoted message said:

    JE:- Pardon me butting in but.. please state what would be
    EXCLUDED from such an _amazingly_ wide acceptance of what
    you insist can _scientifically_ constitute "evolution",
    i.e. please provide at least one example of a _non_
    evolutionary change within a biological system.

    JE:- Not an answer from anybody! Is it not perfectly clear
    that unless posters are prepared to say what is not
    evolution, then none of us have any hope re: understanding
    what the poster is talking about?

    Quoted message said:

    LM:- Did you have something else in mind that would shift
    random genetic drift into second place?

    Quoted message said:

    JE:- Darwinian natural selection, exactly as Darwin stated
    it but with his implicit assumptions made explicit.

    BOH:- I think I should point out that John's definition of
    fitness excludes the possibility of drift (because he
    defines fitness in terms of the actual number of offspring,
    rather than the expected value).

    JE:- Dr O'Hara has misrepresented my position. Drift is
    _included_ as temporal variation (random variation over
    time) within Darwinian selective events. Mutation is
    included as random variation within genetic space. Darwinian
    evolution by natural selection has, from its inception,
    required variation that is assumed to be random. Only _non_
    random forms of variation can validly compete against
    Darwinian selection for evolutionary causation. Sampling
    error is not one of them.

    Isn't it just obvious that an "expected value" is just an
    approximation of "the actual number of offspring" which I
    stress (yet again) is the TOTAL (requiring a time frame to
    complete) of only FERTILE forms reproduced into ONE
    population by EACH Darwinian selectee (one fertile form)?

    Please note that Dr O'Hara, refused to address the problem
    that I addressed in detail: setting up a _controlled_
    experiment to test if random patterns can _alone_, cause
    "evolution".

    Quoted message said:

    JE:- The recalcitrant attitude conveyed by Dr Moran within
    sbe discussion simply adds to the damage.

    BOH:- This is unkind -

    JE:- Dr Moran flatly refuses to answer any questions or even
    comment on the details of the experiment I proposed to test
    if random patterns can cause evolution. This is "the
    recalcitrant attitude" I was referring to. Science is not
    just agreeing to disagree and being "nice", it is about hard
    testing and logic being used to resolve differences. What is
    the point of discussion when one party refuses to look
    through the telescope because he/she would not like what
    he/she sees?

    BOH:- although I disagree with Larry's point of view, I can
    see that it may be defensible. He is at least defending it,
    and sticking to debating the subject.

    JE:- Good luck to Larry. Please ask him (and yourself) to
    address the issues I raised:

    AGAIN: Please state what would be EXCLUDED from such an
    _amazingly_ wide acceptance of what Dr Moran insists can
    _scientifically_ constitute "evolution", i.e. would Dr Moran
    please provide at least one example of a _non_ evolutionary
    change within a biological system.

    PLEASE COMMENT ON THE BELOW:-
    1) Drift defined as evolution is not testable because any
    random pattern can validly be assumed to be caused by
    either a random or non random process.

    2) It is only possible to halt all selection within a
    natural population by forcing the _total_ number of
    _fertile_ forms reproduced by each Darwinian selectee in
    one population to remain equal. Does Dr Moran agree or
    disagree? Only by controlling selection can random
    genetic drift patterns even be observed acting _alone_.
    Does Dr Moran dispute the fact that to just observe the
    effect of random patterns on their own, selection must be
    controlled? Does Dr Moran understand/teach the need for
    controlled experiments to his students? The predicted net
    result of drift without selection within a controlled
    experiment is the dissolution of every Darwinian selectee
    within that population. Does Dr Moran disagree with this
    prediction? If Dr Moran agrees with the prediction, how
    can he maintain that genetic dissolution that inevitably
    leads to a _lowering_ of Darwinian fitness for every
    selectee constitute "evolution"?

    Genetic drift without selection cannot cause evolution
    even it can cause gene freq changes in a deme. Selection
    can cause evolution without genetic drift but genetic
    drift cannot cause evolution without selection. Random
    genetic drift is just temporal variation; nothing more
    and nothing less. Evolution at the gene centric level can
    only be validly defined as any non random gene freq.
    change in a deme.

    BOH:- It is possible that we'll reach some sort of
    compromise as a result of this - I certainly think we'll
    both learn something.

    JE:- We can only learn something if we agree to call
    evasion: "evasion".

    Respectfully,

    John Edser Independent Researcher

    PO Box 266 Church Pt NSW 2105 Australia

    [email hidden]

  18. Anon. <[email hidden]> wrote or quoted:

    Quoted message said:

    I think I should point out that John's definition of
    fitness excludes the possibility of drift (because he
    defines fitness in terms of the actual number of
    offspring, rather than the expected value).

    You would think actual number of offspring would be even
    more subject to noise then the expected number would be.
    --
    __________
    |im |yler timtyler.orgtimtyler.org [email hidden] Remove
    lock to reply.

  19. Larry Moran <[email hidden]> wrote or quoted:

    Quoted message said:
    Tim Tyler said:

    Larry Moran <[email hidden]> wrote or
    quoted:

    [snip]

    Quoted message said:
    Quoted message said:
    Quoted message said:

    Hmmm ... I think I see your objection. You want a
    precise definition of evolutionary change so you can
    objectively analyze the mechanisms. I've been assuming
    all along that changes are most easily quantified by
    adding up mutations in DNA but you don't seem to accept
    that particular measure.

    It's a great measure - but not the /only/ one - and as I
    mentioned in another post, it has some definite flaws as
    a metric of evolutionary change.

    What are the flaws ... other than the fact that it leads
    to a conclusion you don't like?

    The ones I mentioned in another post - namely a neutral
    mutation counts as the same quantity of evolutionary change
    as a mutation that causes speciation.

    This is contrary to common sense relating to the relative
    significance of such changes in evolution.

    Quoted message said:
    Quoted message said:

    I am not my mind. I am not my body. I am not my DNA
    sequence ;-)

    What the heck does this mean? I sounds like new-age
    doublespeak.

    The smiley was intended to indicate that this was a joke.

    However there was a hint of seriousness: evolution is about
    more than just DNA sequences. Attempt to measure it *only*
    in terms of DNA and much of its richness will be omitted.

    Quoted message said:
    Quoted message said:

    However, the phenotypes of living organisms still form a
    tree where qualities very along the branches.

    You can group species by clades if you concentrate on
    certain kinds of morphological change (shared derived
    characters = synapomorphies). This requires you to pretty
    much ignore most phenotypic change and it certainly isn't
    quantitative. [...]

    You can quantify things like limb measurements well enough.

    Quoted message said:

    Besides, we have plenty of examples were it led to an
    incorrect conclusion that was fixed by looking at
    DNA/protein sequences.

    True enough - but that's not a reason to abandon the
    phenotype as a means of measuring evolutionary change.

    Quoted message said:

    Even more important, it hardly worked at all for bacteria
    and single-celled eukaryotes.

    Those things had phenotypes that were difficult for amateurs
    to quantify and measure - and even genetic techniques have
    revealed that viruses

    muddle.

    Quoted message said:
    Quoted message said:

    Taxonomists don't *have* to look at an organisms' DNA
    sequence to begin to answer questions about which other
    organisms it is most closely related to.

    That's correct. It's quite possible to look at a subset of
    all evolutionary change in order to work out some of the
    history. This applies to morphological change as well as
    to DNA/protein sequence change. Do you have a point?

    As I recall, it was that phenotypic metrics have their uses
    - and that genetic metrics have their drawbacks.

    Quoted message said:
    Quoted message said:

    As for general-purpose metrics - there are several of
    them. Length, lifespan, mass and number of cell types
    are all fairly useful means of quantifying evolutionary
    change.

    Now were getting a bit silly .....

    Look at the work of paleontologists and you will find they
    can extract information about relatedness from far more
    esoteric phenotypic traits than these.

    Quoted message said:
    Quoted message said:
    Quoted message said:

    BTW, I'm not conceding that all morphological change is
    due to natural selection. Do you have a quantifiable
    measure of the amount of morphological change that's
    due to natural selection?

    My impression is that this depends in a big way on the
    effective population size.

    In "small" populations, the founder effect is the main
    force.

    In "large" populations, the founder effect is of low
    relevance, and selective forces tend to dominate as
    causes of phenotypic change.

    Do you have a quantifiable measure of the amount of
    morphological change that's due to natural selection?

    I believe I've just said that the answer depends on the
    population size - and so the question does not make
    much sense.

    If you have a *particular* population, then you can model
    the effects of selection and drift on the population. If you
    can change the intensity of selection in the model then -
    for some given metric of change you can determine the
    relative effects of selection and drift.

    Are there metrics of morphological change out there? Yes,
    certainly. There are plenty of them. I have already given a
    number of examples.

    To repeat some of them, consider changes in length,
    lifespan, mass and number of cell types as metrics of
    phenotypic change.

    Quoted message said:
    Quoted message said:

    This is *only* if you ignore neutral mutations, of
    course.

    What does this mean?

    It means that *if* you use a genetic metric of evolutonary
    change that weights neutral mutations as highly as other
    sorts - then I agree that genetic drift would be the biggest
    evolutionary force.

    Quoted message said:

    I'm asking for a way to distinguish between morphological
    change that's due to natural selection and morphological
    change that's neutral.

    If you wanted to do this, having multiple populations and
    controlling the intensity of the selection in one would be
    an obvious approach.

    The effect of selection could be much reduced by making
    attempts to preserve the lives of the organisms in question
    - and deciding their reproductive success by using dice.

    Then measure whichever morphological parameters you have
    decided to look at.

    Quoted message said:

    How can you "ignore" neutral mutations when you can't even
    identify them?

    A rhetorical question, it appears - so no need for me to
    reply.

    Quoted message said:
    Quoted message said:

    *If* you use a metric that measures raw genome hamming
    distance, random noise is indeed the cause of most
    changes.

    "Random noise" is a loaded phrase that reveals a great
    deal about your biases.

    ?!? ;-)

    Quoted message said:
    Quoted message said:

    However, random noise is like radio static - interesting
    if you are wondering how far away the transmitter is -
    but if you are trying to listen to the radio program, it
    just gets in the way.

    I'm interested in molecular evolution and deep phylogeny.
    Natural selection just gets in the way of such studies and
    may even invalidate them. Natural selection is sort of
    like radio static to me - I have to put up with it but I
    try to ignore it whenever possible. However, in spite of
    my personal interests I would never try and define natural
    selection out of existence just because I'm not very
    interested in it. That would not be scientific.

    Great. But what does that have to do with anything?

    Are you implying I am somehow trying to define genetic drift
    out of existence!?!

    Are you sure you don't have me muddled up with someone else?

    Please try to avoid making that mistake if you can.
    --
    __________
    |im |yler timtyler.orgtimtyler.org [email hidden] Remove
    lock to reply.

  20. On Wed, 26 May 2004 23:12:56 +0000 (UTC),

    Tim Tyler said:

    Larry Moran <[email hidden]> wrote
    or quoted:

    [snip]

    Quoted message said:
    Quoted message said:

    Hmmm ... I think I see your objection. You want a precise
    definition of evolutionary change so you can objectively
    analyze the mechanisms. I've been assuming all along that
    changes are most easily quantified by adding up mutations
    in DNA but you don't seem to accept that particular
    measure.

    It's a great measure - but not the /only/ one - and as I
    mentioned in another post, it has some definite flaws as a
    metric of evolutionary change.

    What are the flaws ... other than the fact that it leads to
    a conclusion you don't like?

    Quoted message said:

    I am not my mind. I am not my body. I am not my DNA
    sequence ;-)

    What the heck does this mean? I sounds like new-age
    doublespeak.

    Quoted message said:
    Quoted message said:

    It was obvious to me. If a new set of limbs is due to 74
    different base substitutions in DNA then that's how you
    measure it and compare it to, for example, 74 single
    neutral base substitutions. I think you want to
    substitute a subjective measure where a new set of limbs
    has a much higher score because it's more significant to
    your way of thinking. This is a new idea to me. Do you
    have a clear quantitative way of calculating the score of
    morphological changes or is this just a sleight-of-hand
    way of trying to argue in favor of the supremacy of
    natural selection?

    I hope not the latter ;-)

    Me too, but I'm not holding my breath. :-)

    Quoted message said:

    Quanifying phenotypic change is difficult.

    That's probably why it isn't very useful. It's too
    subjective and it ignores all the other kinds of
    evolutionary change.

    Quoted message said:

    However, the phenotypes of living organisms still form a
    tree where qualities very along the branches.

    You can group species by clades if you concentrate on
    certain kinds of morphological change (shared derived
    characters = synapomorphies). This requires you to pretty
    much ignore most phenotypic change and it certainly isn't
    quantitative. Besides, we have plenty of examples were it
    led to an incorrect conclusion that was fixed by looking at
    DNA/protein sequences. Even more important, it hardly worked
    at all for bacteria and single-celled eukaryotes.

    Quoted message said:

    Taxonomists don't *have* to look at an organisms' DNA
    sequence to begin to answer questions about which other
    organisms it is most closely related to.

    That's correct. It's quite possible to look at a subset of
    all evolutionary change in order to work out some of the
    history. This applies to morphological change as well as to
    DNA/protein sequence change. Do you have a point?

    Quoted message said:

    As for general-purpose metrics - there are several of
    them. Length, lifespan, mass and number of cell types
    are all fairly useful means of quantifying
    evolutionary change.

    Now were getting a bit silly .....

    [snip]

    Quoted message said:
    Quoted message said:

    BTW, I'm not conceding that all morphological change is
    due to natural selection. Do you have a quantifiable
    measure of the amount of morphological change that's due
    to natural selection?

    My impression is that this depends in a big way on the
    effective population size.

    In "small" populations, the founder effect is the
    main force.

    In "large" populations, the founder effect is of low
    relevance, and selective forces tend to dominate as causes
    of phenotypic change.

    Do you have a quantifiable measure of the amount of
    morphological change that's due to natural selection?

    Quoted message said:

    This is *only* if you ignore neutral mutations, of course.

    What does this mean? I'm asking for a way to distinguish
    between morphological change that's due to natural
    selection and morphological change that's neutral. How can
    you "ignore" neutral mutations when you can't even
    identify them?

    Quoted message said:

    *If* you use a metric that measures raw genome hamming
    distance, random noise is indeed the cause of most
    changes.

    "Random noise" is a loaded phrase that reveals a great deal
    about your biases.

    Quoted message said:

    However, random noise is like radio static - interesting
    if you are wondering how far away the transmitter is - but
    if you are trying to listen to the radio program, it just
    gets in the way.

    I'm interested in molecular evolution and deep phylogeny.
    Natural selection just gets in the way of such studies and
    may even invalidate them. Natural selection is sort of like
    radio static to me - I have to put up with it but I try to
    ignore it whenever possible. However, in spite of my
    personal interests I would never try and define natural
    selection out of existence just because I'm not very
    interested in it. That would not be scientific.

    Larry Moran

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