Professional Documents
Culture Documents
© August,2004
"enantiomers", "chirals", or
how they are oriented in space. In other words, they are like one's left and right hands,
which are mirror images of each other, but cannot be superimposed onto one another.
What is especially interesting about these two L- and D-forms, at least for the
purposes of this topic, is that the vast majority of living things only use the L-form.
However, as soon as the creature dies, the L-amino acids start to spontaneously convert
to the D-form through a process called "racemization". If the rate of conversion can be
racemization as a clock to
environmental factors may have affected the rate of change from the L- to the D-form. As
it turns out, this rate, which is different for each type of amino acid, is also exquisitely
1. Temperature
state
7. Specific location in the macromolecule, if
in a bound state
effect)
25% increase in the racemization rate.1,2 Clearly, this factor alone carries with it a huge
potential for error. Even slight ranges of error in determining the "temperature history" of a
Calibrating for even a known temperature history also seems to be rather problematic.
Consider that the rate of racemization for various amino acids is determined by placing a
protein into a very high temperature environment (between 95o and 150o C) and then
Such extrapolations have been fairly recently (1999) called into question by
experiments showing that models based on high temperature kinetics fail to predict
racemization kinetics at physiologic temperatures (i.e., 37o C). The authors of this
particular paper went on to suggest that, "As conformation strongly influences the rate of
Asu [cyclic succinimide] formation and hence Asx [aspartic acid + asparagine]
racemization, the use of extrapolation from high temperatures to estimate racemization
kinetics of Asx in proteins below their denaturation temperature is called into question . . .
We argue that the D:L ratio of Asx reflects the proportion of non-helical to helical collagen
"3 Others, such as Collins and Riley have commented in the press that, "racemization in
archaeological biominerals."1
Other experiments have shown that the L- and D-forms of the same amino acid do not
racemize at the same rate. This means that the equilibrium ratio may be off from "50:50"
by as much as 25%.4
As far as pH is concerned, it seems that the temperature of a solution also affects the
pH of that solution. So, the amino acid racemization (AAR) rates not only change with the
effects of temperature, but also with the concurrent effects of pH changes, which are
themselves affected by temperature.1 This can only increase the potential range of error
for age determinations. The local buffering effects of bone and shell matrixes are
supposed to limit this effect, but it is still something to consider as potentially significant
Also, the actual physical structure of an intact protein significantly affects the rate of
racemization of various amino acids. In fact, in many cases this may even be a more
significant factor than the temperature history. As it turns out, the N-terminal amino acids
racemize faster than the C-terminal amino acids of the same types. Also, the surface
amino acids racemize much faster than the interior amino acids. And, interestingly
enough, free amino acids have the slowest racemization rate of all. Studies with short
peptides have shown that, "replacement of the asparagine residue with aspartic acid
resulted in a 34-fold decrease in the rate of succinimide (Asu) formation. In the position
carboxyl to asparagine in the peptide the replacement of glycine with a bulky amino acid
[Emphasis added] This clearly emphasizes the rather dramatic importance that amino
acid position and overall protein amino acid sequence has on the racemization rate.
Hydrolysis, or the process of breaking down a protein into smaller and smaller
fragments, clearly affects the rate of racemization. The rate itself of hydrolysis "depends
on the strength of the individual peptide bonds, which in turn is determined by the
characteristics of the amino acids on either side of the bond, the presence of water and
the temperature."1 With increased hydrolysis, the overall rate of the whole specimen
would increase since there are more terminal end and surface amino acids to undergo
higher rates of racemization. All of these are confounding factors, which, if not known
exactly over extended periods of time, would play havoc with any sort of age
determinations. Even the process of preparing a specimen for racemic dating can affect
In this light, consider that age determinations are usually performed on specimens for
which the amino acid order of the original proteins is unknown. For example, consider
that neither the structure nor the proportion of the amino acids used for dating coral,
ostrich eggshell, or snail shells is known. Again, those like Goodfriend and Hare (1995)
have pointed out the "difficulties in estimating the amount of asparagine in proteins and
reminded researchers of the dangers of extrapolating from the behaviour of pure Asn in
be obtained by varying the rates of collagen denaturation and leaching of the denatured
product."1
The Interaction of bacteria and fungi with organic specimens may also be
problematic. Such creatures have various enzymes that can digest various types of
proteins, such as collagen, that are commonly used for dating. Various studies, such as
those dealing with 18th and 19th century burials, showed "unexpectedly high levels of
aspartic acid racemization." The authors "suggested that either biological or chemical
degradation of the tooth collagen might have caused these results." 1 Also, certain types
of bacteria and other creatures actually produce the D-form instead of the L-form of
amino acids. So, special care is obviously needed in order to particularly avoid this sort
of contamination.
"Amino acid dating cannot obtain the age of the material purely from the data
itself. The rate of racemization can not be standardized by itself because it is too
changeable. Thus, because of the rate problem, this dating technique must rely on other
dating techniques to standardize its findings. As a matter of fact, the ages obtained from
racemization dating must rely on other techniques such as Carbon 14, and if the dating
to consider this dating technique relative rather than chronometric. It is, perhaps, best
Clearly, all of the above described variables for amino acid racemization rates create
great difficulty for AAR as a dating technique. In fact, the difficulties are so great that
this technique cannot be and is not used as any sort of "absolute" dating technique. So,
dating technique.
To overcome the various uncertainties inherent to amino acid dating, the method must
(carbon 14 dating). What happens is that a specimen from a site is chosen as the
"calibration sample" and both a radiocarbon date as well as a D/L amino acid ratio is
determined. These values are used to solve for a constant or "k" in the formula used to
estimate ages based on the calibration sample. Of course, the "major assumption
required with this approach is that the average temperature experienced by the
Much effort has gone into transforming the data in various ways to achieve linearity
between the D/L ratio and the calibrated age of the specimens in a given location. At first
"cubic transformations"' and then later "power function transformations" were used that
seemed to show a "strong correlation with time, but did not explain the observed kinetics."
What this basically means is that amino acid dating is not based on any sort of
understanding about how racemization takes place, but is strictly a function of correlation
with other dating techniques, such as the radiocarbon technique. So, if there is any
problem with the basis of the correlation (i.e., radiocarbon dating) then there will also be
In this light, it is interesting to consider what happened in 1974 when some of the major
proponents of amino acid dating (Bada et al) decided to analyze the Paleo-Indian skeletal
material from Del Mar, California. Their estimated age of 48,000 years before present
(BP) "stunned" the archaeological community who generally believed these bones to be
less than 10,000 years old. Bada went on to date other skeletal specimens between the
35,000 and 48,000 year range with one specimen from Sunnyvale being dated at an
astonishing 70,000 years BP. Then, in the 1980s, something very interesting happened.
"The Sunnyvale skeleton and the Del Mar tibia were re-dated
dating (Taylor et al. 1983) was carried out on the Sunnyvale skeleton
and results of between 3,600 and 4,850 years BP were obtained. The
the results from both laboratories. The Oxford dates were all between
4,500 and 8,500 years BP and the Arizona dates were between
3,000 and 6,600 years BP. Bada et al., (1984) stated that the Oxford
ages of the various skeletons and the extent of the aspartic acid
racemization had the lowest amino acid content and this poor
new value for kasp for the Californian samples. He used the Laguna
skull and the Los Angeles Man skeleton as 'calibration' samples for
this. Using the revised value for kasp he recalculated the AAR dates
of the other Paleo-Indian samples. They all fell within the Holocene
but had much larger error estimates than those of the AMS values.
others (Pollard and Heron 1996, p. 228) argue that the dates only
Pollard and Heron also point out that there is poor concordance
between the conventional and the AMS radiocarbon dates and there
is no concordance between the uranium series dates and any of the
other dates either. At best three of the four methods put the bones in
the Holocene."1
Because of these problems AAR dating of bone and teeth (teeth in different locations
in the same mouth have been shown to have very different AAR ages) is considered to be
porosity of bones makes them more "open" to surrounding environmental influences and
leaching. Specimens that are more "closed" to such problems are thought to include
mollusk shells and especially ratite (bird) eggshells from the emu and ostrich. Of course,
even if these rather thin specimens were actually "closed" systems (more so than even
teeth enamel) they would still be quite subject to local temperature variations as well as
the other above-mentioned potential problems. For example, even today "very little is
known about the protein structure in ratite eggshell and differences in primary sequence
can alter the rate of Asu formation by two orders of magnitude [100-fold] (Collins, Waite,
and van Duin 1999). Goodfriend and Hare (1995) show that Asx racemization in ostrich
eggshell heated at 80 oC has complex kinetics, similar to that seen in land snails
known to be problematic (Collins, Waite, and van Duin 1999). A pilot study would be
necessary and a reliable relationship between racemate ratio and time could remain
elusive."1
Also, there is a potential problem with radiocarbon correlations that is quite interesting.
Note what happens to the correlation constant (k) with assumed age of the specimen in
of various specimens decreases dramatically with the assumed age of the specimens
(see figures).5 This means that the rate of racemization was thousands of times (up to
2,000 times) different in the past than it is today. Note that these rate differences include
shell specimens, which are supposed to be more reliable than other more "open system"
Is this a reasonable assumption? Well, this simply must be true if radiocarbon dating
is accurate beyond a few thousand years. But, what if radiocarbon gets significantly
worse as one moves very far back in time beyond just a few thousand years? In other
words, what would it mean for one to assume that the k-values remained fairly constant
over time as would seem intuitive? Well, with the k-values plotted out horizontally on the
graph, the calculated ages of the specimens would be roughly affected as follows:5
Age Assignment
values
Clearly this is a dramatic adjustment that seems to suggest that amino acid
than any sort of differences in relative ages. This seems especially likely when one
considers that each type of specimen and each different location have different k-values
meaning that the radiocarbon-derived constant in one region or with one type of
specimen cannot be used to calculate the age of any other specimen or even the same
Add to this the fact that radiocarbon dating is also dependent upon the state of
So, what do we have? In short, it seems like the claims of some scientists that amino
acid racemization dating has been well established as reliable appears to be wishful
thinking at best. The huge number of confounding factors and a complete inability to
explain the calibrating k-values in terms of amino acid kinetics leaves those with even a
2. Mike Brown, Amino Acid Dating, Molecular History Research Center and Mikes
Origins Resource, Accessed July, 2004 ( Link )
3. Collins MJ, Waite ER, van Duin AC, Predicting protein decomposition: the case of
aspartic-acid racemization kinetics. Philos Trans R Soc Lond B Biol Sci 1999 Jan
29;354(1379):51-64 (Fossil Fuels and Environmental Geochemistry (Postgraduate
Institute), NRG, University of Newcastle-upon-Tyne, UK. ( m.collins@ncl.ac.uk )
4. Meyer MW, Meyer VR, Ramseyer S, The kinetics of diastereomeric amino acids
with o-phthaldialdehyde, Chirality 1991;3(6):471-5 PMID: 1812958, UI: 92256092
(Institute of Organic Chemistry, University of Bern, Switzerland)
. Harlen Bretz
Debates:
Stacking the Deck
Ladder of Complexity
Evolving Bacteria
Irreducible Complexity
Crop Circles
Function Flexibility
Neandertal DNA
Human/Chimp phylogenies
Geology
Fish Fossils
Matters of Faith
© August,2004
except for one (glycine), come in two different forms known as the levoratory (L - left) and
dextrorotary (D - right) forms. These two forms are called "enantiomers", "chirals", or
"stereoisomers", which basically means that they have the same molecular and structural
formula but cannot be superimposed on each other no matter how they are oriented in
vast majority of living things only use the L-form. However, as soon as the creature dies,
the L-amino acids start to spontaneously convert to the D-form through a process called
racemization as a clock to
environmental factors may have affected the rate of change from the L- to the D-form. As
it turns out, this rate, which is different for each type of amino acid, is also exquisitely
1. Temperature
state
7. Specific location in the macromolecule, if
in a bound state
effect)
25% increase in the racemization rate.1,2 Clearly, this factor alone carries with it a huge
potential for error. Even slight ranges of error in determining the "temperature history" of a
Calibrating for even a known temperature history also seems to be rather problematic.
Consider that the rate of racemization for various amino acids is determined by placing a
protein into a very high temperature environment (between 95o and 150o C) and then
Such extrapolations have been fairly recently (1999) called into question by
experiments showing that models based on high temperature kinetics fail to predict
racemization kinetics at physiologic temperatures (i.e., 37o C). The authors of this
particular paper went on to suggest that, "As conformation strongly influences the rate of
Asu [cyclic succinimide] formation and hence Asx [aspartic acid + asparagine]
racemization, the use of extrapolation from high temperatures to estimate racemization
kinetics of Asx in proteins below their denaturation temperature is called into question . . .
We argue that the D:L ratio of Asx reflects the proportion of non-helical to helical collagen
"3 Others, such as Collins and Riley have commented in the press that, "racemization in
archaeological biominerals."1
Other experiments have shown that the L- and D-forms of the same amino acid do not
racemize at the same rate. This means that the equilibrium ratio may be off from "50:50"
by as much as 25%.4
As far as pH is concerned, it seems that the temperature of a solution also affects the
pH of that solution. So, the amino acid racemization (AAR) rates not only change with the
effects of temperature, but also with the concurrent effects of pH changes, which are
themselves affected by temperature.1 This can only increase the potential range of error
for age determinations. The local buffering effects of bone and shell matrixes are
supposed to limit this effect, but it is still something to consider as potentially significant
Also, the actual physical structure of an intact protein significantly affects the rate of
racemization of various amino acids. In fact, in many cases this may even be a more
significant factor than the temperature history. As it turns out, the N-terminal amino acids
racemize faster than the C-terminal amino acids of the same types. Also, the surface
amino acids racemize much faster than the interior amino acids. And, interestingly
enough, free amino acids have the slowest racemization rate of all. Studies with short
peptides have shown that, "replacement of the asparagine residue with aspartic acid
resulted in a 34-fold decrease in the rate of succinimide (Asu) formation. In the position
carboxyl to asparagine in the peptide the replacement of glycine with a bulky amino acid
[Emphasis added] This clearly emphasizes the rather dramatic importance that amino
acid position and overall protein amino acid sequence has on the racemization rate.
Hydrolysis, or the process of breaking down a protein into smaller and smaller
fragments, clearly affects the rate of racemization. The rate itself of hydrolysis "depends
on the strength of the individual peptide bonds, which in turn is determined by the
characteristics of the amino acids on either side of the bond, the presence of water and
the temperature."1 With increased hydrolysis, the overall rate of the whole specimen
would increase since there are more terminal end and surface amino acids to undergo
higher rates of racemization. All of these are confounding factors, which, if not known
exactly over extended periods of time, would play havoc with any sort of age
determinations. Even the process of preparing a specimen for racemic dating can affect
In this light, consider that age determinations are usually performed on specimens for
which the amino acid order of the original proteins is unknown. For example, consider
that neither the structure nor the proportion of the amino acids used for dating coral,
ostrich eggshell, or snail shells is known. Again, those like Goodfriend and Hare (1995)
have pointed out the "difficulties in estimating the amount of asparagine in proteins and
reminded researchers of the dangers of extrapolating from the behaviour of pure Asn in
be obtained by varying the rates of collagen denaturation and leaching of the denatured
product."1
The Interaction of bacteria and fungi with organic specimens may also be
problematic. Such creatures have various enzymes that can digest various types of
proteins, such as collagen, that are commonly used for dating. Various studies, such as
those dealing with 18th and 19th century burials, showed "unexpectedly high levels of
aspartic acid racemization." The authors "suggested that either biological or chemical
degradation of the tooth collagen might have caused these results." 1 Also, certain types
of bacteria and other creatures actually produce the D-form instead of the L-form of
amino acids. So, special care is obviously needed in order to particularly avoid this sort
of contamination.
"Amino acid dating cannot obtain the age of the material purely from the data
itself. The rate of racemization can not be standardized by itself because it is too
changeable. Thus, because of the rate problem, this dating technique must rely on other
dating techniques to standardize its findings. As a matter of fact, the ages obtained from
racemization dating must rely on other techniques such as Carbon 14, and if the dating
to consider this dating technique relative rather than chronometric. It is, perhaps, best
Clearly, all of the above described variables for amino acid racemization rates create
great difficulty for AAR as a dating technique. In fact, the difficulties are so great that
this technique cannot be and is not used as any sort of "absolute" dating technique. So,
dating technique.
To overcome the various uncertainties inherent to amino acid dating, the method must
(carbon 14 dating). What happens is that a specimen from a site is chosen as the
"calibration sample" and both a radiocarbon date as well as a D/L amino acid ratio is
determined. These values are used to solve for a constant or "k" in the formula used to
estimate ages based on the calibration sample. Of course, the "major assumption
required with this approach is that the average temperature experienced by the
Much effort has gone into transforming the data in various ways to achieve linearity
between the D/L ratio and the calibrated age of the specimens in a given location. At first
"cubic transformations"' and then later "power function transformations" were used that
seemed to show a "strong correlation with time, but did not explain the observed kinetics."
What this basically means is that amino acid dating is not based on any sort of
understanding about how racemization takes place, but is strictly a function of correlation
with other dating techniques, such as the radiocarbon technique. So, if there is any
problem with the basis of the correlation (i.e., radiocarbon dating) then there will also be
In this light, it is interesting to consider what happened in 1974 when some of the major
proponents of amino acid dating (Bada et al) decided to analyze the Paleo-Indian skeletal
material from Del Mar, California. Their estimated age of 48,000 years before present
(BP) "stunned" the archaeological community who generally believed these bones to be
less than 10,000 years old. Bada went on to date other skeletal specimens between the
35,000 and 48,000 year range with one specimen from Sunnyvale being dated at an
astonishing 70,000 years BP. Then, in the 1980s, something very interesting happened.
"The Sunnyvale skeleton and the Del Mar tibia were re-dated
dating (Taylor et al. 1983) was carried out on the Sunnyvale skeleton
and results of between 3,600 and 4,850 years BP were obtained. The
the results from both laboratories. The Oxford dates were all between
4,500 and 8,500 years BP and the Arizona dates were between
3,000 and 6,600 years BP. Bada et al., (1984) stated that the Oxford
ages of the various skeletons and the extent of the aspartic acid
racemization had the lowest amino acid content and this poor
new value for kasp for the Californian samples. He used the Laguna
skull and the Los Angeles Man skeleton as 'calibration' samples for
this. Using the revised value for kasp he recalculated the AAR dates
of the other Paleo-Indian samples. They all fell within the Holocene
but had much larger error estimates than those of the AMS values.
others (Pollard and Heron 1996, p. 228) argue that the dates only
Pollard and Heron also point out that there is poor concordance
between the conventional and the AMS radiocarbon dates and there
is no concordance between the uranium series dates and any of the
other dates either. At best three of the four methods put the bones in
the Holocene."1
Because of these problems AAR dating of bone and teeth (teeth in different locations
in the same mouth have been shown to have very different AAR ages) is considered to be
porosity of bones makes them more "open" to surrounding environmental influences and
leaching. Specimens that are more "closed" to such problems are thought to include
mollusk shells and especially ratite (bird) eggshells from the emu and ostrich. Of course,
even if these rather thin specimens were actually "closed" systems (more so than even
teeth enamel) they would still be quite subject to local temperature variations as well as
the other above-mentioned potential problems. For example, even today "very little is
known about the protein structure in ratite eggshell and differences in primary sequence
can alter the rate of Asu formation by two orders of magnitude [100-fold] (Collins, Waite,
and van Duin 1999). Goodfriend and Hare (1995) show that Asx racemization in ostrich
eggshell heated at 80 oC has complex kinetics, similar to that seen in land snails
known to be problematic (Collins, Waite, and van Duin 1999). A pilot study would be
necessary and a reliable relationship between racemate ratio and time could remain
elusive."1
Also, there is a potential problem with radiocarbon correlations that is quite interesting.
Note what happens to the correlation constant (k) with assumed age of the specimen in
of various specimens decreases dramatically with the assumed age of the specimens
(see figures).5 This means that the rate of racemization was thousands of times (up to
2,000 times) different in the past than it is today. Note that these rate differences include
shell specimens, which are supposed to be more reliable than other more "open system"
Is this a reasonable assumption? Well, this simply must be true if radiocarbon dating
is accurate beyond a few thousand years. But, what if radiocarbon gets significantly
worse as one moves very far back in time beyond just a few thousand years? In other
words, what would it mean for one to assume that the k-values remained fairly constant
over time as would seem intuitive? Well, with the k-values plotted out horizontally on the
graph, the calculated ages of the specimens would be roughly affected as follows:5
Age Assignment
values
Clearly this is a dramatic adjustment that seems to suggest that amino acid
than any sort of differences in relative ages. This seems especially likely when one
considers that each type of specimen and each different location have different k-values
meaning that the radiocarbon-derived constant in one region or with one type of
specimen cannot be used to calculate the age of any other specimen or even the same
Add to this the fact that radiocarbon dating is also dependent upon the state of
So, what do we have? In short, it seems like the claims of some scientists that amino
acid racemization dating has been well established as reliable appears to be wishful
thinking at best. The huge number of confounding factors and a complete inability to
explain the calibrating k-values in terms of amino acid kinetics leaves those with even a
2. Mike Brown, Amino Acid Dating, Molecular History Research Center and Mikes
Origins Resource, Accessed July, 2004 ( Link )
3. Collins MJ, Waite ER, van Duin AC, Predicting protein decomposition: the case of
aspartic-acid racemization kinetics. Philos Trans R Soc Lond B Biol Sci 1999 Jan
29;354(1379):51-64 (Fossil Fuels and Environmental Geochemistry (Postgraduate
Institute), NRG, University of Newcastle-upon-Tyne, UK. ( m.collins@ncl.ac.uk )
4. Meyer MW, Meyer VR, Ramseyer S, The kinetics of diastereomeric amino acids
with o-phthaldialdehyde, Chirality 1991;3(6):471-5 PMID: 1812958, UI: 92256092
(Institute of Organic Chemistry, University of Bern, Switzerland)
. Harlen Bretz
Debates:
Stacking the Deck
Ladder of Complexity
Evolving Bacteria
Irreducible Complexity
Crop Circles
Function Flexibility
Neandertal DNA
Human/Chimp phylogenies
Geology
Fish Fossils
Matters of Faith