Does the acquisition of antibiotic and pesticide resistance provide evidence for
evolution?
Jerry Bergman
The development of antibiotic and pesticide resistance is often presented as a modern
example of evolution by mutations and as clear evidence for Darwinism. A literature
review found that most examples of the acquisition of resistance are not due to
mutations, but in nearly all cases are a result of complex, built-in genetic and
molecular biological defence systems. The extant literature indicates that those
few examples that are due to mutations are in ail cases so far due to loss mutations
and do not result in a gain of genetic information.
One of the most common arguments against the Creation worldview is the well-documented
development of resistance in bacteria to antibiotics and in insects to insecticides.
A typical example can be found in the book The Evolution Explosion by Harvard
biologist Stephen Palumbi. In this work, according to a recent review, Palumbi discusses
extensively
… cases in which humans have produced rapid evolution in other species
by changing their environments: his examples include the evolution of antibiotic
resistance in bacteria, herbicide resistance in plants, pesticide resistance in
insects, and changes in the growth rate of fish caused by overfishing. Remarkably,
many people familiar with these phenomena have failed to see that they demonstrate
evolution driven by selection. There is, for example, a public misconception that
drug resistance involves not evolutionary change in pathogenic bacteria,
but some process whereby a person becomes acclimated to antibiotics.1
Figure 1. a) A donor cell contains a plasmid known as a
Resistance (R) factor; which confers resistance to antibiotic X. b) The donor
cell forms a tude-like structure, a pilus, that connects to a recipient cell. c)
One of the two DNA strands of the R factor is transferred from the donor to the
reciptient through the pilus. d) Each cell makes a complementary strand for
the R factor; and is now resistant to the antibiotic and can pass on the R factor
to other cells.
Many Darwinists have claimed that the development of antibiotic and pesticide-resistance
is one of the strongest evidences of Darwinian evolution. Examples include Greenspan,2 Crews,3
Iltis,4 Kopaska-Merkel,5 and the PBS series Evolution.6 This paper focuses on the common claim that
the development of resistance to antibiotics and insecticides provides evidence
for the molecules-to-man evolution theory is based at its foundation on mutations.
Development of resistance is a major concern for another reasonhuman health.
Infectious diseases historically have killed billions and have caused several of
the most devastating chapters in the history of humankind.7
Scientists have been so successful in the past century in preventing and curing
infectious diseases that only a few years ago it was thought that modern science
had at last enabled us to close the book on infectious diseases.8 However, recent history has proven this conclusion
to be tragically premature.9,10 Two major topics of current concern in the fields of
communicable diseases are emerging infectious diseases and re-emerging
infectious diseases such as pertussis (commonly known as whoopingcough). The development
of resistance must be understood in order to deal with the serious health threat
this situation causes.
Bacteria that have become resistant to several antibiotics, said to be multi-drug
resistant, are often called super bugs by the media. For some pathogens vancomycin
now is the only effective agent, and even it has lost some of its effectiveness
in recent years.11 This problem
has many causes, including the misuse of antibiotics and the transfer of resistance
genes from one bacterium to another.12
This is possible because many bacteria have a built-in natural resistance to a number
of antibiotics, and the genes that provide this resistance can be passed on to other
bacteria by a variety of means.
Mechanisms involved in antibiotic resistance in bacteria
Non-resistant bacteria commonly become resistant by several different means, most
of which have nothing to do with mutations. Palumbi notes that in most cases
antibiotic resistance results from selection of an existing genetic trait,
especially those traits that are highly variable, such as the natural defences that
all organisms possess.13 An important
mechanism by which bacteria become resistant is by obtaining one or more specific
resistance genes from other bacteria. This type of resistance can be obtained by
the transfer of a plasmid (small circular units of DNA), already existing in the
bacterium gene pool, that carries a gene for an enzyme which either destroys or
inactivates the antimicrobial substance.14
Many resistance genes are also carried on self-transmissible genes known as transposable
elements, that can jump between plasmids and chromosomes.15
Bacteria can obtain a new gene (or genes) by several methods:
- Conjugation is the most common method. It is a complex system that
transfers a copy of a plasmid from one bacterial cell (called the donor) to another
bacterium (called the recipient) (Figure 1). A tube-like structure known as pilus
latches onto the recipient and is positioned in such a way that a conjugation bridge
can form, allowing for the transfer of genes for resistance and other purposes.16 A common example is bacterial
resistance to penicillin that is acquired by obtaining the gene for penicillinase
as a result of conjugation. Penicillinase is an enzyme that alters the penicillin
molecule in such a way that it is rendered ineffective. The plasmid containing the
drug resistance is called a Resistance (R) factor.
- Transduction is a virus-mediated transfer of host DNA from one
host to another. Bacterial viruses, known as bacteriophages, sometimes can serve
as intermediaries, picking up the resistance gene from a naturally resistant bacterium
and then passing on this gene to non-resistant bacteria. In this case the bacterias
genomes gain information, but the source is not mutations. Instead, the new genetic
material is derived from the genome of another bacterium that already has the gene
(or gene set) that confers resistance.
- Transformation (the process in which bacterium take up exogenous
DNA from its environment). Chromosomal or plasmid DNA can even be taken up and spread
from dead to living bacteria.
Also, many gene sets called transposons are self-transmissible and can transfer
from their normal location to other plasmids or chromosomes. In bacteria, antibiotic-resistant
genes are located on plasmids or transposons, small circular units of DNA that can
even be spread from dead to living bacteria.
Antibiotics can be inactivated by various means
Antibiotics are produced naturally by fungi and bacteria which have coexisted since
Creation as part of their own defence systems. Without innate defences, bacteria
could not protect themselves and would soon become extinct. When an antibiotic reaches
the bacterial periplasm or cytoplasm (see Figure 2) it may be inactivated by modification,
isolation, or destruction, all of which are due not to mutations, but rather
to complex, innate, physiological mechanisms.
When a bacterial strain has gained resistance to an antibiotics, it is more correct
to say that the bacteria it has lost sensitivity to the antibiotic.17 Furthermore, bacteria have had resistance to many
antibiotics long before humans used them. This has been confirmed by culturing bacteria
found on human explorers frozen to death long before human-developed antibiotics
existed. An example is a 1988 University of Alberta study of bacteria on the bodies
of Arctic explorers frozen in 1845. Investigators discovered that some of the bacterial
strains were resistant to antibiotics.18
The study, which evaluated six strains of Clostridium on three men who
had been buried in permafrost, found the bacteria were particularly resistance to
clindamycin and cefoxitin, both antibiotics that were developed over a century after
the men died.19 Clostridium
is part of the normal bacteria flora of the human gut.
Structure of β-lactam antibiotics.
A drug also can be deactivated by modifying a critical part of its molecular structure.
An example is beta-lactamase, an enzyme that attacks penicillin, primarily
by destroying its β-lactam ring. As a result, the antibiotic no longer is functional,
and therefore microorganisms that produce β-lactamase are resistant to all
antibiotics containing the β-lactam ring (known as beta-lactam antibiotics,
part of the beta-lactam family). β-lactamase is manufactured by a
set of genes on R-plasmids that can be passed to other bacteria. In 1982, over 90%
of all clinical staphylococcus infections were penicillinresistant, compared
to close to 0% in 1952. The reason for the increase was due largely to the rapid
spread (primarily by conjugation transfer) of the β-lactamase plasmid.
Some antibiotics may be effective temporarily, but cellular repair mechanisms, redundant
regulatory systems, or subsequent protein synthesis later restores vitality to the
bacteria. The organism may respond to the antibiotic by causing a significant increase
in metabolism so that the previous level of antibiotic no longer is sufficient to
interfere with the metabolic process.
Another example involves passing on a gene or genes that enable recipient bacteria
to produce the compound blocked by the antibiotic. For example, sulfonamide
works by blocking the bacterias ability to synthesize folic acid. If one or
more genes coding for folic acid are acquired from other bacteria, this enables
synthesis of this compound and renders the sulfonamide ineffective, or at least
much less effective, providing the bacteria with sufficient folic acid for survival.
As a result of the ineffectiveness of penicillin, doctors often administer methicillin,
a drug that disables another metabolic mechanism to kill bacteria. By the 1980s,
several important strains of Staphylococcus also were resistant not only to methicillin,
but also to another drug known as nafcillin. In 1992, almost 15% of all Staphylococcus
were methicillin-resistant in the USA, and by 1993 vancomycin remained as the only
antibiotic that could kill all strains of the organism.20
Staphylococci are everywherein the soil, on human skin, in the oral cavityand
easily can be passed on by simple body contact. The majority of the 920,000 post-surgical
infections were due to staphylococcal infections, mostly by the methicillin-resistant
staph strain. Strains of staphylococci that were resistant to many drugs existed
naturally by 1990. A research team treated a patient infected
with a strain that was resistant to cadmium, penicillin, kanamycin, neomycin,
streptomycin, tetracycline, and trimethoprim. Since each of these drugs operated
by specific biochemical mechanisms that were used by a host of related drugs, the
Australian staph could resist, to varying degrees, some thirty-one different drugs.
In a series of test-tube studies the Australians showed that these various resistance
capabilities were carried on different plasmids that could be separately passed
from one bacterium to another. The most common mode of passage was conjugation:
one bacterium simply stretched out its cytoplasm and passed plasmids to its partner.21
A major cause for such a situation is overuse of antibiotics that select for the
resistant strains, causing them to become more common.
Transporters and efflux pumps
Structure of vancomycin, an antibiotic.
Yet another method whereby bacteria can become resistant to antibiotics is by gaining
the genes for pumps that remove the antibiotic from the cell before it can cause
harm. Pumps can remove many kinds of toxins, including anti-cancer drugs. Efflux
pumps use metabolic energy to remove antibiotics from the cytoplasm, thereby reducing
the effective concentration of the antibiotic inside the cell. Referred to as multi-drug
resistant pumps, they are produced by a number of genes (usually located
on plasmids) that can be passed to other bacteria during conjugation. The pump mechanism
attaches a protein label to the drug and removes it by exocytosis. A similar family
of mechanisms exists in both prokaryotic and eukaryotic cells. Humans possess a
superfamily of transporters such as the human P-glycoprotein, which can remove a
diverse class of amphipathic (which has both hydrophobic (lipid) and hydrophylic
(water attracting) regions) drugs from cells and also are a source of multi-drug
resistant cancer cells.22
Resistance due to mutations
Bacteria can become resistant as a result of mutations, but all of those studied
so far are loss mutations. Probably the classic example is streptomycin and other
mycin drugs that have been rendered ineffective by ribosome point mutations.23,24
Mycin antibiotics function by attaching to a specific receptor site on the bacterias
ribosomes, and thereby interfering with their protein-manufacturing process. As
a result, the proteins that the bacteria produce are non-functional, so the bacteria
cannot grow and divide or propagate. Mammalian ribosomes do not contain the specific
site where myosin drugs can attach, and for this reason. the drug does not interfere
with their ribosomes. Therefore, mycin drugs adversely affect bacterial growth without
harming the host. Because fundamental differences exist between prokaryotic (bacterial)
and eukaryotic ribosomes, these variations often are exploited in producing antibiotics
to kill bacteria without harming the host.
Bacterial mutations cause the bacteria to become resistant to streptomycin if the
ribosome site where the streptomycin attaches is altered by the mutation. As a result,
the streptomycin no longer can bind, and therefore no longer interferes with the
ribosomal function. Mutation-caused changes can occur in several different locations
on the ribosome and still enable the bacteria to become mycin resistant.25,26 Another example
of a mutation-caused resistance is found in Mycobacterium tuberculosis,
which manufactures an enzyme that alters the antibiotic isoniazid into its active
form, then killing the bacterium. A mutation that damages the enzyme allows the
antibiotic to remain in its largely inactive and harmless form.27
Mutations that change a protein are likely to weaken the organism, and
when it becomes resistant to a drug, it is likely to become less fit in
other ways.28 These modifications
do not improve the bacteria because they render them less able to survive
in nature.29 Streptomycin-resistant
bacteria actually are weaker in the wild for several reasons. The major reason is
the ribosome specificity is lowered in bacteria that become resistant to streptomycin,
and as a result the ribosomes ability to translate certain RNA transcripts
into protein is less effective.30
Although reduction of binding affinity does not always result in the loss or reduction
of all binding specificity, the specificity for the proteins required for efficient
ribosome function is usually decreased.
Numerous empirical studies have found that mutations that confer resistance decrease
the fitness of bacteria in environments without antibiotics. A result they do not
reproduce as quickly as non-resistant bacteria. Evidence discovered so far indicates
that these mutations render bacteria less fit in the wild because the mutant strain
is less able to compete with the wild type. For example, one study compared multi-drug
resistant tuberculous bacteria with non-resistant strains. It was found that the
multi-drug-resistant strain had significantly decreased fitness compared to the
drug-susceptible strain.31 The research
also indicates that the same is true of viruses.32
Even though the mutation in this case provides the organism with a clear advantage,
in the wild (i.e. an antibiotic-free environment) the change is usually not
an advantage and normally would not be selected for. When the drug is no longer
part of the environment, the non-resistant type is again better adapted, and the
resistant type less so.28 In a relatively sterile
hospital environment, however, the resistant strain has a clear advantage in those
patients given antibiotics because it can render many antibiotics useless.
The classic example is a patient who develops resistance to antibiotics in a hospital,
yet the infection clears when sent home because the resistant bacteria cannot compete
with non-resistant normal flora. Other mutations apart from those affecting the
ribosome also have been found to render bacteria streptomycin-resistant. In all
of these cases, the mutation that causes the resistance results either from the
degradation or loss of genetic information (from gene damage, for example, resulting
in a gene product that is no longer functional).
Similar examples of natural selection also apply to humans and other creatures (i.e.
resistance that results from mutations as opposed to that from natural resistance
to pathogens due to normal immune system function such as from vaccination or prior
exposure, such as the sickle cell anemia mutation in humans that confers resistance
to malaria). However, as Schliekelman et al. note:
Although infectious disease is assumed to be an important cause of natural
selection in humans, strong selection in favour of alleles that confer resistance
to disease has been demonstrated only in the case of malaria.33
The same observation has been confirmed in other more structurally complex animals.
The resistance due to mutations is evidently largely confined to viruses, bacteria
and insects.
Cell surface receptors and antibiotic resistance
The outer membrane of gram-negative bacteria (a type of bacteria that has a cell
wall that resists staining with certain dyes) serves as a barrier to the outside
world that protects the cell. However, specific proteins (known as porins)
in the outer membrane of the bacteria serve as diffusion channels or gateways for
hydrophylic molecules such as certain antibiotics. Several types of porins exist,
and low levels (or loss) of certain porins due to loss mutations increases
the bacterias resistance to some antibiotics because they can no longer enter
the cell, or the small amounts that enter cannot kill the cell.34 Hydrophobic molecules can diffuse through the
membrane itself, but some mutations involving outer membrane biochemistry can have
an adverse impact on diffusion rates; thus, these mutations potentially increase
drug resistance.3539 These mutations also
evidently slow the infusion of certain nutrients and other needed materials, and
as a result these resistant bacteria are normally less fit than normal bacteria
in the wild.
Another mutation that may confer resistance is gene duplication, which may require
a larger dose of the antibiotic to be effective if the antibiotic attacks the protein
that is now produced in higher amounts.40
This mutation allows the restoration of a normal metabolic level, or at least a
level that allows survival. In this case, new genes are not created, consequently
this mutation is not an example of evolution. Furthermore, in normal environments
the overproduction is often harmful.
Changes in the cellular target of cell surface molecules
In order to enter a bacterial cell, the drug first must bind to cell surface proteins
called binding sites. Mutations cause many bacteria to become resistant to antibiotics
by altering the cell surface proteins that enable the antibiotic to enter the cell.
Binding and subsequent transport of antibiotics typically involve the same protein
or protein complex. Some resistance may occur as a result of one or more alterations
of these drug-binding sites on the cell surface so that the drug no longer can bind.
It consequently is prevented or hindered from entering the cell and therefore cannot
as readily accumulate to toxic levels.
Resistance also can occur as a result of alterations in membrane permeability or
other changes on the cell surface that prevent the drug from binding to, and thus
entering, the cell.41,42 This mutation also renders the organism less fit in
nature because the damaged receptor also is less able to take in the substances
it normally brings into the cell.
Another method whereby pathogens can acquire resistance is via alterations caused
by mutations that in some way modify the cellular target in such a way as to render
the antibiotic no longer effective. Specific trans-membrane transporters serve to
import into the cell various target molecules (such as nutrients), but also may
import some antibiotics such as metabolic analogues. A mutation to, or a loss of,
the transporter may decrease the antibiotic level entering the cell, and consequently
it will become less effective. In the case of bacteria, in order to enter a cell
the drug must pass through both the cell wall and the cell membrane. If the cell
membrane permeability level changes, the drug no longer is able to pass through,
and as a result cannot reach its target to cause cell damage or block cell reproduction
(such as by binding to DNA or to a ribosome). The organism is now resistant to this
drug, but it is also less able to survive in the wild because resistance-conferring
mutations in bacteria are loss mutations that render the organism less fit to survive
in an antibody-free environment.
The problem of bacterial resistance does not provide evidence for evolution, but
instead supports intelligent design. In no case has a mutation that results in new
functional information-gain (such as one that produces a new gene) been demonstrated.
The problem today is a result of several factors, including the use of antibiotics
that either are not indicated, or are not given at the incorrect dosage or for the
proper duration. Also, under use of prevention and vaccination are important.
One of the latest examples involves Staphylococcus aureus resistance to
one of the newest modern antibiotics, vancomycin. The S. aureus builds
its cell wall out of tightly crosslinked strands. A gene codes for the enzyme that
constructs a cap on the strand ends.43
This cap is used to help produce the cross linking needed to build a strong
tough wall that contains and protects the cells contents.44 Vancomycin binds to the strand end and as a result
stops further cell wall formation.45
The resultant uncross linked areas are weak, allowing water to enter by osmosis.
As a result the cell balloons out, causing the cell to burst and killing the bacteria.
A specific mutation makes an altered enzyme that in turn produces an altered cap
that is unaffected by vancomycin. In this case, the mutation clearly provides a
survival advantage to the bacteria, but only in an abnormal environment. In a normal
environment, though, the
A loss of specificity in the receptors in the cell wall can be beneficial when the
receptor no longer allows antibiotics to enter the cell.
mutant cap leads to a weaker cell wall than normal, and so populations
of these mutant cells grow more slowly than normal cells. The environment now becomes
key. In a regular cellular environment with no antibiotics present, staph cells
with the normal gene grow quickly, cap their strand ends, crosslink them into strong
cell walls, and outcompete staph cells with the mutant gene (emphasis mine).44
Insecticide resistance
Insecticide resistance is another major problem. Some insects are tolerant to so
many insecticide families that chemical control is useless.46 Developing resistance to DDT in insects functions
in a similar way as streptomyosin resistance. The insecticide DDT binds to a specific
matching site on the membrane of the insects nerve cells, interfering with
the nerve cells functions. When a certain level of DDT binds to the nerve
cells, the nervous system no longer is able to function properly, and as a result
the insect dies.47 Any mutation
that adversely affects the binding of DDT to the nerve cell, if it is not lethal
or almost lethal, has the potential of conferring DDT resistance to the insect.48
Likewise, as is true with bacteria, insects that have become resistant to insecticides
have been shown to be less fit in the wild.49
For instance, many resistant insects are less active and slower to respond to stimuli
than other insects. This effect has been researched specifically in the case of
mosquitoes. Although more fit in the environment in which the insecticide is present,
the more sluggish nervous system results in the resistant insects being less
fit in a normal insecticide-free environment. Nonetheless, prolonged use of insecticides
can produce large numbers of resistant insects which, even though they are less
fit as a whole, can survive better in an environment with high levels of DDT. As
a result, the resistant population becomes larger in spite of its members
overall less-effective nervous systems. The problem is so common that most insects
eventually develop resistance to many insecticides:
Insect resistance to a pesticide was first reported in 1947 for the housefly
(Musca domestica) with respect to DDT Since then the resistance to one
or more pesticides has been reported in at least 225 species of insects and other
arthropods. The genetic variants required for resistance to the most diverse kinds
of pesticides were apparently present in every one of the populations exposed to
these man-made compounds.50
An excellent summary of the fact that pesticide resistance usually results in a
clear survival disadvantage in a toxic free environment is as follows:
… resistance to poisons is rarely a free ride for either
insects or other organisms, because the selective trade-offs imposed by pleiotropy
often maintain polymorphism either within or between populations of a species. Some
populations of Norway rats, for example, have evolved resistance to the rat poison
warfarin. Where the poison is in widespread use, homozygotes for the allele that
confers resistance are common. But that allele also lowers rats ability to
synthesize vitamin K, a compound essential in allowing blood to clot, and they bleed
more easily. For that reason, in places where warfarin is not used, individuals
homozygous for this allele are at as much as a 54 percent selective disadvantage
compared to wild-type rats, and the allele is far less common. The same
sort of phenomenon has been demonstrated for the alleles that confer resistance
to DDT and to dieldrin in mosquitoes.51
Another evidence that antibiotic resistance does not lend support to evolution is
that the rise of antibiotic resistance as a result of mutations have been extremely
rapid because the mutations need only to reduce or damage the function
of pre-existing systems (i.e. reduce protein binding effectiveness, damage cell
transport systems, or disrupt regulatory control). It usually requires only a single
mutation (i.e. a point mutation) to reduce or eliminate a system that already is
present in the cell. These mutations are easily acquired, and this is why the resulting
new phenotypes are produced rapidly. Within a decade or less after a new insecticide
is introduced, many insects are resistant to it. The same is true for bacteria and
many other organisms. For example, DDT was discovered in 1939 but, ironically, resistance
to it was reported in house flies even before its developer, Paul Muller, received
the Nobel Prize for his work.52
Conversely, mutations that add new systems or information, such as a new
regulatory system, a new synthetic system, a new energy-generating system, or a
new transport system, have never been convincingly documented. Even Darwinists posit
cons for them to occur, and they have never been shown to happen. Mutations increasing
enzyme affinity are not clearly beneficial, but may occur rapidly. For example,
mutations in the hemoglobin-oxygen affinity system help their hosts acclimatize
to high altitude but they also cause polycythemia (an increase in the red
blood cell count or the concentration of hemoglobin in the red blood cells as a
means of adapting to the low level of oxygen).
Conclusion
The recent development of bacterial and insect resistance does not support neo-Darwinism
classically defined as the natural selection of mutations. Evolution requires information-building
mechanisms that add new information to DNA. In virtually all cases, bacteria or
insect resistance is a result of the exploitation of existing systems, or is due
to a transfer of genes. In the rare cases where a mutation is involved, development
of resistance involves only a loss mutation such as one that produces a deformed
ribosome. This is confirmed by the fact that resistance is acquired very rapidly,
in far too brief a period for the evolutionary emergence of complex biochemical
or physiological systems. Mutation caused resistance results in less viability in
the wild, and as a result the resistant stains cannot compete.
The multi-drug resistance problem is not small-and now results in tens of
thousands of deaths annually. Human uses and abuses are the major cause, not Darwinian
evolution. The acquisition of antibiotic resistance does not provide evidence for
microbe-to-man evolution but rather for intelligent design and only by understanding
the mechanism involved can the resistance problem be solved.53
Acknowledgments
I wish to thank Kevin Anderson, David Demick, Bert Thompson, John Woodmorappe, Clifford
Lillo and Wayne Frair for their comments on an earlier draft of this manuscript.
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