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25
THE HUMAN
MICROBIOME
FAST FACT
If gathered together, the microorganisms
that inhabit the human body would occupy
a space about the size of the liver and weigh
approximately 3 pounds.
Copyright 2014. F. A. Davis. Online Chapter to Accompany Thompson, Understanding Anatomy & Physiology.
After successful completion of the Human Genome Project, the National Institutes of Health decided to use DNA
sequencing technology to study the microbial population of healthy adults. So, for 5 years, scientists followed 242
healthy adults, periodically sampling bacteria from 15 or more sites on the subjects bodies, including their mouths,
nasal passages, skin, stool, and, in women, vaginas. The study, known as the Human Microbiome Project, was
completed in 2012, and scientists are still coming to terms with the results.
Specifically, the study revealed the existence of a vast, organized system of microbes within healthy adults. This
system, known as a microbiome, consists of more than 100 trillion microscopic life-forms. Most appear to be bacteria,
although viruses and even fungi are included. The diversity of bacteria within the microbiome is staggering; thus far,
more than 10,000 species have been identified, and scientists are still analyzing microorganisms that have never before
been successfully cultured or identified. One surprising finding was that nearly everyone carried bacteria known to
cause disease. However, instead of causing illness, they coexisted peacefully with the rest of the microbiome,
prompting scientists to rethink current concepts of how disease occurs.
What is clear is that every persons body contains numerous microbial communities. Each community seems
to be charged with a distinct set of metabolic tasks, such as the digestion of sugars in the mouth or of complex
carbohydrates in the intestines. The components of each community vary widely across locations. For example, the
mouth contains a rich diversity of bacteria, whereas the microbiome in the vagina contains far fewer species.
Adding complexity, the specific inhabitants of each community vary between individuals: Bacteria found in
abundant numbers in one persons mouth, for example, may be scarce in another persons. Even more interesting,
different microbes appear to perform the same tasks in different individuals. In other words, the intestines need a
population of bacteria to digest fat; however, the specific species of bacteria performing that job can vary between
persons.
Although researchers are just beginning to understand what all of these microbes do, it is certain they play an
important role in maintaining human health. Preliminary evidence suggests that when we eradicate a certain species of
bacteria or alter its relative population, we can open the door to development of any number of diseases, ranging from
asthma to obesity.
Nostrils
900 species
30,000 genes
Teeth
1,300 species
20,000 genes
Mouth
800 species
70,000 genes
FAST FACT
The microbial communities
that live on the teeth are
different from those that
live in saliva.
Copyright 2014. F. A. Davis. Online Chapter to Accompany Thompson, Understanding Anatomy & Physiology.
The first, crucial step in the development of a microbiome occurs when a newborn passes through the birth canal. The
newborn leaves the womb without a single microbe. Then, during the birth process, bacteria from the mothers vagina coat
the newborn. This allows microbes to pass from mother to child, forming the basis of the newborns microbiome. (See The
Body at Work on the next page.)
After birth, the microbiome expands as the newborn picks up bacteria from his or her immediate environmentother
people, food, clothing, furniture, pets, and even the air. As the child grows, the microbiome becomes more complex. At the
same time, the microbiome seems to boost development of the immune system. If something disrupts the vibrancy of the
microbiome, such as the use of broad-spectrum antibiotics, health seems to suffer. According to researchers, children who
take high levels of antibiotics have a higher risk for development of allergies and asthma.
Pets
Birth
process
Trees
Furniture
Skin
contact
Other people
Breastfeeding
Copyright 2014. F. A. Davis. Online Chapter to Accompany Thompson, Understanding Anatomy & Physiology.
Building a Microbiome
Continuity
FAST FACT
Infants delivered by cesarean section
and who, therefore, lack many microbes
routinely passed from mother to child
have a much higher incidence of
allergies and asthma than do children
delivered by vaginal birth.
FAST FACT
Because children acquire significant
components of their microbiomes from
their mothers, some experts theorize that
diseases that appear to be genetic, but
whose causative genes cant be located,
really are heritable; its just that the
genes causing the disease are bacterial.
FAST FACT
By the age of 18 years, the average
American child has received from 10 to
20 courses of antibiotics.
Copyright 2014. F. A. Davis. Online Chapter to Accompany Thompson, Understanding Anatomy & Physiology.
Bacteria make up the bulk of the human microbiome, although viruses and fungi have also been identified. We also know
that bacteria, viruses, and fungi can cause illness. Currently, scientists dont clearly understand how the body determines
which microbes to kill and which microbes to nourish.
Bacteria
Bacteriathe chief inhabitants of the microbiomeare single-celled microscopic organisms. They come in a variety of
shapes and sizes, and are found practically everywhere on earth. Indeed, bacteria can be found in such extreme environments
as volcanic vents and Antarctic ice.
Copyright 2014. F. A. Davis. Online Chapter to Accompany Thompson, Understanding Anatomy & Physiology.
Bacterial Shapes
Most bacteria have one of three shapes:
Continuity
Cocci
Cocci are round or spherical.
Bacilli
Bacilli are rod-shaped.
Spirilla
Spirilla are spiral-shaped.
Diplococci
Streptococci
Staphylococci
Staphylococci are cocci that
occur in clusters.
Copyright 2014. F. A. Davis. Online Chapter to Accompany Thompson, Understanding Anatomy & Physiology.
Human genome
22,000 genes
Human microbiome
8,000,000 genes
Outer membrane
Peptidoglycan (cell wall)
Cytoplasmic membrane
Gram-positive bacteria
Have a thick layer of
peptidoglycan in their cell
walls, which retains the dye
Stain purple
Gram-negative bacteria
Have a cell wall consisting of
a thin layer of peptidoglycan
and an outer membrane
Lose the dye when rinsed
Appear red or pink after a
counterstain is applied
Because antibiotics such as penicillin work by attacking the peptidoglycan in the bacterial cell wall, they are more
effective against Gram-positive bacteria.
FAST FACT
Penicillin interferes with a bacteriums ability to
manufacture peptidoglycan. As a result, the cell
wall becomes fragile and bursts, killing the
bacterium. Because human cells dont contain
peptidoglycan, they are not harmed.
Copyright 2014. F. A. Davis. Online Chapter to Accompany Thompson, Understanding Anatomy & Physiology.
Viruses
Continuity
Viruses are extremely small infectious agents, too small in most cases even to be seen under a light microscope. Unlike
bacteria, viruses are not cells. They cant metabolize nutrients, produce or excrete wastes, or move around independently.
They cant even reproduce on their own; to do so, they must be inside a host cell. Even so, viruses spark many human
diseases, including smallpox, AIDS, influenza, certain types of cancer, and the common cold.
Nucleic acid
(DNA or RNA)
Spikes
Viral Shapes
The capsid may assume one of three basic shapes: helical, polyhedral, or complex. In each case, an envelope may, or may
not, surround the capsid.
RNA
DNA
DNA
Capsomere
Capsid
(head)
Capsomere
Capsid
Capsid
Sheath
Tail fiber
Helical capsid
Polyhedral capsid
Complex capsid
Complex viruses are neither helical nor polyhedral. Bacteriophages (which infect bacterial cells) are complex viruses, consisting of a
helical sheath and a complex head containing DNA or RNA. A bacteriophage uses the
tail fibers to attach to the surface of its host.
It then uses the sheath like a syringe to inject
its nucleic acid into the target cell.
Copyright 2014. F. A. Davis. Online Chapter to Accompany Thompson, Understanding Anatomy & Physiology.
Left to themselves, viruses are inert. To replicate, they must invade a host cell and hijack that cells metabolic chemicals and
ribosomes.
1
1
Virus
2
1
1
1
Nucleus
4
The completed viruses are
released from the cell,
often destroying the host
in the process.
3
The virus then commandeers the host
cells machinery, and the host begins
producing viral nucleic acids instead of
its own. Each nucleic acid is then
encased in a capsid manufactured from
the hosts amino acids.
FAST FACT
A single cell may
produce from 10,000 to
50,000 new viruses in as
little as 48 hours.
FAST FACT
Viruses can mutate rapidly. These frequent changes make it difficult
to create effective vaccines to protect humans against infection.
Copyright 2014. F. A. Davis. Online Chapter to Accompany Thompson, Understanding Anatomy & Physiology.
Viral Replication
10
Fungi
Continuity
Fungi, which include molds and yeasts, live in the soil, on plants, and even in the air. Some fungi reproduce through tiny
spores in the air, making it possible to inhale the spores or for them to land on your skin. Consequently, many fungal
infections begin on the skin or in the lungs.
Persons most likely to experience fungal infections include those with weakened immune systems or those taking
antibiotics. For example, when the microbiome becomes disrupted by a course of antibiotics, a yeast-like fungus called
Candida albicanswhich normally resides on the skin as well as in the mouth, intestines, and vaginacan overgrow,
resulting in vaginitis or oral thrush. Athletes foot and ringworm are also fungal infections.
Bacterium
Rhinovirus
Bacteriophage
Poliovirus
Copyright 2014. F. A. Davis. Online Chapter to Accompany Thompson, Understanding Anatomy & Physiology.
Bacilli:
Rod-shaped bacteria
Microbial
makeup of healthy humans
Human microbiome:
Microbe:
Pathogen: Disease-causing
microorganism
Plasmids:
Round- or spherical-shaped
bacteria
Cocci:
Microscopic organism,
including bacteria, viruses, and fungi
Pathway by which
infectious organisms gain access to the
body
Portal of entry:
Spirilla:
Spiral-shaped bacteria
Ultramicroscopic pathogen
consisting of a nucleic acid within a
protein shell
Virus:
Copyright 2014. F. A. Davis. Online Chapter to Accompany Thompson, Understanding Anatomy & Physiology.
11
12
Continuity
b.
c.
d.
Copyright 2014. F. A. Davis. Online Chapter to Accompany Thompson, Understanding Anatomy & Physiology.
13
Copyright 2014. F. A. Davis. Online Chapter to Accompany Thompson, Understanding Anatomy & Physiology.
Answers: Chapter 25