3.1: Background Information

Integrated Human Anatomy and Physiology Lab Manual I: Fundamentals of Structure and Movement · LibreTexts

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    From LibreTexts, under CC BY-NC 4.0, as the source states it; its equations are written in TeX, which the PDF shows typeset. This page at LibreTexts.

    3.1: Background Information

    Overview

    The first microscope was developed in 1590 by Dutch lens grinders Hans and Zacharias Jansen. In 1667, Robert Hooke described the microscopic appearance of cork and used the term cell to describe the compartments he observed. Anton van Leeuwenhoek was the first person to observe living cells under the microscope in 1675—he described many types of cells, including bacteria.

    Since then more sophisticated and powerful scopes have been developed that allow for higher magnification and clearer images. Microscopy is used by scientists and health care professionals for many purposes, including diagnosis of infectious diseases, identification of microorganisms (microscopic organisms) in environmental samples (including food and water), and determination of the effect of pathogenic (disease-causing) microbes on human cells. This exercise will familiarize you with the microscopes we will be using to look at various types of microorganisms throughout the semester.

    Microscopes vary in design and application, each type offering unique advantages suited to specific tasks. Understanding the differences between microscope types, as well as key concepts such as magnification and resolution, provides a solid foundation for their effective use.

    Types of Microscopes and Their Applications

    Light (Compound) Microscope

    It is called a “compound microscope” because the light passes through a series of lenses that refract light and magnify the final virtual image you see when you look through the ocular lenses. The user can control the amount of light passing through the image by adjusting the light intensity knob or by changing the width of the opening of the substage iris diaphragm. The objective lens closest to the specimen magnifies the image first. This image is then further magnified by the eyepiece lens, allowing the observer to see a detailed view of the specimen.The contrast between regions of the specimen comes from the difference between light absorbed by the sample and light passing through it. This type of microscope is essential for examining cells, tissues, and microorganisms, making it a staple in introductory biology and anatomy courses.

    • Advantages - Affordable, easy to use, and capable of viewing live specimens.
    • Limitations - Limited resolution due to the wavelength of light, generally up to 200 nanometers.

    Electron Microscope

    Electron microscopes are advanced imaging tools that use a beam of electrons, rather than light, to create detailed images of specimens. They offer much higher resolution and magnification compared to light microscopes, allowing scientists to observe the fine details of cell structures and materials at the nanometer scale. There are two primary types of electron microscopes, Transmission Electron Microscope (TEM) and Scanning Electron Microscope (SEM) each with distinct functionalities and applications. TEMs are used to study the internal structure of cells, organelles (including mitochondria, ribosomes), and macromolecules. They provide detailed images of the cell's ultrastructure, such as mitochondria and ribosomes. SEMs scan a focused beam of electrons across the surface of a specimen. The electrons interact with the surface atoms, producing various signals that are used to construct an image.

    • Advantages - High resolution, capable of imaging at the nanometer scale. TEMs allow for the visualization of virus morphology and structure, aiding in the study of virus-host interactions and the development of antiviral drugs.
    • Limitations - Expensive, requires non-living specimens due to the vacuum environment.

    Fluorescence Microscope

    A fluorescence microscope is a specialized type of light microscope. Fluorescence microscopy relies on the principle of fluorescence, where a substance absorbs light at one wavelength and emits light at a different, typically longer, wavelength. allowing researchers to visualize specific components within cells and tissues using fluorescent markers. The microscope illuminates the specimen with a specific wavelength of light using a light source, often a mercury vapor lamp, xenon lamp, or LED. Specimens are treated with fluorescent dyes or proteins that bind to specific cellular components. Common dyes include fluorescein, rhodamine. Used to label and visualize specific proteins, nucleic acids, and other cellular components, helping to study cellular processes such as division, signaling, and interaction. Medical Diagnostics: Employed in techniques like immunofluorescence to detect pathogens or characterize tissue samples.

    • Advantages: Allows for the observation of specific structures within a cell, can be used to track processes in live cells.
    • Limitations: Requires appropriate fluorescent markers, may involve complex preparation.
    Table \(\PageIndex{1}\): Comparison of Transmission Electron Microscope (TEM) and Scanning Electron Microscope (SEM) - Unveiling the Microscopic World
    Feature TEM SEM
    Resolution Higher (up to 0.1 nanometers) Lower (around 1 nanometer)
    Image Type 2D internal structure 3D surface morphology
    Specimen Preparation Thin sections, complex preparation Minimal, often requires coating
    Applications Internal cell structure, molecules Surface structure, forensic analysis
    Specimen Environment Ultra-thin, non-living Surface only, non-living

    Bright Field Light Microscope

    We will use bright field light microscopes, a type of compound microscope because the light passes through a series of lenses that refract light and magnify the final virtual image you see when you look through the ocular lenses.. Specifically, it is the most common type of compound light microscope used in various biology classrooms, medical labs, and other settings to observe a variety of samples, including cells, tissues, and microorganisms, often after staining to enhance contrast. This is a specific type of light microscopy where the specimen is illuminated from below, typically a halogen lamp or a light-emitting diode (LED) light and the light transmitted through the sample creates a dark image on a bright background, hence the name “bright field.”. The user can control the amount of light passing through the image by adjusting the light intensity knob or by changing the width of the opening of the substage iris diaphragm.

    Exploring Parts of the Microscope

    The simplest optical microscope is the magnifying glass, which is good to about ten times (10 times) magnification. The compound microscope has two systems of lenses for greater magnification: the ocular, or eyepiece lens, that one looks into, and the objective lens, or the lens closest to the object.

    Bright field light microscope.

    Figure \(\PageIndex{1}\): Components of a typical bright field light microscope. (CC BY 4.0; via LibreTexts).

    In Figure \(\PageIndex{1}\), the bright field light microscope is displayed and the list below captures a detailed description of all the labeled parts:

    1. Ocular Eyepieces: The lenses of the eye pieces (oculars) on your microscope magnify ten times. One of your oculars may have a pointer that can be moved by rotating the eye piece. The eyepiece of most binocular microscopes can be adjusted to match the distance between the eyes of different observers (inter-pupillary adjustment).
      • Diopter Adjustment: Useful as a means to change focus on one eyepiece so as to correct for any difference in vision between your two eyes.
    2. Observation Tube: The assembly on a microscope that houses the eyepieces and directs the light path from the objective lenses to the observer's eyes or a camera.
    3. Arm: In microscopy, the "arm" typically refers to the structural backbone of a standard microscope.
    4. Coarse Focus: Serves the essential function of rapidly adjusting the focus of the microscope's objective lens in larger increments, to bring the specimen into a rough focus range. It helps researchers and students locate the specimen on the slide and get it roughly in focus before fine-tuning the focus using the fine adjustment knob.
    5. Fine Focus: While the coarse adjustment knob facilitates initial focusing by rapidly moving the objective lens closer to or farther away from the specimen, the fine adjustment knob serves a more refined purpose. Its primary function is to fine-tune the focus of the microscope to achieve optimal clarity and detail. The fine objective knob may be used with all objective lenses.
    6. Stage Control Knob: Allows precise X-Y positioning of a slide, enabling users to scan specimens horizontally and vertically. Typically located below the stage on the side, one knob manages front-to-back movement while the other manages side-to-side, centering the specimen for optimal viewing.
    7. Nosepiece: This is the disc-like part that holds two or more objective lenses and can be rotated to easily change power.
    8. Objective Lenses: The critical optical component closest to the specimen, responsible for primary magnification and image resolution. It gathers light from the specimen to create a magnified real image, typically ranging from 4 times to 100 times magnification, including specialized oil-immersion lens for high resolution imaging. The microscopes are parfocal, meaning that after you adjust the focus or change the objective, the image will remain in view.
      • Scanning objective: This lens magnifies four times ; it's used to center the object in the field of view. You will not be drawing at this lowest power, but it serves to orient your slide initially. This is the only objective with which you should use the coarse focus knob.
      • Low power objective: This lens magnifies ten times (total magnification = ocular X objective = 10 X 10 = 100 times total magnification). Focus with the coarse adjustment knob on scanning power first, then move the nosepiece so that the low power objective is in place.
      • High power objective: This lens magnifies 40 times (total magnification is 400 times). Use this objective only after centering an object with the low power objective. You should only use the fine focus knob when this objective is in place.
    9. Stage Clip: Small metallic clip used to secure specimens to a microscope stage.
    10. Stage: The surface or platform on which you place the microscope slide is the stage. Note the opening (stage aperture) in the center of the stage. A mechanical stage allows you to move the slide horizontally and vertically.
    11. Iris Diaphragm: regulates the amount of light passing from the light source through the specimen and through the lens system of the microscope. The lever that projects from the side of the diaphragm opens and closes these plates, thereby regulating the amount of light.
    12. Condenser Lens: The condenser consists of a series of lenses that focus light onto the specimen. It is moved up and down by a knob at its side or by a lever projecting from the condenser housing. By properly adjusting the condenser, you can greatly improve the clarity of the specimen. A filter holder may be attached to the bottom of the condenser. It usually contains a blue filter.
    13. Light Source (Illuminator): An illuminator, is the light source built into the base of the microscope and controlled by an on/off switch. You can control the amount of light entering the specimen by adjusting the diaphragm.
    14. Base: The bottom portion of the microscope and the only part that touches the tabletop. When carrying the microscope, the upper part of the stand (the arm) is held by one hand and the other hand should be placed under the base to support the microscope's weight.

    Resolution vs. Magnification

    Two parameters are especially important in microscopy: magnification and resolution.

    • Magnification measures how much larger a microscope (or set of lenses within a microscope) causes an object to appear. For instance, the light microscopes typically used in high schools and colleges magnify up to about 400 times actual size. So, something that was 1 mm wide in real life would be 400 mm wide in the microscope image.
    • The resolution of a microscope or lens is the smallest distance by which two points can be separated and still be distinguished as separate objects. The smaller this value, the higher the resolving power of the microscope and the better the clarity and detail of the image. If two bacterial cells were very close together on a slide, they might look like a single, blurry dot on a microscope with low resolving power, but could be told apart as separate on a microscope with high resolving power. The smaller the wavelength of light, the better the resolving power. Resolving power is also impacted by the numerical aperture of the objective lens that is being used to magnify the specimen.

    Parfocal Lenses

    Our microscopes are parfocal. What does this mean? Once you have focused on any of the objectives (we always start with 4 times), the other objectives will also be (mostly) in focus. You do not need to make major focus adjustments after changing objectives - usually the fine focus knob can be used to make small adjustments and obtain a crisp, clear image. In fact, you should never use the coarse focus once you've obtained an in-focus image using the 4 times objective.

    Microscope Care

    1. Always carry the microscope upright and use two hands. Place one hand on the arm of the scope and support the base with the other. Our individual and joint responsibility is to ensure that the microscopes remain in good working condition.
    2. Be gentle. Sliding the microscope on the table could jar lenses and other parts loose. The microscope seems like a simple instrument, but each lens (eyepiece and objective) is actually made up of several other lenses; jerky movements may mis align lenses.
    3. Always use clean hands when handling your microscope. Do not touch the lenses with your fingers, and do not remove any of them.
    4. Use only lens paper and lens cleaner to clean all of the lenses (not Kleenex, Kimwipes, or cloth). Clean lenses regularly and oculars when they are dirty.
    5. Never let an objective lens touch the glass slide. If you lose the image, go back to the scanning lens (4 times) or 10 times objective and refocus.

    On completion of the laboratory exercise, return the microscope to its cabinet in its original condition. The following steps are recommended:

    1. Clean all lenses with dry, clean lens paper. If necessary, use a drop of lens cleaning fluid.
    2. Place the low-power objective in position and close the stage and objectives together.
    3. Center the mechanical stage.
    4. Coil the electric wire around the body tube and the stage.
    5. Carry the microscope to its position in its cabinet as described above.

    This page titled 3.1: Background Information was last modified on Tue, 01 Sep 2026 01:45:33 GMT and is shared under a CC BY-NC 4.0 license and was authored, remixed, and/or curated by Lakshmikanta Sengupta and Susmita Sengupta.