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Biological Monitoring

Biological monitoring can inexpensively screen for problems that are not specifically tested for using common chemical kits. The presence of heavy metals, pesticides, herbicides, and other toxins in a stream may be indicated by a lack of biodiversity in a stream. Since certain organisms can tolerate more pollution than others, the greater the variety of organisms - the better the water quality. Biological monitoring can also indicate the presence of problems that extend over time.

The organisms that live in a stream are affected by the quality of the water in the stream. Some aquatic organisms, such as fish and frogs, can leave a polluted stretch of a stream; other organisms cannot. The organisms that cannot leave can be viewed as indicator organisms. Some pollutants are only in the water for a short period of time before they dilute out or wash downstream. These short term events might not show up in testing but they can have a dramatic impact on the organisms living in the stream. The presence of indicator organisms tells us a history of water quality in the stream.

Benthic macro-invertebrates are good indicator organisms and can be used to determine the health of a stream. Benthic means bottom dwelling, macro means large enough to be seen, and invertebrate means an animal without a backbone. Most benthic macro-invertebrates are aquatic insects or the aquatic stages of insects. Examples include stonefly nymphs, mayfly nymphs, caddisfly larvae, dragonfly nymphs, and midge larvae. Also benthic macro-invertebrates include such things as mollusks, crustaceans and worms.

Benthic macro-invertebrates are good indicator organisms because:

  • they are sensitive to physical and chemical changes in their habitat.
  • they cannot easily escape pollution in their environment, and
  • they are easily collected and classified.

Biological Monitoring Research Methodology

At your sampling site, measure a 200’ segment that contains the riffle habitat, from which the sample will be collected.
  1. Conduct physical survey for this 200’ segment.

    1. Date:_____________________ Collector:___________________________
    2. Stream Name:________________________(city and/or county):___________________
    3. Landmarks and Description of Sampling Site:
    4. The sampling site is in (habitat type i.e. woods, meadow, yard, etc.):
    5. Weather Conditions This Date:
    6. Temperature of the Stream (Degrees Celsius or Fahrenheit):
    7. Width of Stream at Sampling Site (meter.centimeter):
    8. Depth of Stream Center at Sampling Site (meters.centimeter):
    9. Stream Flow: Swift    Moderate    Slow
    10. Are there fish in the stream? Yes    No
    11. Are there plants in the water? Yes    No
    12. Plants on stream bank: Trees   Grasses   Flowers    Shrubs     None
    13. The water is: Clear    Muddy    Cloudy     Oily
    14. Additional Observations:


  2. Wade to the first general collection area, choose the first specific collection spot to place the net, and get into position.

  3. Have 1 person place and hold the net, facing upstream, on the river bottom at the collection spot.

  4. Have another person dislodge the organisms from a rectangular area of the stream bottom as wide as the net and 1 foot back from the opening so that the organisms are carried into the net. Pick up and rub and/or brush off the rocks and dig into the river bottom. First, pick up the larger rocks in the rectangle upstream of the net and, holding them inside the net, vigorously rub them all over with your hands to dislodge organisms clinging to the surface. If you have a sieve bucket, place rocks in the bucket to rub them more thoroughly with a brush. If you don’t have a sieve bucket, be thorough with your hand rubbing. Place rocks aside when finished rubbing. When you’ve rubbed off all the rocks and placed them aside or in a sieve bucket, use your feet or a hand trowel to dig down as far as possible into the river bottom in the same rectangular area to dislodge burrowing organisms. If you find any more rocks, treat them as in the step above.

  5. Place the first sample in a large white tub with a few inches of water (enough to cover all the items in your sample). If you have a large amount of debris, you might shake each piece thoroughly under the water to dislodge the organisms, and then remove the debris from the tray.

  6. Collect an assortment of the organisms you find and sort them in white ice cube trays or petri dishes.

  7. Once you have have picked the entire sample, review the sorting that you have done and organize the categories more accurately.

  8. Identify and sort organisms in your sample to the order / major group level. The Stream Study provides a method to determine the water quality of a stream based on the collection and identification of stream-bottom macroinvertebrates. The Stream study also provides a useful IDENTIFICATION KEY for common stream-bottom macroinvertebrates. Another Identification key can be found at this New York State site. Identify the Macroinvertebrates found at the stream sampling site using the form below, and put the number of each type in the box beside the name of each type you find. Count how many you have of each type and record the total on the appropriate line.

  9. Try using the "Bug Card" to confirm identification and placement. For taxa not pictured, make up your own description (e.g. furry-gilled, mottled color, etc.) and write it in the “other” box for the appropriate order.

  10. Repeat steps to analyze the second (replicate) sample.

  11. Record your counts on the Data Reporting Sheet below.

Assessing the Stream's Health


  1. Enter the presence (check mark) of each type of macroinvertebrates you found in your sample in the appropriate blanks below below.


    Very Sensitive to Pollution Stonefly _____
    Mayfly _____
    Caddisfly _____
    Riffle Beetle _____
    Water Penny _____
    Planarian_____
    Gilled Snail_____
    Dobsonfly _____


    Somewhat Sensitive to Pollution Crayfish _____
    Sowbug _____
    Scud _____
    Alderfly _____
    Crane Fly _____
    Fishfly _____
    Aquatic Beetle _____
    Dragonfly _____
    Clam or Mussel_____
    Damselfly _____
    Watersnipe Fly _____
    Whirligig _____


    Not Sensitive to Pollution Aquatic Worm _____
    Midge Fly _____
    Leech _____
    Lunged Snail _____
    Black Fly _____

  2. Enter how many different sensitivity types (not the number of each type) of macroinvertebrates you checked in each sensitivity group below.

  3. Multiply by the number in the table to get a group score.

  4. Add the three group scores.

  5. Look at the total score and circle the correct rating.
    Sensitivity GroupsNumber of TypesScoring Value Group Score
    Very Sensitive  3= 
    SomewSomewhatitive 2= 
    Not Sensitive 1= 
       Total Score= 

    ExcellentGood FairPoor
    (23 or more)(17 - 22) (11 - 16)(10 or less)


1996-2009 PathFinder Science
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