This is how I did it: measuring soil respiration in the field

By Jenny Soong


Soils respire CO2 through the decomposition of soil organic matter and root activity.  That CO2 movement from the soil to the atmosphere is an important part of the global carbon cycle, which keeps life on earth in balance and regulates our climate.

Measuring soil respiration in the field isn’t too difficult, but it does require some careful consideration of soil processes, and how your measurements may interfere with them.  The basic concept is this: CO2 is produced in the soil through decomposition and root respiration.  Therefore, there is a high concentration of CO2 in the soil, which diffuses out through the tortuous soil pore pathways, and into the atmosphere.  What you’re really measuring is that diffusion, or flux rate.

Here are just a few tips of the trade I’ve picked up over the past four years of using dynamic soil chamber measurements to measure soil respiration…


1)    Chambers

Many different types of soil chambers can be used to measure soil respiration.  I have the most experience with the Licor LI-8100.  It’s my workhorse.  It’s probably the top-of-the-line gadget for soil respiration geeks like me.  It has an automated chamber connected to a field-sturdy infrared gas analyzer (IRGA) that measures CO2 concentrations continuously in the field.  The main reason it trumps other analyzers is because of its pressure-equilibrating saucer on top and a small internal mixing fan.  These two things help to ensure that you aren’t changing the pressure conditions inside the chamber, which could alter the diffusion of CO2 out of the soil.

PVC collars at my experimental site in the Konza Prairie, Kansas.

PVC collars at my experimental site in the Konza Prairie, Kansas.

2)    Use collars!

Soil collars are short sections of PVC plumbing pipe that are beveled at one end to slice into the soil to create an airtight seal between the soil and your chamber.  Without the soil collar, CO2 from under your chamber could easily leak out the sides of your plot causing an underestimation of the CO2 flux.  Install your soil collars at least 24 hours before taking your soil respiration measurements to allow the soil to settle back in around the collar (the initial disturbance of the soil can cause CO2 fluctuations).  I typically install my collars to 2-5 cm deep depending on the soil system I’m working in.

A LiCOR progression plot of CO2 over time, with the dead band in the lefthand section of the plot

A LiCOR progression plot of CO2 over time, with the dead band in the lefthand section of the plot

3)    The dead band

The dead band occurs in the first few seconds after the chamber closes down on the collar.  The closing of the chamber causes an initial pressure disturbance to your system, which disturbs the CO2 flux rate.  I recommend throwing out those first few seconds of data and using the flux rate estimate after the diffusion rate re-equilibrates.

4)    Your breathBreath

You respire CO2 too!  Take care when taking chamber measurements to not breathe directly into your chamber as it is closing.  I check for this by taking note of the atmospheric concentration of CO2 and making sure that all of my readings start at about that level.

5)    Air tight seal

The whole point of installing the collar is to ensure that there is an airtight seal between the chamber and the soil.  This ensures that you capture all of the CO2 diffusing out of the soil for an accurate soil respiration measurement.  When you move your soil chamber from collar to collar, make sure that it fits tightly onto the collars for each measurement.


The LiCor chamber is seated and sealed on top of one of our collars.

6)    Length of chamber closure

The LI-8100 is a closed system, meaning that that the CO2 that is produced in the system while the chamber is closed accumulates in the chamber.  Make sure that your chamber is not closed too long, which causes a large increase in the CO2 concentration within the chamber and could affect the rate of CO2 diffusion from the soil.  I typically use 2 minute chamber observations.

Homemade soil respiration chamber by Prof. Alessandro Peressotti

Homemade soil respiration chamber by Prof. Alessandro Peressotti

7)    Other types of chambers and analyzers

Many other types of chambers and soil respiration systems exist, other than the LI-8100.  Papers have been written about the pros and cons of these systems.  You can even build your own soil respiration chambers out of salad bowls and salad saucers (ask Dr. Joe von Fischer)!  Laser spectroscopy is a new alternative to IRGAs in the field (check out the Picarro and Los Gatos systems).  However, always remember to take into consideration the disturbance and pressure differentials that may affect the diffusion gradient you’re measuring.

This was just a very brief description of some key points I have learned about taking chamber based soil respiration measurements over the past few years, and a huge body of scientific literature exists on the topic (i.e. here, here, here, here, here, here, here).  Please feel free to ask any questions or share more insight!

Jenny with collars


  1. Erika

    Thanks for sharing Jenny! This is an excellent introduction to soil respiration measurements. Your article will be an excellent tool to give people a little background before starting to help in the field. The Kutzbach et al. article was interesting about using non-linear regression to ensure accurate flux calculations. I would like to look into what equations other researchers have used. A 40% difference from exponential to linear equations seems like quite a lot for a two minute measurement. I appreciate you including all of those papers, now I have a solid jumping off point to continue my research on soil respiration.

  2. Ian Hers

    Jenny wonderful description, thank you! I was wondering if you have developed guidance on insertion depth for the collar in relation to soil type. We have a site with very coarse soils where it is difficult to install collar. We are considering whether we should seal the soil surface around the collar with plastic or other means. But at same time we don’t want to bias flux high by sealing off the soil beside the chamber. Thanks!

  3. Hi Ian. Thanks for your comment. I haven’t worked with any other sealing devices other than deeper collar insertion. You could try a flexible PVC skirt around the collar to better seal the soil surface. However, it’s true that you don’t want to seal too large of an area and block CO2 diffusion near your collar. Inserting the collar deeper will cut more fine roots, but I don’t know if that’s a major concern in your sandy soils. One thing I have started doing is measuring the collar height at every sampling date. I’ve noticed they do move a bit over time and this will affect your flux calculation. Please let me know if you find a good solution!

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