Thursday, May 15, 2014

Update: Day 4

Today we ran our first RIDASCREEN ELISA on the beer samples from days 1-3. Based on the results so far, the ClarityFerm is working very well as the beer with added ClarityFerm has much less gluten than the controls. One of the 3 steps with Clarity ferm from the second day of fermentation was even below the limit of detectability of the kit, and most are at or beneath the 20 ppm required for something to be considered "gluten free." At this point, however, it's hard to tell whether the single step or 3 step mash will be more effective at breaking down the gliadin, but it does seem that it is decreasing over time.

A few of the carboys began to ferment up into the airlocks again (see the picture below), so we cleaned them out. As can be seen in the same picture, the single step mash carboys (on the right) seem to be fermenting much more quickly and violently than the 3 step mash (on the left). Only time will tell whether this will have an effect or not.

All carboys for the Sierra Nevada Stout clone out for analysis. The 3 step mash is in the carboys on the left, and the single step mash is in those on the right side.
Below are a few pictures giving a brief outline of the process required for the RIDASCREEN ELISA.
The assay proceeds as follows:
  • Add 1 mL of sample to be analyzed to 9 mL of 60% EtOH and 10% fish gelatin
  • Vortex samples for 30s each
  •  Rotate for 10 minutes at 250 RPM
  • Centrifuge at 2500g for 10 minutes
  • Dilute 20 µL sample with 980 µL of diluent (diluent diluted from provided concentrate)
  • Pipette 50 µL sample and standards into individual wells in a 96 well plate. Do in duplicate.
  • Add 50 µL antibody enzyme conjugate to each well and incubate on rocker for 30 min
  • Drain wells, add 250 µL wash buffer to each well, drain. (Repeat 3 times)
  • Add 100 µL substrate/chromagen to each well. Incubate in dark for 10 min
  • Add 100 µL stop reagent to each well
  • Read using microtiter plate spectophotometer set to 450 nm within 10 min

Wells with antibody enzyme conjugate added
Plate with wash buffer added
Plate with substrate/chromagen added. Prior to incubation.
Plate with substrate/chromagen after incubation.
Plate after stop reagent has been added.
Plate in the microtiter plate reader.
Matt hard at work pipetting.
Hopefully things will continue to go as expected, and, if they do, we'll end up with some awesome gluten free beer when all is said and done. We plan to run another assay in a few days to check on the progress. We'll post updates as they come.

Wednesday, May 14, 2014

Update: Day 1-3

Day 1
Today we performed the three-step mash and brewing of the Sierra Nevada Stout clone. Not much of note happened other than a lot of getting used to the procedure. The original gravity is a little bit less than we were shooting for, but we don't want to manipulate it to avoid any adverse effects on our future analyses.

After the boil, we racked into 6 one gallon carboys for fermentation. 2 mL of ClarityFerm was added to three of these carboys. We placed them in a water bath in order to be able to easily maintain the proper temperature throughout fermentation. Some of the wort was set aside for analysis in a few days.

Day 2
Today we brewed the single-step mash of the Sierra Nevada Stout clone. I actually remembered to take pictures today which are below. Things went much more smoothly today, and I was able to work mostly on my own due to fewer mash steps and having experience from yesterday.
Carboys with sanitizer added


Draining the mash tun
Grain during the mash
Dr. Hamilton with the mash tun
We needed a lot of heat to get to a boil, so we used two hot plates and an immersion heater.
Draining into another pot to aerate and normalize the trub.
Like yesterday we added ClarityFerm to three of the six carboys and placed them in a water bath. We were able to see some krausen on two of the 3-step carboys. Hopefully we'll see more tomorrow.

Day 3
Today involved taking samples and prepping for the first assay tomorrow. We began to see a lot more krausen on the top of the carboys. One even began to ferment up into the airlock (see below), so it was cleaned out and placed back in the water bath.

The preparation for the assays was pretty messy. The fish gelatin was incredibly viscous (thick honey times three) and began to coagulate when ethanol was added to it. Thankfully, after vortexing, shaking, and centrifuging, everything seems to be in order. Everything is waiting in the fridge for analysis tomorrow.
One of our fermentation water baths with three of the carboys. Note the krausen beginning to form.

Sample with ClarityFerm on the left verses none added on the right. These are the most extreme examples of each. Notice how the krausen filled the airlock on the control.







Who are we?

My name is Matthew Drogowski. I just finished my junior year as a biochemistry major and psychology minor at Hillsdale College. I'm happy to be a part of the LAUREATES (Laboratory for Advanced Undergraduate Research Education Adapted for Talented and Extraordinary Students) program at Hillsdale this summer. The LAUREATES program will fund my research as well as provide me with a stipend throughout the six week summer program. To be a part of this program one must write a thesis and present their research the following spring during a poster presentation.

I grew up in Cheboygan, Michigan and absolutely love it there, even the winters. My parents are Mark and Ann-Laurie. I have two younger brothers, Michael and David. They're fantastic people that I love to be around.

I am currently in the process of putting together my applications for medical school. I hope to submit them close to the earliest day possible (in the beginning of June). I don't necessarily know what I'd like to specialize in, if at all, but I have found medicine to be interesting for as long as I can remember. I look forward to the new opportunities and challenges that a career in medicine will present.

I work with Dr. Christopher Hamilton. He is an associate professor of chemistry at Hillsdale College and the current preprofessional advisor. Dr. Hamilton has a passion for homebrewing and biochemistry making him the perfect research advisor for my project. His students have done projects similar to mine in the past, and what I plan to do will build on their findings. When I first saw a research poster in the hall relating to this area of research, I came to Dr. Hamilton and asked to work with him. Thankfully, he has allowed me to do so. Thus far it has been a great experience. I have high hopes that it will continue to be one.

The purpose of this blog is to keep those interested updated on my research. I'll try to keep it up to date and add new information when available. Please feel free to ask questions if you have any at all.

Introduction to Our Research

Beer has existed for centuries and has been enjoyed by countless individuals. There are even some who argue that without beer, civilizations would not have developed as they did. Unfortunately, beer contains wheat, and therefore gluten, which means that those with celiac disease or gluten intolerance cannot consume most beers without experiencing some sort of adverse reaction. Though there are a few gluten free beers on the market, their taste is often sub-par and leaves something to be desired. There are few words which can describe the enjoyment one can derive from a glass of a perfectly crafted beer, and it is the purpose of this research to bring this joy back to individuals with celiac disease and gluten intolerance.

When gluten is digested by the body, it breaks down into a few different molecules, one of which is a polypeptide known as gliadin. Due to the structure of gliadin, it cannot be digested by normal gastrointestinal enzymes, so it passes to the intestines intact. Once in the intestines, it begins to aggregate and clump due to the fact that it has not been broken down. In a normal individual, there are no adverse reactions to the gliadin molecules. However, in an individual with celiac disease, this aggregation of gliadin and hordein (the barley homolog) causes an autoimmune response which damages or villi, meaning that nutrients which would usually be absorbed by the body cannot be absorbed. Therefore, those with celiac disease who consume gluten containing products are at severe risk for malnourishment, even if it seems as if they are eating a balanced diet. The number of gluten free products is certainly on the rise at the moment, though their taste is not always on par with their gluten containing products. This fact is truly unfortunate for those with celiac disease and is the subject of much research at present.

As mentioned above, gliadin is one of the major components of gluten and the part which those with celiac disease have problems digesting. Gliadin is very rich in proline residues, which makes the peptide bonds more difficult to break down due to their cyclic nature. A class of enzymes, known as prolyl endopeptidases, cleaves the C-terminus of proline residues. They belong to the class of serine proteases and consist of a catalytic domain analogous to chymotrypsin (Histidine, Aspartate, Serine) and possess a beta-propeller domain.

Prolyl endopeptidases could be used in treatment of celiac disease as they would help to break down the proline rich gliadin thereby eliminating the autoimmune response to the aggregated gliadin. Currently, there is no pharmaceutical prolyl endopeptidase available, but there is a great amount of research underway to produce one. White Labs produces a commercial prolyl endopeptidase called Clarity-Ferm which is used to a large extent in research of celiac disease and gliadin breakdown.

Beer has four main ingredients: water, hops, yeast, and grain. There are also other adjuncts used, but those vary greatly between styles. The first three present no problems to those with celiac disease, but, due to the presence of gliadin or hordein, the grains (barley and wheat) cause concern. Without the grains, the enzymes that cause fermentation are not present and there is no sugar to ferment. Essentially, without grain, beer cannot truly be produced. This poses an issue as it means that almost all beer is unsafe for those with celiac disease to consume. However, if all the excess gliadins were to be broken down during or after fermentation, the beer could be safe for consumption.

In order to brew beer, one of the necessary steps is the mash. This process involves the mixing of the grains with warm (or hot) water to activate the enzymes contained within the grains. A major class of enzymes which becomes activated in this process are the amylases. In beer, α-amylase and β-amylase play the major roles in the breakdown of the starch to form the fermentation products and, eventually, the alcohol. Most enzymes have an optimum temperature at which they become most active, which is usually not problematic. α-amylase and β-amylase, however, ideally operate at different temperatures. This presents a problem to breweries as they would like both enzymes to be operating as efficiently as possible. A few different methods have been devised over the years to confront this issue.

Traditionally, brewers tend to split the difference of the ideal operating temperatures for α-amylase and β-amylase resulting in a mash temperature of roughly 66-67°C. This method, referred to as a single-step mash, is by far the most common and produces beer which is very good.  Another process, referred to as a step mash, operates under the premise that the enzymes need to spend time at their optimal temperatures. The mash is started at approximately 49 °C to activate the proteases. The mash is raised to about 62°C to properly activate β -amylase, and is increased to around 67°C for α-amylase. Though this small temperature change may not seem like much, it is enough to change certain flavor characteristics of the beer.  There is also a possibility that the step mash could make a prolyl endopeptidase more effective at degrading gliadin, hence its focus in this research.

One of the goals of the proposed research is to study whether a single-step mash or a multi-step mash is more effective at producing a gluten free beer after adding the prolyl endopeptidase. Due to the different temperatures found in the multi-step mash, it is known that activity of the amylases increases, but the effect the increased amylase activity will have on the prolyl endopeptidase is unknown. Theoretically, since the amylases are more effective at hydrolysis of sugars, the prolyl endopeptidases are expected to be more efficient. For both beers that will be brewed, the single-step mash will be held at 66 °C for the entire process (about 60 minutes). The multi-step mash will start at 49 °C for about 20 minutes. The temperature will be increased to 62 °C then to 67 °C with the two steps taking 30 minutes each. In both cases, the mashout will take place at 77 °C.

The first beer to be brewed will be a clone of a Sierra Nevada Stout.  This beer will contain 4.1 kg of American pale malt, 1.4 kg of Munich malt, 0.45 kg of American Black Patent malt, and 0.30 kg of American crystal malt (60 °L) mashed for a total of 60 minutes. The presence of the Black Patent and crystal malt contributes largely to the darkness of this beer. After the mash, the wort will be drained and boiled.  14 AAU (alpha acid units) of Magnum hops will be added at the beginning of the boil, 5.8 AAU of Cascade hops will be added with 10 minutes left in the boil, and 10 AAU of Willamette hops will be added at the end of the boil. Wyeast 1056 yeast will be used for fermentation. Primary fermentation will occur at 20 °C for approximately three weeks. After the three week period, some of the beer will be bottled with corn sugar added to facilitate carbonation while some will be set aside and left uncarbonated.

The second beer to be brewed while the first is carbonating is a clone of Bell’s Oberon, an American Wheat Ale. The mash for this beer will proceed via the same method as the first, but will contain 5.4 kg of 2-row brewer’s malt, 3.6 kg of white malt, and 0.50 kg of Carapils grain.  The mash will occur for a total of 60 minutes. The boil of the wort will occur for 60 minutes and 8 AAU of Saaz hops will be added with 30 minutes remaining and again with 15 minutes remaining. Fermentation will occur at 20 °C for three weeks and use an American Wheat Ale yeast, likely Wyeast 1010. The beer will be dry-hopped for five days post-fermentation with 11 AAU of Cascade hops 4 AAU of Saaz hops.  After dry-hopping, some beer will be bottled and some will be set aside.

This research will mainly use White Labs commercial prolyl endopeptidase, Clarity-Ferm, to degrade the gliadin in beer while it is fermenting. Alongside this batch, a control will also be run to ensure that it is indeed the Clarity-Ferm breaking down the gliadin. Brittany Hulett, a former research student of Dr. Hamilton, determined that 2 mL of enzyme added to one gallon of beer was sufficient, so that amount will be used in this project. Due to the high levels of wheat used in the Oberon clone, another batch with 4 mL of enzyme added will also be created.  All batches will be done in triplicate to ensure consistency of results.

From mash to bottling, the brew process usually takes about three weeks.  During this period of fermentation, every batch will be tested daily for gliadin levels. Testing this often will allow for a more accurate determination of the activity of the prolyl endopeptidase and whether or not it is performing as expected over time. The wheat ale contains much more gliadin than a normal beer and will therefore be a good marker for whether or not the addition of prolyl endopeptidase to a beer is commercially viable across styles. Once the beer is finished carbonating in the bottles, a blind tasting panel will be selected to determine the difference in taste, if any, between the different samples and brew methods .

In order to test the effectiveness of the prolyl endopeptidases, a RIDASCREEN Gliadin Competitive test kit will be used to detect the presence, or absence, of gliadin. This test is an ELISA (enzyme-linked immunosorbent assay) which utilizes an R5 antibody. The test looks for gliadin fragments which can be harmful to those with celiac disease. Ideally, this test will show that the control contains moderate to high levels of gliadin, while the beer with added prolyl endopeptidase will have little to no gliadin present.

The goal of this research is to find the best method for producing a gluten-free American stout and American wheat ale through adjustment of a few variables. The single-step mash verses the multi-step mash will be the largest of the variables manipulated. The results of the research will be obtained through usage of a RIDASCREEN test kit and blind taste tests by a randomly chosen panel. If successful, the process could be implemented commercially and provide enjoyment to those with celiac disease and gluten intolerance.