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Update on sample processing: the water samples have been filtered using sterile filters. The filters containing the microbes are being processed to extract the DNA of the microbial assemblages.

 

Soon we will be sequencing these samples to delineate the microbial composition of the water samples obtained from both sampling stations: upstream, where the creek enters the university, and downtream, when it exits it.

 

We will keep you posted.

 

JP et al.

 

Congratulations to y'all 60 girls and guys who participated yesterday in the II Waller Creek Microbiome study! The sampling event was a success and we got 16 samples, 8 per station along the day. As you know, we measured dissolved oxygen, temperature, pH, conductivity, alkalinity and nitrate. Today we have finished measuring Turbidity and indicator bacteria: E. coli, Coliforms and Enterococci in the lab. Results to come! The phosphorous analyses are undergoing too. 

We have also filtered the water samples to retain the microorganisms in a 0.2um filter for extracting their DNA tomorrow.

We have collected all your responses and I will be curating them with your on site written forms.

I will keep you posted on the advances. I hope to have all the data collected for this Friday so you can continue your projects.

Thanks to all of you who have been tweeting for the project, checking the blog and checking the UTBiome-facebook website.

This sampling event was successful thanks to your effort and the hard work of the Waller Creek UTBiome team: Felipe, Sungwoo, Fernando, Shahana, Jaime, Curtis, Emma, Sarah, Andrea, Sofie, Michal, Harish and many others who have provided ideas and materials.

Thanks!

 

JP.

I leave you with a pict of oxygen bubbles that were being generated by algae. It was impressive to see the massive gas production in the midday hours.

 

Hi Junior researchers!

 

The kits are ready for Monday thanks to our wonderful UTBiome team and collaborators (Michal, Emma, Harish, Sarah...)

The weather is good for Monday so far. Please stay tuned for any changes that may happen.

 

Remember:

-Download the apps for reading the QRCode and coordinates.

-Like the Facebook UTBiome page, follow the twitter @UTBiome account. 

-Do not come with shorts or flip-flops.

 

Thanks! See y'all on Monday! 

 

 

 

Hi junior researchers!

 

I just wanted to tell you that we are organizing the groups with the information you provided in the survey. Thanks for participating. We will have the shifts by Thursday 5pm so you know your schedule. 

 

We will post the groups in Blackboard. Please pay attention to the blog, UTBiome facebook page, and/or Twitter @utbiome for updates.

 

Thanks again,

 

JP.

 Please check out the Colorado River Network Website. It will be useful for your projects. Here a summary of their last Volume Publication. The link to the website is: http://www.lcra.org/water/quality/colorado-river-watch-network/pages/default.aspx

 

Surface Water Quality Standards to Protect Contact Recreation

By David Cowan, LCRA Clean Rivers Program coordinator

Prior to the 1972 Clean Water Act and the development of surface water quality standards, it was not uncommon to find sewage pipes discharging poorly treated – or untreated – effluent into water bodies used for recreation. Today, surface water quality standards help limit the amount of pollutants in the nation's waterways and provide a science-based foundation to protect designated uses, such as contact recreation.

The Texas Commission on Environmental Quality (TCEQ) and its predecessor agencies worked with the U.S. Environmental Protection Agency (EPA) to develop the Texas Surface Water Quality Standards over the past four decades. The water quality standards have helped regulate permitted discharges and improve water quality in the state, but they are neither perfect, nor set in stone. The standards are continually being updated as new information and technology becomes available, new pollutant concerns arise and new expectations are set.


Youth and LCRA staff explore Gilleland Creek in Pflugerville.

Contact Recreation
One recent update changed how the state protects water recreation activities, termed "contact recreation" in the Texas Surface Water Quality Standards. The contact recreation standards originally established by TCEQ set a "one size fits all" criterion to protect contact recreation. The criterion for freshwater of 126 colonies ofE. coli per 100 milliliters (mL) of water applied to most perennial freshwater bodies, regardless of size, depth, flow rate or "swimability" (the ability to put one's head under water or ingest water). For example, Waller Creek, which flows through downtown Austin and offers very few recreational opportunities, was afforded the same protection as Lake Travis, which supports thousands of water recreationalists each year.

1.     Primary Contact Recreation (PCR): This is the most stringent category and applies to water bodies where ingestion is likely to occur. Examples of PCR include swimming, water skiing and diving. The freshwater criterion for PCR is a geometric mean of 126 colonies E. coli/100 mL. This is the same criterion TCEQ historically applied to most freshwater bodies in the state.

2.     Secondary Contact Recreation 1 (SCR1): Applies to water bodies where water recreation can occur, but the nature of the recreation does not involve a significant risk of ingestion. Examples include fishing and non-whitewater boating like motor boating. The freshwater criterion for SCR1 is a geometric mean of 630 colonies E. coli/100 mL.

3.     Secondary Contact Recreation 2 (SCR2): Applies to water bodies where water recreation activities do not involve a significant risk of water ingestion and where activities occur less frequently than for Secondary Contact Recreation 1 due to physical characteristics of the water body or limited public access. The freshwater criterion for SCR 2 is a geometric mean of 1,030 colonies E. coli/100 mL.

4.     Noncontact Recreation (NCR): Applies to water bodies such as the Houston Ship Channel, where primary and secondary contact activities should not occur due to unsafe conditions (like barge traffic). The freshwater criterion for NCR is a geometric mean of 2,060 colonies E. coli/100 mL.

How the categories protect water quality
Every two years, TCEQ assesses data collected from Texas lakes and streams to determine if Texas Surface Water Quality Standards are being met. When making that determination for contact recreation, TCEQ presumes that all Texas water bodies are used for primary contract recreation, unless specifically designated otherwise. This presumption applies the most protective freshwater criterion (126 colonies E. coli /100 mL).

If TCEQ finds a water body does not meet contact recreation standards, it may perform a recreational use attainability analysis to determine if the standard is appropriate. This special study helps determine the level of contact recreation that occurs within a water body and measures the physical characteristics that affect recreation, such as water depth and availability of public access. If appropriate, TCEQ may adopt a revised site-specific contact recreation standard as a result of the study findings. If a change to the standard is not warranted and current water quality data indicate the criterion is being violated, the assimilative capacity of the water body and sources of bacteria must be determined. This is usually accomplished through management measures such as a Total Maximum Daily Load or a Watershed Protection Plan.


Colorado River Watch Network volunteers Lenny Blumberg (pictured) and wife Donna collect E. coli samples on Walnut Creek.

2014 Revisions to the Texas Surface Water Quality Standards

On Feb. 12, 2014, TCEQ commissioners adopted the latest revisions to the Texas Surface Water Quality Standards. One of the revisions included the addition of a Primary Contact Recreation 2 (PCR2) category. If approved by EPA, PCR2 will establish a freshwater criterion of 206 colonies E. coli/100 mL of water for some water bodies where primary contact recreation activities take place, but occur on a less frequent basis due to physical characteristics of the water body or limited public access.

Contact recreation is a small but important part of the water quality standards. For more information about the standards, including the latest revisions, visitwww.tceq.texas.gov/waterquality/standards.

 

UPCOMING EVENTS

Water Well Checkup
Wednesday, April 9
Southwest Travis County and northern Hays County

The Barton Springs/Edwards Aquifer Conservation District is working with The Texas Well Owner Network to provide a free water well screening day for area residents on Apr. 9, 2014. Well owners must pre-register to get sampling supplies and instructions. Samples will be analyzed for nitrates, bacteria and salinity. For more information, visit www.bseacd.org/education/well-owners.

Keep Austin Beautiful Clean Sweep
Saturday, April 12
9–11 a.m.
Citywide cleanup at locations all over Austin
Environmental fair and volunteer party begin at 11 a.m.
Fiesta Gardens, 2100 Jesse E. Segovia St.
Austin

Family Water Fest and Colorado River Ramble
Sunday, April 13
9 a.m.–3 p.m.
Fiesta Gardens, 2100 Jesse E. Segovia St.
Austin

Join the Colorado River Alliance and the Expedition School for this great family event on the shores of Lady Bird Lake. The Colorado River Ramble boat race begins at 9 a.m. and the festival runs from 10 a.m. to 3 p.m.

Groundwater to the Gulf registration open
June 23-26
Locations all over Austin

Calling all Central Texas educators! Groundwater to the Gulf is a free educator training workshop that covers a vast array of water resource science topics and issues.

 

 

MONITOR SPOTLIGHT

Inspiring the next generation of water quality stewards: meet Adam Comer
By Jacob Daniel Apodaca, LCRA water quality coordinator

Adam Comer is the program coordinator for the Austin Youth River Watch. He supervises and plans activities during fall and spring semesters for five different high school groups in the Austin Independent School District. He meets with a different group of high school students, known as River Watchers, each weekday after school until 8 pm. He also assists in planning and supervising the Summer Leadership Program, a six-week program focused on water quality testing and developing River Watch leaders or mentors to serve the newer, younger students for the next program year.

Austin Youth River Watchers learn how to test water quality using the Colorado River Watch Network (CRWN) testing protocol and are expected to teach others, including new students and volunteers. On weekends and during spring break, they participate in educational activities that reinforce the principles of water quality and introduce lessons in aquatic ecology, biological monitoring and stream restoration methods.

"Water quality monitoring is the core of our after-school and summer programs," Comer said. "The Program Director and I are committed to testing the water with our students at our 24 CRWN sites in and around the Austin area every month. This provides us with the wonderful opportunity to test water every weekday with the River Watchers.

"I'm in my fifth year of water quality monitoring with the CRWN program, and in that time, I've learned a great deal about not only water quality dynamics in our local streams and the Colorado River, but also the importance of water quantity and conservation in a major growing urban center," he said. "I plan to continue to learn more about stream health and stay engaged with what's happening with the water quality and quantity in our area."


Adam Comer holds a gar (Lepisosteus spp.) to show Austin Youth River Watch students.

Austin Youth River Watch monitoring sites vary, ranging from highly urban channels with copious trash from storm runoff to more rural, slowly meandering sites on the Colorado River with beautiful vistas and an array of wildlife sightings.

Staff and students have been paying particular attention to a stretch of the Colorado River beginning just downstream of Longhorn Dam to Webberville. In the summer of 2011, in the midst of one of the driest years on record, River Watchers routinely found low dissolved oxygen levels of less than 3.0 milligrams/liter under the Montopolis Bridge at Highway 183. KXAN-TV News and other media sources picked up the story, informing a larger audience of the dynamic processes of water quality and quantity in a growing urban center and the importance of regular monitoring to better inform the public and policymakers of issues that arise.

River Watchers have continued to keep watch over that stretch of the Colorado River. This past summer, the river suffered from an inundation of aquatic vegetation, obstructing passage for boaters and creating other annoyances.

"From a water quality standpoint, it is a concern when the vegetative mats collectively die and begin decomposing because it lowers dissolved oxygen levels to dangerous levels for fish and aquatic life," Comer said. "Unfortunately, I feel we may see a similar situation this summer on that stretch of the river."

Water quality monitoring has been a big part of the program for more than 20 years and has provided holistic youth development and support to lead underserved high school students to graduation.

For more information about Austin Youth River Watch, please visit at www.ayrw.org. Austin Youth River Watch invites anyone interested in learning more about the program to attend a one-hour interactive program called River Watch: Next Steps that takes place twice a month. Please visit www.ayrw.org/join-us-for-river-watch-next-steps for more details and upcoming dates.

 

ANNOUNCEMENTS

LCRA Water Quality Advisory Committees
The Colorado River basin Clean Rivers Program recently reorganized the river's watershed into four different stakeholder regions: Upper, Hill Country, Mid-Central, and Lower. These stakeholder regions are referred to as Water Quality Advisory Committees. Annual meetings are held in each region to address local water quality concerns, updates and projects (see recent meeting minutes). If you live, work or enjoy recreation in the Colorado River watershed, then you are a stakeholder for the LCRA Water Quality Advisory Committees. We invite you to get involved with water quality in your basin. Emailcrp@lcra.org to be included in committee correspondence and meeting announcements.

Texas A&M AgriLife Extension Mobile Apps
New iPhone apps have been developed for pond and fish management, calculating livestock stocking rates, and options for controlling feral hogs.

 

IN REMEMBRANCE

John Ahrns was many things to many people—a naturalist, educator, environmental steward, husband, father, friend and all-around outstanding person. In the late 1970s, John was instrumental in establishingWestcave Preserve in western Travis County, where he served as the preserve director and lead educator. In 1996, he began monitoring water quality with the LCRA Colorado River Watch Network (CRWN) program. After retiring from his work at Westcave in 2011, John moved to Fredericksburg, where he continued his water quality monitoring at multiple sites on Baron's Creek. His last CRWN data submittal was on Dec. 11, 2013, and he passed away on Jan. 20, 2014. John was a true inspiration and dear friend who will be greatly missed. Read more about John's life and environmental work.


John Ahrns was an accomplished naturalist and water quality steward who inspired many in his lifetime.

As we mentioned in class last Tuesday, we are getting ready the kits for Monday's sampling event (March 31st). They are composed of:

  • 4 x 50ml falcon tubes for the biosample,
  • 1 x 50ml falcon tube for Alkalinity,
  • 1 x 50ml falcon for Fecal Bacteria Assays,
  • 1 x 50ml falcon tube for Nitrate,
    That is a total of 7x50ml falcon tubes to be filled with water from the creek.

The kits also have:

  • 1 swab for taking biofilm samples with 100ml of a buffer solution,
  • 1 x15ml falcon tube, that will be used to store the swab once the biofilm sample has been taken,
  • A form that:
      • (1) will be scanned with your smartphone and filled up online, and
      • (2) will be filled up by hand in situ.

Remember to download your apps for: QR code scanning and for GPS coordinates.

 

PS: Did anyone take a pict during my part of the lecture? Please contact me if you did. I would like to have picts from that too. E-mail juanpedro.maestre at utexas dot edu. 

 

 

Hi everyone,

 

The UTBiome team is pleased to announce that the II Waller Creek big sampling event will take place on March 31st! More than 60 students from CE341 will be involved.

 

Please fill out the questionnaire for the group time slots assignments by March 20th.

 

Link for the grouping questionnaire: http://tinyurl.com/kp3j2ad (make sure you finish it, that is, you need to be redirected to the UT website after clicking >>, if you are not, click >> until you are)

Stay tuned.

 

JP.

 

 
   

Picture      

Tomorrow Friday January 31st I will be giving a couple of lectures about Microbes and Environment at UT Elementary School for the Science Week. I will be talking about the UTBiome project!

I will post about the experience and the results we get! Two courses of 4th graders will be taking samples! Rob Dunn experience (http://www.yourwildlife.org/2014/01/a-hundred-eager-kids-the-fred-a-olds-soap-biodiversity-project/) has been very inspiring.

Join us!

Time: 9-14.25
Location: 2200 E. 6th St., Austin, TX 78702


http://www.utelementary.org/

Surveys ready!

We want your feedback, we want to do better next time, we want for you students to feel engaged in the project. Please fill the surveys Dr. Kinney and Dr. Kirisits have told you about.

I really appreciate all your contribution to the project: Your sampling effort, your data submission, your interpretations, your interest in the project and your feedback.

I think It was good but, as usually, we can do better. Let us know how.

                Source: www.theatlantic.com

We had a great session today in which the students talked about the indoor sampling we did this semester. I heard very interesting highlights and I am eager to read their reports.

UTBiome success will be the students success. Please, feel free to post here your comments about how to improve the upcoming sampling events. I heard very good suggestions, please type them in the comments section below.

It has been a pleasure to work with you in this project. Please let me know if you want to get involved in future samplings, you are now experts on this!

Remember to follow updates on Twitter @utbiome, and on FB fb/UTBiome.

JP.

A video post on methods! Today Chloe Wooldridge and Juan P. Maestre talking about the SKC Biosampler.

According to wikipedia a bioaerosol "is a suspension of airborne particles that contain living organisms or were released from living organisms".  These particles vary in size, from nanometers (viruses), micrometers (bacteria and fungi), to hundred micrometers (pollen particles). Bioaerosols can be collected by means a variety of devices such as collection plates, electrostatic collectors, and impactors.

The SKC Biosampler is an impactor, part of the so-called impinger samplers. These kind of samplers impact bioaerosols into a liquid, such as phosphate buffer solution (PBS), that swirls upward on the sampler's inner wall and collects the particles. According to SKC, the BioSampler is a highly efficient collector and only requires a high-volume sonic flow pump to trap airborne microorganisms.

Here the video on how to use this device.

I hope you like it!

 

Here for your reference, a couple of papers using this device: 1 and 2.

           

 

 

Dear students, here you have the information about the Relative Humidity and Temperature for indoor and outdoor.

Here the link to download the data: 

RH and T Data.xlsx

Here two schemes representing the locations where some of the samples were withdrawn.

Let me know if you have any question. Follow updates on Twitter @UTBiome, and LIKE US on Facebook https://www.facebook.com/UTBiome .

 

 

Thanks Harish Sangireddy for your help with the schemes!

I just want to give you an update regarding the samples we took on Tuesday and the metadata associated. The metadata is being compiled and curated to make sure all data were correctly annotated. The samples have been processed and are kept frozen at -20C. In the next 24 hours some of the samples will be DNA-extracted. Afterwards we will be doing qPCR to estimate total bacterial load in the selected samples. If any of you want to come over the lab and collaborate, please let us know. It will be a pleasure to show you the lab and the procedures.

 

Follow updates in twitter @UTBiome, in facebook UTBiome and here.

 

JP.

Today the students from CE369L have been sampling in class (oh well, we started by 7am). The 11 groups of students were sampling not only in the actual classroom but also in the corridor, the adjacent hall and outside. Bioaerosol samples were taken indoor and outdoor by using SKC impingers and Button Samplers. A baseline was established before the students came in and the "in class" measurements started as early as 8am. Sleepy faces could be observed around (wink).

Dust had been collected in plates for 5 days. A variety of surfaces were wiped and swabbed too. The biological samples were complemented with #metadata: CO2, particle counts, surface temperatures, relative humidity and temperature, air flowrates (for the whole class and on the sample locations) and pressure differences (between class and corridor). Here some pictures of the sampling event.

It was very fun and instructive. A great experience!

CE369L students,

It is about time to start your projects! Last week @yeipijotape (JP), Alex, marwa and Dr. Kinney gave you an introduction to the sampling we will be doing during class. The objective of this post is to make a brief summary of what we will be doing. We will have 11 groups of students and the idea is that all of you will be taking #metatada measurements along with biological samples.

Regarding the biological samples, you will be taking samples with: swabs, wipes, plates (already located in the classroom), a "Button" sampler, and an impinger. The samples not only will be taken inside the class but also on the corridor and outside.

As #metadata we will be measuring: #CO2, Relative Humidity and Temperature, surface temperature (for those samples involving surfaces), air velocity, particle counts by size and location coordinates (special coordinates system to specifically locate the samples in the building).

I will be preparing your sample kits and structuring your sample sites. There will be some hypotheses behind the sample locations selections (some of you already suggested some in class).  Feeling the fun already? It will be fun!

Get ready your smartphones to scan the codes and start typing your data.