Posts Tagged: plant sciences

Diagnosing herbicide problems takes detective work

Kassim Al-Khatib, right, of the Department of Plant Sciences, explains symptoms from the group of herbicides that work by mimicking plant hormones and the synthesis of fatty acids, demonstrated on rows of annual crops. Photos by Trina Kleist, UC Davis

Field day offers examples, tips for solving the mystery

A grower applies an herbicide to his tomato plants, or thinks a neighbor's treatment is drifting over her almond trees. A short time later, the leaves start to bleach or shrivel. Was it the herbicide? Or maybe water stress? Soil nutrients? Perhaps an insect?

Figuring out the causes of crop problems takes detective work, and like solving any mystery, it starts with knowing the signs, gathering evidence and asking questions.

The Diagnosing Herbicide Symptoms field day at UC Davis was an opportunity to see, up close, the shriveled cotton, scorched corn and dying sunflowers that can result when herbicides are applied incorrectly. Using the right herbicide – in the right proportion, at the right time and in the right field – can make the difference between a thriving crop and a financial loss.

Participants at the recent UC Davis Diagnosing Herbicide Symptoms field day saw test plots showing different levels of damage on different crops caused by commonly used herbicides when applied improperly.

A top take-away to avoid problems: “Don't do stuff at night!” laughed Becky Wheeler-Dykes, a UC Cooperative Extension farm advisor attending the June 26 event to better serve growers in Glenn, Tehama and Colusa counties. “The packages look the same. People grab the wrong jug.” And then, disaster.

Instructors were Brad Hanson, professor of Cooperative Extension; and Kassim Al-Khatib, the Melvin D. Androus endowed professor for weed science; both in the Department of Plant Sciences. They were joined by John Roncoroni, a Cooperative Extension emeritus farm advisor rooted in the department's weed science program. Attendees were a mixture of people from agriculture, industry, government officials, university researchers and Cooperative Extension advisors. The event was hosted by the Weed Research and Information Center, based in the Department of Plant Sciences.

Brad Hanson, center, of the Department of Plant Sciences, describes symptoms from several types of herbicides that work by blocking amino acid synthesis in annual crops including sunflower, shown here. Becky Wheeler-Dykes, left, is a UC Cooperative Extension farm advisor in Glenn, Tehama and Colusa counties.

Out in a field west of campus, visitors could see the progression of damage, from control plots with green and healthy crops to plants that looked sadder as herbicide concentrations increased. Visitors could see the patterns of damage for common foliar chemicals such as glyphosate, paraquat, and 2,4-D, as well as soil-applied herbicides from several chemical classes.

“There's a lot of detective work,” said Stephen Chang, a master's student in Hanson's lab aiming for a career in Cooperative Extension. “For example, the company that makes the herbicide says there shouldn't be a problem, but the grower says, there is a problem. This course helps with developing the skills to figure out what happened.”

It might not be the herbicide at all

Detective work and problem-solving frame the approach, Hanson explained. The cause of crop damage can be simple or complex. Like a good mystery, what appears to be a clue can turn out to be a red herring. Professionals need to draw on their inner Sherlock Holmes to observe and document symptoms, look for patterns in the plants and in the field, ask questions, gather information about the larger environment and collect samples.

An herbicidal Agatha Christie would then suggest: What if it's not herbicide damage at all? Participants learned to consider the possibility of insects, pathogens and viruses, as well as problems with water, nutrients, soil condition and even root damage from cultivation practices.

Hanson recalled puzzling over symptoms he found in an orchard. The culprit? “A leaking natural gas line,” he said.

More resources for herbicide issues

Participants also heard from Molly Mathews, deputy agriculture commissioner from Yolo County, on how a field investigation is conducted. Lawyer Robert Davies, of Donahue Davies LLP in Folsom, outlined the basics of what happens when there are lawsuits related to crop damage from herbicide drift.

John Roncoroni, second from right, a Cooperative Extension emeritus farm advisor, explains symptoms caused by a group of herbicides that affect the photosystem or act by disrupting cell membranes. The corn, left, shows damage caused by improperly applied herbicide.

The Diagnosing Herbicide Symptoms field day is part of a larger program of education and outreach offered through the Weed RIC, said director Julia Stover-Blackburn. It was the first time the event has been offered since the COVID-19 pandemic, she added.

• For more information about field days and resources, visit the Weed RIC webpage.
• For a thorough discussion of herbicide symptoms, visit this page overseen by Al-Khatib and sponsored by University of California Agriculture and Natural Resources.
• This online course follows an earlier version of the Diagnosing Herbicide Symptoms field program.

This story was originally published on the UC Davis Department of Plant Sciences website.

Car fumes, weeds pose double-whammy for fire-loving native plants

In September 2013, a few months after the Springs Fire blazed through the Santa Monica Mountains in Southern California, a team led by Justin Valliere started laying out plots to study how the combination of invasive weeds and air pollution would impact the resurgence of native plants that usually flourish after a wildfire. Their tests tried to mimic nitrogen coming from vehicle exhaust in nearby Los Angeles. Photo by Justin Valliere, UC Davis

Wildflower displays threatened

Northwest of Los Angeles, springtime brings native wildflowers to bloom in the Santa Monica Mountains. These beauties provide food for insects, maintain healthy soil and filter water seeping into the ground – in addition to offering breathtaking displays of color.

They're also good at surviving after wildfire, having adapted to it through millennia. But new research shows wildflowers that usually would burst back after a blaze and a good rain are losing out to the long-standing, double threat of city smog and nonnative weeds.

A recent study led by Justin Valliere, assistant professor in the UC Davis Department of Plant Sciences, found that native wildflowers and other plants that typically flourish following a fire were, instead, replaced by invasive plants on land that received the kind of nitrogen contained in vehicle emissions.

Shooting stars, or Dodecatheon clevelandii, is typical of the native plants that bloom in even higher abundance following a fire and a good rain in the Santa Monica Mountains of southern California. Photo by Justin Valliere, UC Davis

“Many native plants in fire-prone areas rely on fire, and some are entirely dependent on it. Some are even most abundant after a fire,” said Valliere, a UC Cooperative Extension specialist in invasive weed and restoration ecology. “But we found that these fire-following species may be especially vulnerable to the combination of nitrogen pollution and invasive plants.”

That's part of the reason why native plants in these mountains have been declining.

Seeds – banked in the soil and waiting to sprout

The problem faced by native plants can be compared to a drawn-down bank account: Funds withdrawn are not being replaced.

It starts with fire, an important ecological process, Valliere said. Flames burn through plants on the surface and return their nutrients to the soil. Seeds sleeping in the ground wait for the next rain to sprout, then use those nutrients to grow.

“Plant diversity is often highest in growing seasons immediately after a site burns,” he said.

But invading plants have many advantages over native ones. They often sprout earlier, grow faster and create more seeds, all while tolerating drought.

“They're like cheaters,” Valliere said. “They don't follow the same rules.”

Nitrogen, too, is an important piece of every plant's nutrition. They all get a fertilizing boost from nitrogen that floats up in vehicle emissions and falls to the ground. But the invaders use nitrogen and other nutrients to grow faster, winning the race for water and sunlight. As a result, fewer native plants reach maturity, producing fewer seeds that keep their populations thriving.

When the bank balance reaches zero

The 2013 Springs Fire gave Valliere a unique opportunity to study the combined impacts of wildfire and extra nitrogen. He and colleagues from UC Riverside and the National Park Service created test plots in the Santa Monica Mountains where the fire had burned. Then, they added nitrogen to the soil to mimic the amount and type that LA's smog would deposit. Over the study's three years, native plants that typically would have flourished after wildfire instead declined even faster in the plots with added nitrogen.

Native seeds sprouted, but didn't flower. Over time, the soil's bank of seeds drew down.

In spring of 2015, the area that had been burned by the 2013 Springs Fire was again in bloom. The clearwater cryptantha shown here, or Cryptantha intermedia, is a native plant that blooms all over California. It is especially abundant in the coastal south. Photo by Justin Valliere, UC Davis

“Each seed has one chance to flower and reproduce,” Valliere said. “If a seed grows and gets outcompeted, that seed has lost its chance to replenish the seed bank.”

Without the chance to replenish their bank account, native plants will die out, and the whole ecosystem will be thrown out of balance.

“There is inherent value in biodiversity,” Valliere said. “These invasive weeds could prevent the re-establishment of native shrubs after fire, sometimes forever altering the plant community.”

The loss of native plants can have cascading effects on the larger environment, he added. Problems can include the loss of native bees that feed on the flowers, and mudslides when rain makes hillsides unstable.

This problem is likely to repeat in similar areas where biodiversity is highest after wildfires – including parts of the Mediterranean basin, southern Africa and Australia. The addition of city smog “could have serious consequences for the biodiversity of fire-prone ecosystems worldwide,” Valliere warned.

Read the paper, “Nitrogen deposition suppresses ephemeral post-fire plant diversity,” by Justin Valliere, Irina Irvine and Edith Allen.

This article was first published on the UC Davis Department of Plant Sciences website.

Google Weed View? Professor trains computer to spot invasive weed

Johnsongrass patches identified using Google Street View. The yellow boxes were designated by artificial intelligence; the red boxes were drawn by human hand.

Algorithm for AI enables low-cost tracking of invasive plant

To manage johnsongrass, a noxious weed that crowds out cotton and sickens horses, farmers have tried herbicides, burning and hand-pulling. Now, researchers at University of California, Davis, have developed a more high-tech weapon against the invasive weed: artificial intelligence and machine learning.

Using photos from Google's Street View database, UC Davis researchers have tracked down over 2,000 cases of johnsongrass in the Western United States for a fraction of the cost and time that it would take to do drive-by or other in-person surveys. They call their tool Google Weed View.

The advancement could help land managers easily and quickly survey for other problem plants.

“Once the model is trained, you can just go and run it on millions of images from Google Street View,” said Mohsen Mesgaran, an assistant professor in the Department of Plant Sciences at UC Davis. “We have huge flexibility, and its capability can be scaled up very quickly.”

The technique can easily be extended to other plant species. All that is needed is to label the new item in Street View photos and train the algorithm to identify that object in the images.

By providing location information, Google Weed View also offers an opportunity to examine how climate affects the growth and spread of weeds and invasive plants at very large scales.

“I think it can be both useful for management and for people with interests in more basic questions in ecology,” Mesgaran said.

Johnsongrass patches identified using Google Street View. The yellow boxes were designated by artificial intelligence; the red boxes were drawn by human hand.

A colleague's query

Mesgaran began looking at using Google's photo database of roadways, streets and highways after Kassim Al-Khatib, a professor of Cooperative Extension in the same department, asked if he could survey Western states for johnsongrass.

Al-Khatib studies where johnsongrass grows, ways to manage it and how this perennial has evolved to be so prevalent and resilient. He's also working with scientists at the University of Georgia to decode the genome of johnsongrass, which is one of the top 10 most invasive weeds worldwide.

Johnsongrass can crowd out native plants, harbor pathogens and affect agriculture. It grows up to 7 feet tall with flowers that are green, violet, dark red or purplish brown depending on maturity, according to a UC Statewide Integrated Pest Management Program briefing page.

“Johnsongrass is a major weed not just in California but worldwide,” Al-Khatib said. “It's very difficult to control. It's a problem on vineyards. It's a problem for cultivated crops. It's a problem on orchards.”

Google Weed View allows for rapid, convenient scanning. It is continuously updated via everyday users with compatible cameras and images collected by Google. “Instead of a day of in-person driving, we can use AI to determine if johnsongrass is in a county or not,” Al-Khatib said. 

Johnsongrass identified growing near agricultural land using Google Street View. The yellow boxes were designated by artificial intelligence; the red boxes were drawn by human hand.

Setting the parameters

To find the weeds, Mesgaran went to Google Street View, which hosts billions of panoramic photos. It didn't take long to find johnsongrass.

“The pictures are really good quality,” he said. “You can see plants and flowers.”

Street View's photos offer a 360-degree view, so in his request Mesgaran set parameters, based on street direction (bearing), to only see the side view. He also specified latitude and longitude, and other factors. To train the deep, or machine learning model, he chose Texas, where johnsongrass is prevalent.

A student sorted through over 20,000 images from that request to find pictures with johnsongrass and drew rectangular shapes around the weeds. They located 1,000 images.

The labeled photos were fed into a computer to train a deep learning algorithm capable of identifying johnsongrass in Google's images. The model was run again to capture potentially more images containing johnsongrass. These additional images were then labeled and used to further refine the model. With each iteration, the algorithm learned and became more accurate.

“This deep learning model was trained by these images,” Mesgaran said. “Once we had a semi-working model, we ran it against about 300,000 images.”

For Al-Khatib's request, researchers focused on 84,000 miles of main roads in California, Nevada, Oregon and Washington states. The team discovered 2,000 locations with johnsongrass.

Google Weed View cost less than $2,000 to purchase the images and teach the model. A traditional car survey to cover the same area would cost an estimated $40,000 in gas, hotel, food and other costs.

“In a matter of months, we came up with 2,000 records and I can do it for the whole U.S.,” Mesgaran said.

Next up? The entire United States.

This story was originally published on the UC Davis College of Agricultural and Environmental Sciences news site.

No-till annual wheat better for soil health in California’s climate

From left are researchers Mark Lundy, Kalyn Taylor and Taylor Becker, at the time all in the UC Davis Department of Plant Sciences, observing plots of wheatgrass. The photo was taken in 2019, during the second year of a three-year experiment to compare the benefits and disadvantages of perennial wheatgrass with tilled annual wheat and no-till annual wheat in California's Central Valley. Photo: UC Davis Department of Plant Sciences

One more reason to adopt sustainable cultivation

California wheat farmers could both maintain their yields and improve soil health by growing annual wheat without tilling the soil year after year.

This could be one more encouragement to farmers to adopt a sustainable practice commonly called conservation tillage, no-till or minimum-till cultivation, impacting how we grow a grain that supplies about 20 percent of the calories and protein for people around the world.

A new study, by a team led by Mark Lundy, University of California Cooperative Extension specialist in UC Davis' Department of Plant Sciences, offers new insight for decades-long discussions around soil conservation, sustainable agriculture and climate-warming emissions related to growing our food. The study has been published in the journal Soil and Tillage Research. For the first time, researchers have shown that annual wheat that is not tilled each year is better for stashing carbon in the soil than perennial wheatgrass, while still yielding more crop in Central California.

Previous studies have looked at annual wheat that is tilled each year, annual wheat that is not tilled, and a cousin species, perennial intermediate wheatgrass (trademarked Kernza), which also is not tilled. But until now, no one has looked at all of the benefits and trade-offs together. Most importantly, “no one has ever controlled for tillage,” Lundy said. “And, no one has compared annual wheat to perennial intermediate wheatgrass over multiple years in a Mediterranean climate, which is what we have in California.”

At the left is perennial intermediate wheatgrass (Kernza), and at the right is no-till annual wheat in experimental plots west of UC Davis in June 2019. Photo courtesy: Kalyn Taylor

This study also is unique because it delves into the deeper question of what is going on in the soil that drives the different results for carbon there. Soil carbon reflects various processes linked to plant activity and soil health. Measuring the different forms of soil carbon may also signal whether a farming system is accumulating carbon in the soil over time – a plus for reducing climate-warming gases in the atmosphere.

“Measuring soil carbon is complex and nuanced,” said Kalyn Taylor, the lead author on the paper. “We started this experiment because we wanted to know whether and how plant activity and tilling or not tilling would affect the carbon story belowground in California's climate.”

“When we started this study, we thought the crop being perennial or annual would drive the differences in carbon storage in the soil,” Lundy added. Specifically, they had expected perennial wheatgrass would lead to more carbon in the soil because of its deeper, better-established root system. “But that's not what we found,” he went on. “What we found was, it was the lack of tillage, plus the level of productivity of common annual wheat, that made the difference in soil carbon here in California.”

Soil carbon in annual vs. perennial grain

In 2017, Lundy, then-graduate-student Taylor, UC Davis Professor Emeritus Kate Scow and others on the team started measuring different forms of soil carbon in test plots at Russell Ranch, west of campus. Plots were planted with annual wheat that was tilled each spring, annual wheat that was not tilled and perennial intermediate wheatgrass (Kernza) that also was not tilled.

Each year, the researchers measured the carbon present in the soil, the amount of soil organisms (which have carbon in their bodies) and the amount of material the plants created.

At the experimental wheat field west of Davis in March 2019 are, from left: Kate Scow, of the UC Davis Department of Land, Air and Water Resources and co-principal investigator on the wheat study; Liz Carlisle, from UC Santa Barbara; Kalyn Taylor, of the UC Davis Department of Plant Sciences and lead author on the recent paper; and Bob Quinn, who earned a doctoral degree at UC Davis, then returned home to Montana to run the family's wheat farm. Photo by Daniel Rath

At the end of three growing seasons, they found that land planted with no-till, common, annual wheat had the highest amount of soil organisms, measured as biomass, of the three treatments.

The researchers also found soil carbon is more likely to remain stable in the no-till, annual plots, compared to both tilled wheat and wheatgrass.

In addition, the no-till, annual wheat produced plant material more consistently than the perennial wheatgrass across the three years, which saw variation in rainfall.

“Overall, annual wheat grown without soil disturbance or tillage had both higher productivity and higher potential for storing carbon in the topsoil than perennial wheatgrass in our Mediterranean climate,” Lundy said.

Related research

“No-till annual wheat increases plant productivity, soil microbial biomass, and soil carbon stabilization relative to intermediate wheatgrass in a Mediterranean climate,” is online now and will be published in the January 2024 edition of Soil and Tillage Research.

The team also found that tilled annual wheat vs. Kernza stores total carbon at different depths in the soil profile and hosts distinct soil fungal communities, primarily in the root zone and topsoil: Taylor, K., Samaddar, S., Schmidt, R., Lundy, M. and Scow, K., 2023. Soil carbon storage and compositional responses of soil microbial communities under perennial grain IWG vs. annual wheat. Soil Biology and Biochemistry, p.109111.

Previous work comparing the perennial grain known as intermediate wheatgrass (trademarked Kernza) to annual wheat had not distinguished the extent to which soil health benefits are a function of the perennial nature of the crop. Read the story here.

This story was originally published on the UC Davis News site.

Climate-Change Resources

University of California UC ANR Green Blog (Climate Change and Other Topics) https://ucanr.edu/blogs/Green/index.cfm?tagname=climate%20change (full index)

Examples:

     -  Save Trees First: Tips to Keep Them Alive Under Drought https://ucanr.edu/b/~CdD 

     - Landscaping with Fire Exposure in Mind: https://ucanr.edu/b/~G4D

     - Cities in California Inland Areas Must Make Street Tree Changes to adapt to Future Climate  https://ucanr.edu/b/~oF7

Drought, Climate Change and California Water Management Ted Grantham, UC Cooperative Extension specialist (23 minutes) https://youtu.be/dlimj75Wn9Q

Climate Variability and Change: Trends and Impacts on CA Agriculture Tapan Pathak, UC Cooperative Extension specialist (24 minutes) https://youtu.be/bIHI0yqqQJc

California Institute for Water Resources (links to blogs, talks, podcasts, water experts, etc.) https://ciwr.ucanr.edu/California_Drought_Expertise/

UC ANR Wildfire Resources (publications, videos, etc.) https://ucanr.edu/News/For_the_media/Press_kits/Wildfire/ (main website)

      -UC ANR Fire Resources and Information https://ucanr.edu/sites/fire/ (main website)

            -Preparing Home Landscaping https://ucanr.edu/sites/fire/Prepare/Landscaping/

UC ANR Free Publications https://anrcatalog.ucanr.edu/ (main website)

- Benefits of Plants to Humans and Urban Ecosystems: https://anrcatalog.ucanr.edu/pdf/8726.pdf

 -Keeping Plants Alive Under Drought and Water Restrictions (English version) https://anrcatalog.ucanr.edu/pdf/8553.pdf

  (Spanish version) https://anrcatalog.ucanr.edu/pdf/8628.pdf

-  Use of Graywater in Urban Landscapes https://anrcatalog.ucanr.edu/pdf/8536.pdf

-  Sustainable Landscaping in California https://anrcatalog.ucanr.edu/pdf/8504.pdf

Other (Non-UC) Climate Change Resources

Urban Forests and Climate Change. Urban forests play an important role in climate change mitigation and adaptation. Active stewardship of a community's forestry assets can strengthen local resilience to climate change while creating more sustainable and desirable places to live. https://www.fs.usda.gov/ccrc/topics/urban-forests

Examining the Viability of Planting Trees to Mitigate Climate Change (plausible at the forest level) https://climate.nasa.gov/news/2927/examining-the-viability-of-planting-trees-to-help-mitigate-climate-change/

Reports and other information resources coordinated under the auspices of the United Nations and produced through the collaboration of thousands of international scientists to provide a clear and up to date view of the current state of scientific knowledge relevant to climate change. United Nations Climate Action

Scientific reports, programs, action movements and events related to climate change. National Center for Atmospheric Research (National Science Foundation)

Find useful reports, program information and other documents resulting from federally funded research and development into the behavior of the atmosphere and related physical, biological and social systems. Search and find climate data from prehistory through to an hour ago in the world's largest climate data archive. (Formerly the "Climatic Data Center") National Centers for Environmental Information (NOAA)

Think tank providing information, analysis, policy and solution development for addressing climate change and energy issues (formerly known as the: "Pew Center on Global Climate Change"). Center for Climate & Energy Solutions (C2ES)

Mapping Resilience: A Blueprint for Thriving in the Face of Climate Disaster. The Climate Adaptation Knowledge Exchange (CAKE) was launched in July 2010 and is managed by EcoAdapt, a non-profit with a singular mission: to create a robust future in the face of climate change by bringing together diverse players to reshape planning and management in response to rapid climate change. https://www.cakex.org/documents/mapping-resilience-blueprint-thriving-face-climate-disaster

Cal-Adapt provides a way to explore peer-reviewed data that portrays how climate change might affect California at the state and local level. We make this data available through downloads, visualizations, and the Cal-Adapt API for your research, outreach, and adaptation planning needs. Cal-Adapt is a collaboration between state agency funding programs, university and private sector researchers https://cal-adapt.org/

Find reports, maps, data and other resources produced through a confederation of the research arms of 13 Federal departments and agencies that carry out research and develop and maintain capabilities that support the Nation's response to global change. Global Change (U.S. Global Change Research Program)

The Pacific Institute is a global water think tank that combines science-based thought leadership with active outreach to influence local, national, and international efforts to develop sustainable water policies. https://pacinst.org/our-approach/

Making equity real in climate adaptation and community resilience policies and programs: a guidebook. https://greenlining.org/publications/2019/making-equity-real-in-climate-adaption-and-community-resilience-policies-and-programs-a-guidebook/ 

Quarterly CA Climate Updates and CA Drought Monitor Maps (updated each Thursday) https://www.drought.gov/documents/quarterly-climate-impacts-and-outlook-western-region-june-2022

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