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Posts Tagged: plant sciences
Car fumes, weeds pose double-whammy for fire-loving native plants
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.
“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The problem faced by native plants can be compared to a drawn-down bank account: Funds withdrawn are not being replaced.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.
“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
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.
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.
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
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.”
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 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.
Can vines speed urban cooling?
Study explores cooling benefits of fast-growing vines as trees take their time
Perhaps trees aren't the only green solution when it comes to cooling urban spaces and reducing energy costs. Honeysuckle, Virginia creeper, pink trumpet and other vines could be a fast-growing substitute in climate-smart cities of the future.
Researchers from UC Davis are leading a nearly $880,000 federal grant to study how vines may provide cooling and shade in Western states in less time than it takes a tree to grow tall.
“Vines can quickly shade buildings and reduce energy consumption while trees slowly grow to maturity,” said Alessandro Ossola, an assistant professor of plant sciences who is a principal investigator for the project. “We believe vines can be an effective and cheap measure to help cities accelerating climate change adaptation.”
The grant from the U.S. Department of Agriculture's Agricultural Marketing Service will fund work to plant and monitor at least 10 types of vines on trellises in five locations in different climate zones over three years. California Department of Food and Agriculture is administering the grant.
Using less water
Water conservation will be vital as populations rise, climate extremes become more prevalent and the demand for agricultural and drinking water increases. The goal of this research is to identify vines that can help save energy by providing cooling and reduce the need for irrigated water.
“In addition to rapid growth rates, vines can be easily integrated with structures to maximize potential cooling effects,” said Loren Oki, a Cooperative Extension specialist with Department of Plant Sciences, who is the project lead. “But we need to understand the relationships between low water-use plants and their ability to reduce thermal loads on buildings.”
The vines will be planted, supported by a trellis and watered regularly during the first growing season to establish deep roots and healthy shoots. Over the next two years, the vines will experience low, moderate and high water allocations.
The vines will be rated on aesthetics, foliage quality, floral quantity, pest and disease resistance, appearance and other factors. Thermal images of trellis coverage and other environmental measurements will also be taken to assess shading and cooling potential, according to grant documents.
Many vines can be grown along cables and wire nets that are actually detached from walls to avoid direct contact and still provide shade, Ossola said.
“We want to understand which vine characteristics relate to fast growth, reduced water use and increased aesthetic appeal,” he added.
Outreach and education
The findings will enable recommendations to be developed for regions, planners, the landscape industry and the public. It could lead to plants being designated as “water-wise,” “low-water use,” “energy-saving” or “cooling.”
Extensive engagement and outreach will also publicize the information.
“Climate change is a great opportunity for the horticultural industry to innovate and promote climate-ready plant productions,” Ossola said.
USDA funding supports research across state lines to find innovative solutions to regional and national problems, USDA Under Secretary for Marketing and Regulatory Programs Jenny Lester Moffitt said in a news release announcing this and other grants.
“This year's funded projects will address a range of those challenges, from energy and water saving in vine plants, finding cost-effective solutions for heat tolerance and drought, to addressing food safety risks for produce,” Moffitt said.
Scientists from the University of Arizona, University of Washington, Utah State University and the South Coast Research and Extension Center at UC Agricultural and Natural Resources are contributing to the research and will be overseeing vine sites in their states.
This article is reprinted from the UC Davis College of Agricultural and Environmental (CA&ES) website, where it is titled "Could Vines Be the Answers to Speeding Urban Cooling, Water Reduction in the West?"
UC Davis to lead $15 million research into climate-change resistant wheat
The project will also train plant breeders for the future
Wheat products account for roughly 20% of what people eat every day around the globe. As climate changes, wheat crops must adapt to new weather patterns to keep up with demand.
The University of California, Davis, is leading a five-year, $15 million research project to accelerate wheat breeding to meet those new climate realities, as well as to train a new generation of plant breeders.
“Everything is less stable,” said Jorge Dubcovsky, a plant sciences distinguished professor who is leading the grant research. “Everything is changing so you need to be fast. You need to be able to adapt fast.”
The grant from the U.S. Department of Agriculture's National Institute of Food and Agriculture will create a coordinated consortium of 41 wheat breeders and researchers from 22 institutions in 20 states. Researchers from Mexico and the United Kingdom are also participating.
Breeding needs to speed up
“Breeding crops for the future will require new traits, breeding platforms built for quick transfer of traits to elite cultivars, coordination of breeding efforts in public and private domains, and training for current and future plant breeders and researchers,” NIFA said in an announcement about this grant and others related to breeding.
The program involves on-the-ground research, identifying molecular markers and data analysis from multiple institutions to determine genes that will help wheat crops mitigate the effects of climate change. Plant breeding will follow to prove out those findings.
Wheat is unlike other crops in that 60% of the plant varieties — generating about $4 billion in annual production — are developed by public breeding programs rather than private corporations. In many states, wheat growers tax themselves to support basic breeding efforts at public institutions like UC Davis.
Increased coordinated research
The NIFA grant money will lead to more coordinated, sophisticated research. “This grant allows us to do breeding at a level that a good, modern company would do,” Dubcovsky said. “This grant is essential to maintain modern and effective public breeding programs in the U.S.”
The consortium will bring together data and research from across institutions, allowing for more expansive analysis while reducing redundancies. “We can take advantage of the data from everybody,” he said. “By doing that we don't need to duplicate efforts.”
A team in Texas will analyze plant images taken from drones at each institution to extract information about plant growth, water use, nitrogen levels and other data. “Using technology, we can see beyond our human capabilities,” Dubcovsky said. “You can extract a huge amount of information from every plant variety.”
The data from those images will allow researchers to document the plants throughout the life cycle and determine which plants fare better under certain conditions. Genotyping will help researchers obtain information about the plant genome. The combination of these two types of data could speed up breeding cycles, helping wheat crops adapt to a changing environment.
“If we can breed fast, we can adapt to change,” Dubcovsky said. “We are trying to make sustainable improvements in time.”
Training the next generation
The project will also train a cohort of 20 plant Ph.D. students in active breeding programs where they will participate in fieldwork, collect data from drones and DNA samples, and learn to integrate that information to accelerate wheat breeding. The students will participate in online and face-to-face workshops, as well as educational events and national scientific conferences.
Colorado State University, Cornell University, Kansas State University, Michigan State University, Montana State University, Oklahoma State University, Purdue University, South Dakota State University, Texas A&M University, University of Idaho, University of Illinois, University of Minnesota, University of Nebraska, University of Wisconsin, Utah State University, Virginia Tech, Washington State University, and U.S. Department of Agriculture Agricultural Research Service branches in North Dakota, Washington, Kansas and North Carolina are also participating in the consortium.
