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Salinity stress is considered one of the most important abiotic factors that limits the productivity of crop plants, and the estimated global cost due to salinity is more than $12 billion annually. This is due to the extensive use of irrigation and high rates of evapotranspiration, which result in increased salt accumulation in the soil.

A study out of The USDA Agricultural Research Service at the University of Wisconsin has evaluated the response of diverse carrot germplasm to salinity stress, identified salt-tolerant carrot germplasm that may be used by breeders, and defined appropriate screening criteria for assessing salt tolerance in germinating carrot seed.

Adam Bolton and Philipp Simon focused on carrots in their research of glycophytic plants. Most crops, including cultivated carrots, are categorized as glycophytic plants. The growth of glycophytes is greatly reduced in saline soils because they lack physiological mechanisms such as the salt glands and bladders that allow halophytes, or salt-loving plants, to thrive in high salinity.

Bolton and Simon postulate that this type of extensive evaluation is needed to develop varieties that are considered fully salt-tolerant at each developmental stage for carrots.

Their research is explained in the article “Variation for Salinity Tolerance During Seed Germination in Diverse Carrot Germplasm”, found in HortScience, published by The American Society for Horticultural Science.

Bolton and Simon note that one approach to combating the negative effects of salinity stress in glycophytic crops is identifying new genetic sources of tolerance and efficient phenotypic methods to develop salinity-tolerant cultivars.

Data collected from many crop species suggest that the level of salinity tolerance is highly dependent on the developmental stage of the plant. This life stage-specific tolerance means that a genotype that has tolerance at one life stage may not be tolerant at any other of its life stages. Therefore, to more efficiently identify tolerant genotypes, their evaluations needed to continue throughout the varying stages of ontogeny of the plant, from germination through the reproductive phase.

Screening for salt tolerance at the germination stage is the first step in identifying tolerant genotypes because it is a critical stage for plant development. Fortunately, the researchers discovered, screening at this stage is among the most rapid and economical stages of development to evaluate a large number of diverse germplasm accessions.

Bolton and Simon used multiple criteria for quantifying salt tolerance. This broad approach demonstrated wide phenotypic variations during the seed germination stage among diverse carrot accessions. Significant differences in the percent of seed germination under nonstress conditions and for all salt tolerance germination measurements were observed among the 14 different regions of carrot accession origin.

Ultimately, this study identified a wide range of phenotypic variations for salt tolerance during the germination stage in a collection of diverse carrot accessions. These accessions could serve as potential parents for creating mapping populations to identify the specific genotype associated with salt tolerance. This discovery is promising for breeders as it suggests a route for them to move toward generating healthy plant crop cultivars with additional tools for growing on salt-affected soil.

Simon adds, “In previous studies, carrots have been characterized as a crop that is sensitive to salinity. This study evaluated a large collection of wild and cultivated carrot germplasm and confirmed that, in fact, many carrot cultivars are saline-sensitive during seed germination, but that many germplasm accessions evaluated were quite saline-tolerant. Interestingly, many of the more saline-tolerant carrots evaluated were cultivated carrots, perhaps reflecting unintentional selection by farmers that have been growing the crop with saline irrigation water. This study provides an optimistic outlook for breeding carrots with improved salinity tolerance during germination. Tolerance during seeding and later plant development will also be needed as salinity becomes a more serious challenge for farmers.”

Read the paper: HortScience

Article source: American Society for Horticultural Science

Image credit: Markus Spiske / Pixabay

California produces 99 percent of the walnuts grown in the United States. New research could provide a major boost to the state’s growing $1.6 billion walnut industry by making it easier to breed walnut trees better equipped to combat the soil-borne pathogens that now plague many of California’s 4,800 growers.

In a new study, a team of scientists at the University of California, Davis, and USDA’s Agricultural Research Service, ARS used a unique approach to sequence the genomes of the English walnut and its wild North American relative by tapping into the capabilities of two state-of-the-art technologies: long-read DNA sequencing and optical genome mapping. The resulting genome sequences are believed to be of the highest quality ever assembled of any woody perennial.

“By sequencing the genome of a walnut hybrid, we produced complete genome sequences for both parents in the time normally required to produce the sequence of one genome,” said Ming-Cheng Luo, leading genomics investigator on the project and a research geneticist in the Department of Plant Sciences at UC Davis.

This approach could be applied to genome sequencing of trees and many other woody perennials, opening the door to a better understanding of the genetic blueprints of almonds, pecans, pistachios and grapes.

“Like walnut, these other crops naturally cross-pollinate and are therefore highly variable,” said Jan Dvorak, co-principle investigator and genetics professor at the Department of Plant Sciences at UC Davis. “Variability has always greatly complicated our ability to produce a high-quality genome sequence for such crops, but these new technologies now make it possible,” Dvorak added.

In California, walnuts are grown commercially using rootstocks chosen specifically for their ability to tolerate various soil-borne diseases.

“We chose to cross the widely used English walnut specifically with the wild Texas Black walnut because of its native resistance to several soil-borne diseases and root nematodes, which are serious pests of walnut in California,” said Dan Kluepfel,a USDA-ARS scientist and principal investigator of the walnut-rootstock development project.

The assembled genome sequences of the two walnut species also will now help researchers identify genetic markers that breeders can use to develop new varieties with improved pathogen and pest resistance.

Major contributors to the project included UC Davis scientists Tingting Zhu, Le Wang, and Agriculture and Agri-Food Canada scientist Frank You.

Read the paper: Horticulture Research

Article source: USDA’s Agricultural Research Service (ARS)

Image credit: Suju/ Pixabay

A national-scale study of U.S. forests found strong relationships between the diversity of native tree species and the number of nonnative pests that pose economic and ecological threats to the nation’s forests.

“Every few years we get a new exotic insect or disease that comes in and is able to do a number on our native forests,” says Kevin Potter, a North Carolina State University research associate professor in the Department of Forestry and Environmental Resources and co-author of an article about the research in Proceedings of the National Academy of Sciences.

“Emerald ash borer is clobbering a number of ash species in the Midwest and increasingly in the South. The chestnut, a magnificent tree that had immense ecosystem value as well as economic value in the South and North, is pretty much gone because of a pathogen. And hemlocks are under attack by the hemlock woolly adelgid from the Northeast along the Appalachian Mountains into the South.”

To better understand how nonnative insects and diseases invade U.S. forests, researchers tested conflicting ideas about biodiversity. The first is that having more tree species can facilitate the diversity of pests by providing more places for them to gain a toehold. Another possibility is that tree biodiversity can have protective effects for forests, such as by diluting the pool of host trees and making it harder for pests to become established.

“We found that both facilitation and dilution seem to be happening at the same time,” Potter says. “What we found is that native tree biodiversity really is important, but it’s important in different ways at different times.”

Combining two national county-level data sets, researchers found that relationships between tree diversity and pest diversity follow a hump-shaped curve.

“As you have an increasing number of tree species, you have an increasing number of pest species, up to an inflection point where that relationship changes,” Potter says. “Then you have a decreasing number of pest species as the number of host tree species increases.”

Overall, counties where forests have 30 to 40 different host tree species tend to have the most nonnative pests. But the effects depend on whether the invader is a specialist that can infest only a single tree species or whether it’s a generalist, like the gypsy moth, which can spread to more than 60 different hosts.

“What we see is that forests in the Midwest and up into New England are at the middle part of that hump-shaped curve in terms of the number of host tree species, and those are places where there have been a lot of insect and disease problems,” Potter says.

“Out West we have fewer insect and disease pests, but in some cases they still do a lot of damage because the forests are not diverse. If you have a specialist pest come in and knock back one of the major components of your biodiversity, then that can have a greater impact. An example of how that works would be Sudden Oak Death, a disease in California that’s affecting oaks there.”

Researchers with the U.S. Forest Service, Purdue, NC State, Czech University of Life Sciences and Duke collaborated on the study, which used two large datasets. The U.S. Forest Inventory and Analysis, a national forest census, contains information from 135,000 forested plots across the U.S. where crews regularly measure trees and check environmental conditions. For this study, the FIA data were used to compile counts of tree species for each of 2,098 counties. The Alien Forest Pest Explorer database offers a county-level record of the presence or absence of nonnative insects and diseases, including 66 used for this study.

Researchers also examined other factors that could affect pest invasions, such as human population density and environmental conditions, including precipitation, elevation and average temperature. Tree biodiversity was a better predictor of nonnative pests, Potter says.

Results could help prioritize monitoring efforts for forests most at risk for future pest invasions, he says.

“The unfortunate reality is that a lot of times we don’t notice these exotic pests and diseases until they’ve gotten established and start having an impact on our native species, when it’s almost too late.”

Read the paper: PNAS

Article source: NC State University

Image credit: Kevin M. Potter, NC State University

Crop models are parameterization schemes that simulate the processes of crop development and production. Their inclusion in climate models can promote the simulation ability of climate models, according to Dr. Zou Jing at the Institute of Oceanographic Instrumentation, Qilu University of Technology.

ZOU and his co-researchers from the Institute of Atmospheric Physics, Chinese Academy of Sciences/Institute of Geographic Sciences and Natural Resources Research, Chinese Academy of Sciences/Zhejiang Institute of Meteorological Sciences, developed a new crop–climate coupled model and published their results on its evaluation in Advances of Atmospheric Sciences.

“Most previous studies coupled a single crop model into a climate model,” explains Dr. Zou, “but we considered three crop types with different farming systems in this study. We chose rice, wheat and maize, which cover 81% of the cereal-crop planting area in China. We further distinguished these crops in terms of different farming systems to provide more detailed descriptions about the actual crop planting. For example, winter wheat and spring wheat are different in our model,” he adds.

According to their findings, the new crop–climate model has an excellent ability in simulating crop phenology, and offers a slight correction of the bias in the original climate model in some typical areas.

“Our new model provides a good tool to investigate the relationship between crop development and climate change for global change studies,” says Dr. Zou. “The expectation is that the model can be applied in food production or agricultural research, if further promotion of the model’s accuracy and parameter optimization is achieved in future work,” he adds.

Read the paper: Advances of Atmospheric Sciences

Article source: Institute of Atmospheric Physics, Chinese Academy of Sciences

Image credit: WikiImages/ Pixabay

A new study by UAlberta biologists shows the first evidence of apoptosis, or programmed cell death in algae. The outcomes have broad-reaching implications, from the development of targeted antibiotics to the production of biofuels in industry.

“It sounds odd, but programmed cell death is important to all large organisms. For any cells to differentiate, they have to be able to kill cells. For example, if you injure yourself, your scab is formed with these killed-off cells,” explained Rebecca Case, associate professor in UAlberta ’s Department of Biological Sciences. “Here at the single-cell level, we’ve found that small molecules are passed from bacteria into the host algae. By doing that, the bacteria are able to tell the algae to kill itself.”

Until now, programmed cell death, also known as apoptosis, was thought to only occur in large, multicellular organisms such as animals and humans. This research shows that bacteria that live on single-cellular algae can cause programmed cell death. “It is the first documentation of true apoptosis via bacterial pathogens in microorganisms like algae,” said Case, who conducted the work with PhD graduate Anna Bramucci.

Major potential

One potential application of this research is in drug discovery and development. Unlike traditional antibiotics, which kill all bacteria, this research can be applied to develop drugs with a more fine-tuned approach, turning individual bacteria or cells on and off. Previously Case and colleagues have used this approach to find antibiotics that are effective at concentrations up to 1,000 times lower than traditional antibiotics.

“In interactions like these that occur in close proximity you can find molecules that are effective in very small concentrations,” said Case. “Going forward, that’s what we want—really potent molecules.”

Another area of interest is in natural fuels derived from living matter, called biofuels. “Algae can also be used to create lipids for biofuels,” explained Case. “If we can better understand their life cycles, we can find ways to keep them alive for longer, to produce more fuel for industry.”

Read the paper: Scientific Reports

Article source: University of Alberta

Image credit: Anna Bramucci/ University of Alberta

Weeds often emerge at the same time as vulnerable crop seedlings and sneak between plants as crops grow. How do farmers kill them without harming the crops themselves?

Seed and chemical companies have developed two major technologies to avoid crop injury from soil- and foliar-applied herbicides: genetically modified herbicide-tolerant crops; and safeners, chemicals that selectively – and mysteriously – protect certain crops from damage. In a new University of Illinois study, researchers identify genes and metabolic pathways responsible for safener efficacy in grain sorghum.

The discovery goes a long way in explaining how safeners work. According to Dean Riechers, weed scientist in the Department of Crop Sciences at U of I and co-author on the Frontiers in Plant Science study, scientists serendipitously discovered safeners in the late 1940’s. Greenhouse-grown tomato plants were inadvertently exposed to a synthetic plant hormone during an experiment. The tomatoes showed no symptoms of exposure to the hormone itself, but when a herbicide was sprayed later, they were unharmed. Without fully understanding how they worked, researchers began experimenting to find more “herbicide antidotes” before commercializing the first safener (dichlormid) for corn in 1971.

Today, after nearly 50 years of commercial use in corn, rice, wheat, and grain sorghum, safeners remain a mystery. The existence of synthetic chemicals that selectively protect high-value cereal crops and not broadleaf crops or weeds is fascinating but doesn’t make intuitive sense, according to Riechers. Figuring out how the protective mechanism switches on in cereal crops could one day help scientists induce protection in broadleaf crops, like soybeans and cotton.

“Finding a safener that works in dicot crops would be the Holy Grail,” Riechers says.

The first step, however, is understanding what happens inside cells of cereal crops when exposed to safeners. In previous trials with grain sorghum, the research team noticed a massive increase in production of glutathione S-transferases (GSTs). These important enzymes, present in all living organisms, quickly detoxify herbicides and other foreign chemicals before they can cause damage. But that didn’t narrow the haystack very much.

“These cereal crops have up to 100 GSTs, and we didn’t know if one or more was providing the protective effect,” Riechers says. “We also couldn’t tell why GSTs were increased.”

The team used an approach known as a genome-wide association study. They grew 761 grain sorghum inbred lines in a greenhouse and compared plants treated with safener only, herbicide only, or both safener and herbicide. Scouring the genome for differences, they found specific genes and gene regions that were switched on in the safener-treated plants. Not surprisingly, they were genes that coded for two GSTs.

“Although we suspected GSTs were involved, this technique seemingly pinpointed the gene responsible for safening sorghum, SbGSTF1, along with a second tandem GST gene,” Riechers says.

In addition to finding this key gene for detoxification, the researchers also analyzed the RNA molecules expressed in safener-treated plants and revealed a plant defense pathway pulling double duty.

According to Riechers and co-author Patrick Brown, sorghum is well-known for producing allelochemicals, or chemical defenses, against insects and pathogens. One of these, dhurrin, is a chemical with a cyanide group. When it is under attack, sorghum releases a “cyanide bomb,” killing the insect or pathogen. It turns out some genes involved in dhurrin synthesis and metabolism were triggered in response to safeners, too.

“This link to dhurrin was kind of a clue – maybe the safener is tapping into a chemical defense pathway the plant is already using to protect itself,” Riechers says. “This is a new concept no one has ever proposed before in sorghum. It’s giving us some insight why the safener might be eliciting this response in the plant.”

The ability to turn on defenses and protective pathways with safeners could have all sorts of applications, according to Riechers. “It doesn’t seem logical there would be a pathway that’s only specific for synthetic herbicides,” he says. “Maybe safeners could be deployed to protect crops against insect herbivores, chemical pollutants, or environmental stresses. The possibilities and applications are very promising.”

The researchers have plans and funding to expand the experiment to wheat, and ultimately hope to identify more precise safener-herbicide-crop combinations that could eventually translate to broadleaf crops.

Read the paper: Frontiers in Plant Science

Article source: University of Illinois

Image credit: You Soon Baek/University of Illinois

An international team based in Ghent, Belgium VIB-UGent Center for Plant Systems Biology and Basel, Switzerland (University of Basel) found a link between a class of enzymes and immune signals that is rapidly triggered upon physical damage in plants. This new discovery will increase our understanding of the plant immune system and might be exploited to improve crop health and yield in the future.

As a universal process in all multicellular organisms, including humans and plants, damaged cells send out signals to alert the surrounding tissue of the wound. These signals can activate the immune system to prevent infection and promote tissue regeneration, eventually leading to wound healing. In plants, short protein fragments or peptides play an important role in the immune system. These peptides are produced from precursor proteins that are ‘cut into shape’ by so-called proteolytic enzymes or proteases.

The problem is that there are a lot of proteases, which means that it is essential to identify which ones perform which roles in the plant immune system. By wounding leaves of the thale cress, Arabidopsis thaliana, the teams of Thomas Boller (Prof. emeritus, University of Basel), Frank Van Breusegem VIB-UGent Center for Plant Systems Biology and Kris Gevaert (VIB-UGent Center for Medical Biotechnology) found that a class of proteolytic enzymes called metacaspases played an important role in the plant’s response which involves the release of calcium and the peptide precursor protein PROPEP1. They checked their findings by producing a plant with a mutation in the gene coding for an important metacaspase. This plant was unable to release the immune signal.

To understand the speed and extent of the immune response in Arabidopsis, Simon Stael, the postdoc who led the efforts, damaged the roots with lasers. The targeted plant cells responded quickly. Simon Stael says: “We were really excited to see those first laser shots followed by calcium waves and PROPEP1 signal dispersion.” The newly uncovered process can be summarized as follows: damage elicits high calcium levels in the cell interior that activate metacaspases. These metacaspases go to work on PROPEP1, which regulates the immune response and associated damage limitation efforts.

This opens up new avenues of research since proteases usually cleave more than one protein. So, which other plant processes are influenced by metacaspases and contribute to wound response and immunity? We can now also use the laser ablation technique to look at a variety of other responses in the damaged cells and their surroundings, to learn more about the details of local wound response. Finally, crop breeding strategies mostly select for optimal growth, yield and quality of food or feed in combination with intensive pesticide use, potentially crippling the plant immune system. Metacaspases now emerge as potential targets for improved breeding techniques and better crop immunity.

Read the paper: Science

Article source: VIB-UGent Center for Plant Systems Biology

Image credit: Wikimedia Commons

A team of scientists has revealed a new, sustainable way for plants to increase carbon dioxide (CO2) uptake for photosynthesis while reducing water usage.

The breakthrough was led by a team of plant scientists at the University of Glasgow and has been published in the journal Science. The researchers used a new, synthetic light-activated ion channel, engineered from plant and algal virus proteins, to speed up the opening and closing of the stomata – pores in the leaves of plants – through which carbon dioxide (CO2) enters for photosynthesis.

Stomata are also the main route for water loss by plants. Previous attempts to reduce water usage by manipulating these pores has generally come at a cost in CO2 uptake.

Consequently, the plants engineered at Glasgow showed improved growth whilst conserving water use.

The scientists’ modified plants grew as normal and substantially better under light conditions typical of the field, fixing more CO2 while losing less water to the atmosphere.

Crop irrigation accounts for roughly 70% of fresh water use on the planet and its use has expanded at unsustainable rates over the past three decades. Scientists have been trying to find ways to make plants grow with less water. Until now, much of the research has reduced water consumption, but at a potential cost in reduced CO2 uptake and plant growth. This is not a satisfactory approach overall, given the growing demands on agricultural food production.

This new research now offers a different approach that can successfully improve growth without compromising water use efficiency.

The researchers studied the plant Arabidopsis, a member of the mustard family. Using the light-activated ion channel, called BLINK, the plant’s stomatal responses were accelerated and better synchronized when grown under fluctuating light – conditions which are typical of the natural environment (e.g. when clouds pass overhead or when shaded by neighboring plants). The engineered plants demonstrated improved growth and biomass production whilst also conserving water.

Co-corresponding author Prof John Christie, from the University’s Institute of Molecular, Cell and Systems Biology, said: “Our findings demonstrate the feasibility of improving the efficiency of water use by plants while making gains in photosynthetic CO2 assimilation and plant growth.”

Prof Mike Blatt added: “Previous efforts to improve plant water use efficiency have focused on reducing stomatal density, despite the implicit penalty in CO2 uptake for photosynthesis. Alternative approaches, like the one we have used, circumvent the carbon-water trade-off and could be used to improve crop yield, particularly under water limiting conditions.”

Lead author Maria Papanatsiou said: “Plants must optimize the trade-off between photosynthesis and water loss to ensure plant growth and yield. We adopt a well-established approach used in neuroscience, called optogenetics, to better equip stomata that are essential in balancing CO2 uptake and water loss.

“We used a genetic tool that acts as a switch allowing stomata to better synchronize with light conditions and therefore enhance plant performance under light conditions often met in agricultural settings.”

Read the paper: Science

Article source: University of Glasgow

Image credit: University of Glasgow

The creation of new library of mutants of the single-celled photosynthetic green alga Chlamydomonas reinhardtii enabled a Carnegie– and Princeton University-led team of plant scientists to identify more than 300 genes that are potentially required for photosynthesis. Photosynthesis is the process by which plants, algae, and some bacteria convert energy from sunlight into carbohydrates—filling our planet’s atmosphere with oxygen as a byproduct.

Their findings are published in Nature Genetics.

Chlamydomonas represents a group of algae that are found around the globe in fresh and saltwater, moist soil, and even snow. They are photosynthetic and readily grow in the lab, even in darkness if given the right nutrients. This makes Chlamydomonas an excellent research tool for plant biologists, especially for those interested in the genetics of the photosynthetic apparatus, as well as many other aspects of plant biochemistry, such as responses to light and stress.

In this study, the research team created a library of about 80,000 Chlamydomonas mutants which they used to identify 303 genes thought to participate in photosynthesis. Of these, 65 encode proteins that were already known to play a role in photosynthesis. The remaining 238 genes had no previously known role in photosynthesis, making them targets for further research. Twenty-one of them are considered high-priorities for additional investigations.

“This work opens the door to a new understanding of the various processes associated with photosynthetic function, which are of fundamental importance to our planet’s food supply, as well as, of course, to replenishing the atmospheric oxygen that we breathe,” said Carnegie co-author Arthur Grossman.

The research team’s findings indicate that nearly half of the genes that are necessary for plants to create carbohydrates by photosynthesis have not yet been characterized.

“This is remarkable, considering that genetic research on this fundamental process began in the 1950s,” said Princeton co-author Martin Jonikas, who was formerly at Carnegie. “Our library demonstrates how much work remains to be done in revealing mechanisms underlying the biochemical process that shaped our planet’s history and created the conditions that allowed life to thrive here.”

Zhiyong Wang, Acting Director of Carnegie’s Department of Plant Biology, added: “This work really illustrates the power of using high-throughput genetic techniques to address major issues in biology.”

Read the paper: Nature Genetics

Article source: Carnegie Science

Image credit: Louisa Howard, Dartmouth College. Courtesy: National Science Foundation