Wild Strawberry Secrets Revealed

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Woodland strawberry. Image courtesy of H. Zell, Wikimedia commons

                                                                                                                                                                                                                                                                                               
In a collaborative effort involving 74 researchers from 38 research institutes, scientists have produced the full genome of the woodland strawberry. The research appeared in Nature Genetics. Drs. Asaph Aharoni and Avital Adato of the Weizmann Institute’s Plant Sciences Department were the sole Israeli scientists participating in the project, but they made a major contribution in mapping the genes and gene families responsible for the strawberry’s flavor and aroma.

Aharoni has, for a number of years, been investigating the metabolic pathways of ripening, in which the substances that give the fruit its flavor and aroma are produced. He was one of the first to use biological chips (i.e., microarrays) to analyze genetic networks – including the ones involved in creating these substances – and he has also conducted a comparative analysis of these genes in wild and cultivated plants. Now that the full genome of the wild strawberry plant is available for research, he is able not only to conduct deeper and broader investigations but to shed new light on some of his past findings. For instance, a computerized analysis of the woodland strawberry genome revealed that an enzyme that Aharoni had previously characterized belongs to a relatively small family. This enzyme family is responsible for the production of a large number of aroma substances that provide the fruity notes in the strawberry’s flavor, and the finding helped clarify the means of production of these substances.
 
Aharoni hopes that, among other things, the newly sequenced genome will help scientists understand how to return the flavors and aromas that have been lost over years of breeding in the cultivated cousin of the wild strawberry. The intense, concentrated aroma and flavor of the woodland strawberry are, he says, something to aspire to.
 

Dr. Asaph Aharoni's research is supported by the Minna James Heineman Stiftung; and Roberto and Renata Ruhman, Brazil. Dr. Aharoni is the incumbent of the Adolfo and Evelyn Blum Career Development Chair of Cancer Research in Perpetuity.


 
Woodland strawberry. Image courtesy of H. Zell, Wikimedia commons
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From the Lab to the Ocean

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 Scanning electron microscope image of Emiliania huxleyi superimposed on a MODIS satellite image of an E. huxleyi bloom in the Barents Sea from 27 July 2004. Satellite image courtesy of Jacques Descloitres, MODIS Land Rapid Response Team, NASA; Inset SEM photo by Steve Gschmeissner, Photo Researchers, Inc.

 

 
 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

Phytoplankton – plant-like single-celled organisms that float in water – are vital to the health of the planet, according to Dr. Assaf Vardi, who recently joined the Institute’s Plant Sciences Department. “We can thank phytoplankton for every second breath we take. Even though they make up just 0.5% of Earth’s biomass, phytoplankton rival the planets’ rainforests when it comes to absorbing carbon dioxide and releasing oxygen _ they carry out about half the photosynthesis on the planet.” And these microorganisms, whose name means “plant drifters” in Greek, are the base of the marine food chain: Without phytoplankton, there would be no life in the ocean. On the other hand, for reasons that aren’t completely understood, their reproduction sometimes gets out of hand, producing algal blooms that can extend hundreds and thousands of kilometers. Some of these blooms simply choke off waterways, while others, among them the infamous “red tides,” produce neurotoxins that kill fish and work their way up the food chain, where they can be toxic to livestock and humans worldwide.

 
(l-r) Uri Sheyn, Dr. Assaf Vardi and Ruth Khait. Getting the drift
 
Agricultural and sewage runoff, as well as and other forms of pollution, are currently increasing the severity of harmful algal blooms in lakes and near coastal waters. Moreover, climate change is likely to increase ocean temperatures and reduce the mixing between layers that now helps dispel harmful algal blooms. In research that takes him from the lab bench to the open ocean, Vardi is attempting to unravel the complex ecology of these organisms by investigating their genes and the signals they produce to cope with their ever-changing environment, especially those involving algal blooms. In recent research in fjords along Norway’s coastline, he was even able to induce algal blooms in a controlled setting, using specialized facilities there to investigate the process. His research subjects include diatoms, whose glassy shells sport an endless variety of intricate shapes, and coccolithophores, whose calcium carbonate-based shells make them active participants in the global carbon cycle.
A Meeting of Science and Art
 
 
After earning a Ph.D. in molecular ecology from the Hebrew University of Jerusalem in 2004, Dr. Assaf Vardi conducted postdoctoral research at the Ěcole Normale Supĕrieure, Paris, and Rutgers University. He joined the Weizmann Institute faculty in 2010, and he has also been appointed an adjunct scientist at Woods Hole Oceanographic Institution.
 
Vardi is married to the artist Nivi Alroy, who borrows concepts from Vardi’s scientific research on apoptosis and cell-cell communication and reinterprets them in her sculptures. The couple recently collaborated on a children’s book that explains ecology through the lives of microorganisms in a drop of water from the ocean.
 
In his postdoctoral research, Vardi found that viruses are responsible for the disappearance of the algal blooms. But when he and his colleagues looked closely at the genetic sequences of both phytoplankton and virus, they found some surprises that led them to formulate new theories about their ecology and evolution. For instance, they discovered evidence for apoptosis – cell suicide – in the microorganisms. Apoptosis is ubiquitous in multi-celled organisms: Damaged or used-up cells die so that the whole may live. So why would a single-celled microorganism commit suicide? One explanation, says Vardi, is that the genes for cell death might have coevolved in both host and virus to prevent the virus from infecting and killing off all the phytoplankton – an evolutionary dead end. On the other hand, viruses may be recruiting the host cells’ death machinery to bud out after completing their replication cycle inside the cell. This could explain why the viruses seem to have genes previously seen only in host organisms.
 
It’s possible the phytoplankton have evolved a coordinated response to viral infection on the population level. A number of microorganisms are known to engage in such sophisticated group action, in which their communication is managed through chemical signals. Vardi is now searching for such signals in phytoplankton, which he has dubbed “infochemicals.” He has been finding that several of the substances he has identified in the lab – some produced by the phytoplankton, others by the viruses – appear at specific stages in the infection process. These could be used by researchers as biomarkers, he says, to monitor the health of plankton populations and catch viral infection in action in the oceans. Other types of infochemical might be directed toward competing species of marine microorganism. Vardi thinks that the fish-killing toxins produced in the algal blooms may even be a type of infochemical: “Phytoplankton may use them as a means of communication and for stress surveillance to help them acclimate to various environmental conditions.”
Understanding exactly what drives the ecological balance could be crucial to finding the means to restore it. But there could be side benefits to this research, as well. Infochemicals that induce apoptosis, for instance, might lead to new treatments for cancer and novel anti-viral drugs. And such genomes as those of the hard-shelled phytoplankton Vardi studies might yield useful information for nanomaterials scientists wanting to know the secrets of their minute and elaborate shell designs, or for scientists developing algae-based biofuels wanting to know which genes might increase their oil production.
 

Dr. Assaf Vardi's research is supported by the Raymond Burton Plant Genome Research Fund; the IPA Prize - for a promising New Scientist; Aboud and Amy Dweck, Rockville, MD; Charles Rothschild, Brazil; Roberto and Renata Ruhman, Brazil; and Luis Stuhlberger, Brazil. Dr. Vardi is the incumbent of the Edith and Nathan Goldenberg Career Development Chair.

 

 

 

 

 

 

 
Scanning electron microscope image of Emiliania huxleyi superimposed on a MODIS satellite image of an E. huxleyi bloom in the Barents Sea from 27 July 2004. Satellite image courtesy of Jacques Descloitres, MODIS Land Rapid Response Team, NASA; Inset SEM photo by Steve Gschmeissner, Photo Researchers, Inc.
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Battling Parasitic Weeds

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Prof. Jonathan Gressel
 
Prof. Jonathan Gressel developed herbicide resistance methods for battling parasitic weeds such as witchweeds and broomrapes, which ravage grain and legume crops in several parts of the world, particularly in the Middle East and sub-Saharan Africa. An estimated 100 million farmers lose half their yield to these parasites.
 

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In experiments in Kenya, conducted with the International Maize and Wheat Improvement Center (CIMMYT), maize yields tripled thanks to this approach. The new varieties have been released to seed companies, which commercialized them in western Kenya and Uganda and are continuing to breed additional resistant varieties, appropriate for other regions.
Prof. Jonathan Gressel
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Photodynamic Therapy of Cancer

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Prof. Avigdor Scherz
Prof. Avigdor Scherz studied photosynthesis, the process by which plants capture sunlight and convert it into useful energy. Together with Prof. Yoram Salomon, he developed light-sensitive compounds that successfully treated cancer in laboratory animals. The compounds are based on chlorophyll, the plants’ light-collecting pigment.
 

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The “green” compounds have been developed into drugs for use in photodynamic therapy of cancer. They are being tested in clinical trials of prostate cancer at two medical centers in Canada. Additional trials of prostate and other cancers are in the pipeline.
 
Prof. Avigdor Scherz
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Genetically Modified Wheat

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Prof. Emeritus Moshe Feldman
 
Prof. Emeritus Moshe Feldman developed innovative chromosomal engineering techniques and used them to transfer desired genes from wild emmer wheat into cultivated wheat.
 

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The resultant wheat provided higher yields than the original varieties.
 
Prof. Emeritus Moshe Feldman
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Hybrid Potato Seeds

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Prof. Emeritus Esra Galun
 
Prof. Emeritus Esra Galun developed a method for transferring intracellular organelles (mitochondria or chloroplasts) from a donor plant cell to a recipient plant. The method produced hybrid plants and later hybrid seeds of potatoes. These seeds do not pass on most viral diseases between generations of potato plants.
 

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The method helps farmers around the world, particularly in developing countries.
 
Prof. Emeritus Esra Galun
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Breeding improved varieties of melons

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Prof. Emeritus Esra Galun 
 
Prof. Emeritus Esra Galun used scientific methods for breeding improved varieties of melons.
 

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Early-ripening melons produced using Institute methods are grown at numerous farms in Israel.
 
Prof. Emeritus Esra Galun
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Hybrid Seed Production

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Prof. Emeritus Esra Galun
 
In the 1950s, Prof. Emeritus Esra Galun’s research focused mainly on hybrid seed production in cucumbers and melons and on breeding disease-resistant cucumbers as well as cucumbers suitable for mechanical harvesting. Galun and his colleagues were the first to find a way to produce hybrid cucumber seeds without hand pollination.
 

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This research resulted in the production of the first commercial hybrid cucumbers. Most cucumber varieties worldwide are still produced by modifications of the Institute technique, and cucumber seeds figure prominently in Israel’s agricultural exports.

The Institute’s disease-resistant Delilah cucumbers have captured a large portion of the market in Israel and much of the Middle East.
 
Prof. Emeritus Esra Galun
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Color It Pink

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(l-r) Dr. Asaph Aharoni, Dr. Ilana Rogachev, Tal Mendel and Dr. Avital Adato. Love that pink

 

 

 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
Banana yellow, lime green, plum purple: Our first association with a fruit is often its enticing color. But for plants, color is about much more than aesthetics. The purple compounds in grape skins, for instance, protect the fruits from ultraviolet radiation, pests and diseases. Humans also benefit from eating these substances – known as flavonoids – as they have all sorts of antioxidant and disease-preventing properties. They not only improve our health; these compounds and their derivatives tempt us into eating the fruit by helping it develop a pleasing aroma when it ripens.
 
Mutations in genes for color are prized – they produce purple peppers, yellow watermelons, pink tomatoes. Pink tomatoes lack a yellow pigment that’s found in normal red tomato skins. They’re also a bit sweeter than the average red tomato, making them popular, especially in the Far East. For this reason, breeders and agricultural firms have taken an interest in them.
 
Pink tomatoes have also caught the attention of Dr. Asaph Aharoni of the Institute’s Plant Sciences Department. Aharoni and his team focus on the thin outer layer of a plant – the cuticle – which is mainly composed of fatty, wax-like substances. In tomatoes, these substances are joined by large amounts of flavonoids, which both help to protect the fruit and add a strong yellow tint to the color. The cuticle of the mutant tomato, in contrast, is a delicate, translucent pink. In research that appeared in PLoS Genetics, Aharoni, Drs. Avital Adato and Ilana Rogachev, and research student Tal Mendel discovered the gene that makes the regular tomato yellowish-red and the mutant tomato pink.

Aharoni’s lab has a system that’s unique in Israel, and one of only a few in the world. Using a combination of molecular, chemical and analytical methods, he and his research team are able to identify hundreds of metabolites – active compounds in plants – and create a comprehensive profile of all the substances produced in the mutant plant, which is then compared with that of normal plants.

The scientists found that the difference between pink and red tomatoes goes much deeper than an absence of yellow pigment in the skin: They identified around 400 genes whose activities were radically different in the mutants – at least twice as intense or less than half of normal. The mutation influenced the production of a number of substances in the flavonoid family, both in the cuticle and in the flesh of the fruit. In addition, pink tomatoes contain less lycopene – a red pigment and powerful antioxidant known to have a number of health benefits. The pink cuticle is thinner than the red one but less flexible, due to alterations in the composition of the fatty substances.

The gene mutated in the pink tomato, known as SIMYB12, is a sort of “master switch” that regulates an entire network of other genes, overseeing the production and quantities of many metabolites in the tomato fruit. Aharoni: “Researchers can now use this gene as a ‘marker’ to reveal the future color of the fruit early on – months before the plant flowers and bears fruit. This might greatly accelerate the creation of new varieties, a process that normally can take 10 years or more.”

Dr. Asaph Aharoni’s research is supported by the De Benedetti Foundation-Cherasco 1547; and the Willner Family Foundation. Dr. Aharoni is the incumbent of the Adolpho and Evelyn Blum Career Development Chair of Cancer Research.

 
 
 
 
 
 
 
 
 
Dr. Arieh Moussaieff and the frankincense source
 

Color It Mellow

 

The rabbis who wrote the Talmud around 1,500 years ago knew about the unique properties of frankincense (levona in Hebrew). They sanctioned adding a pinch of the aromatic tree resin to the wine of a condemned criminal, to “benumb his senses.” Research by Dr. Arieh Moussaieff, a postdoctoral fellow in Dr. Asaph Aharoni’s lab, shows that this resin, gathered for thousands of years from trees of the genus Boswellia, contains compounds that relieve depression and anxiety.
 
Moussaieff first encountered frankincense while researching a plant-based remedy made in a monastery in Jerusalem’s Old City. In folk medicine, the resin is believed to have anti-inflammatory properties, and to ease digestive and respiratory problems. But frankincense is most widely used as incense in religious ceremonies ranging from ancient Egyptian, Jewish and Christian rites to Chinese and Indian rituals.
 
In his doctoral work at the Hebrew University of Jerusalem, Moussaieff isolated the active compounds in the resin. When tested on mouse models of human head injury, he found that some of these substances provide protection for the nervous system. He later noted the resin’s antidepression and antianxiety properties and, investigating further, found that they act on a previously unknown pathway in the brain that regulates emotion. These findings not only help explain the ubiquity of frankincense in religion, they also hint that the active compounds might be used in the future to treat any number of neurological diseases, from Alzheimer’s and Parkinson’s to depression.
 
Moussaieff’s current research involves investigating how the resin is produced in the tree. The active compounds are, at present, too complex to manufacture on a marketable scale, and he hopes that uncovering the natural mechanisms of frankincense creation in the tree will point the way toward methods of producing it efficiently.
 
l-r) Dr. Asaph Aharoni, Dr. Ilana Rogachev, Tal Mendel and Dr. Avital Adato
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Ancient Throwback: New Technology

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Unknown Object
 
 
biosensor reveals riboswitch activity
 
 
 
 
Today the management “posts” in the cell are occupied by proteins; but eons ago, when single-celled organisms were beginning to make their mark on Earth and life was simple, the living world might have been an “RNA world.” Recent findings suggest that RNA molecules, single strands of nucleic acids that are far less sophisticated than proteins, are capable of performing many of the cell’s main regulatory functions.
 
Riboswitches, discovered several years ago in bacteria, are segments of RNA that can bind to certain substances, thereby regulating the levels of these substances in the cell. Only one riboswitch has so far been found in higher organisms: The thiamin (vitamin B1) riboswitch regulates thiamin biosynthesis in numerous organisms that produce this vitamin – from the most ancient bacteria to highly developed plants. Dr. Asaph Aharoni and Samuel Bocobza of the Plant Sciences Department investigated this lone plant riboswitch. The scientists revealed the mechanism by which the riboswitch senses the presence of thiamin in the cell nucleus and makes sure the levels of this essential vitamin are neither too high nor too low by turning its production on or off as needed.
 
They may be ancient mechanisms, but riboswitches could be the basis of sophisticated future biotechnologies. Aharoni and Bocobza engineered reporter genes – genes that glow in fluorescent colors under the microscope when activated – that responded to thiamin levels as the riboswitches did. When inserted into plants, these reporters lit up whenever thiamin levels fell. This sort of reporter gene-riboswitch combination could pave the way to the design of live biosensors for all sorts of applications.  
 
Dr. Asaph Aharoni’s research is supported by the Sir Charles Clore Research Prize; the William Z. and Eda Bess Novick New Scientists Fund; the Henry S. and Anne Reich Family Foundation; Sir Harry Djanogly, CBE; Mrs. Louise Gartner, Dallas, TX; Mr. and Mrs. Mordechai Segal, Israel; and the estate of Fannie Sherr, New York, NY. Dr. Aharoni is the incumbent of the Adolpho and Evelyn Blum Career Development Chair of Cancer Research.
 
Biosensor makes the plant glow (right) when thiamin levels drop
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