Sunday, June 24, 2012

Tomato genome fully sequenced


Tomato

For the first time, the genome of the tomato, Solanum lycopersicum, has been decoded, and it becomes an important step toward improving yield, nutrition, disease resistance, taste and color of the tomato and other crops. The full genome sequence, as well as the sequence of a wild relative, is jointly published in the latest issue of the journal Nature (May 31, 2012).
Specifically, the genome was sequenced from the "Heinz 1706" tomato.
The publication caps years of work by members of the Tomato Genomics Consortium, an  between Argentina, Belgium, China, France, Germany, India, Israel, Italy, Japan, the Netherlands, South Korea, Spain, United Kingdom, United States and others.
James Giovannoni, a scientist at the Boyce Thompson Institute for Plant Research, located on the campus of Cornell University, and the U.S. , lead the U.S. tomato sequencing team, which includes researchers at several institutions. The wild tomato (Solanum pimpinellifolium)  was developed at Cold Spring Harbor Laboratory.
Consortium researchers report that tomatoes possess some 35,000 genes arranged on 12 chromosomes. "For any characteristic of the tomato, whether it's taste, natural or , we've captured virtually all those genes," says Giovannoni.
The sequences of these genes and their arrangement on the  are described in the Nature article, "The tomato genome sequence provides insights into fleshy fruit evolution," which is information that allows researchers to move at a quicker pace and plant breeders to produce new varieties with specific desired characteristics.
"Tomato genetics underlies the potential for improved taste every home gardener knows and every supermarket shopper desires and the genome sequence will help solve this and many other issues in tomato production and quality," says Giovannoni.
Now that the genome sequence of one variety of tomato is known, it will also be easier and much less expensive for seed companies and plant breeders to sequence other varieties for research and development, he added. Whereas the first tomato genome sequence came at a cost of millions of dollars, subsequent ones might only cost $10,000 or less, by building on these initial findings.
To provide access to the gene sequences of the tomato and related species, Boyce Thompson Institute scientist Lukas Mueller and his team have created an interactive website (www.solgenomics.net). In the United States, Boyce Thompson Institute scientists Zhangjun Fei and Joyce Van Eck contributed to the sequence and its analysis. Other U.S. institutions involved: Cornell University, Colorado State, University of Florida, University of Oklahoma, University of Georgia, University of Arizona, University of Delaware, Montana State, University of Tennessee, Cold Spring Harbor Laboratory and the USDA.
The sequencing of the tomato genome has implications for other plant species. Strawberries, apples, melons, bananas and many other fleshy fruits, share some characteristics with tomatoes, so information about the genes and pathways involved in fruit ripening can potentially be applied to them, helping to improve food quality, food security and reduce costs.
"Now we can start asking a lot more interesting questions about fruit biology, disease resistance, root development and nutritional qualities," Giovannoni says. Tomatoes represent a $2 billion market in the United States alone. The USDA estimates that Americans consume, on average, more than 72 pounds of tomato products annually.
The sequencing would not have been possible without the work of Cornell's Steven Tanksley and Boyce Thompson's Greg Martin in the 1990s. Tanksley, Martin and other Ithaca scientists developed genetic maps and other molecular tools for tomatoes to study mechanisms of , and those tools ultimately paved the way for the consortium's sequencing efforts.
More information: The tomato Genome Concortium; Tomato genome sequencing and comparative analysis reveal two consecutive triplications that spawned genes influencing fruit characteristics, Nature, 2012.
The genome sequence and related resources can be accessed at the Solgenomics website.
Journal reference: Nature  
Provided by Cornell University 

Wednesday, June 20, 2012

Hydroponics


The History of Hydroponics

The word hydroponics comes from two Greek words, "hydro" meaning water and "ponics" meaning labor. The concept of soil less gardening or hydroponics has been around for thousands of years. The hanging Gardens of Babylon and The Floating Gardens of China are two of the earliest examples of hydroponics. Scientists started experimenting with soil less gardening around 1950. Since then other countries, such as Holland, Germany, and Australia have used hydroponics for crop production with amazing results.

The Benefits of Hydroponics

Hydroponics is proved to have several advantages over soil gardening. The growth rate on a hydroponic plant is 30-50 percent faster than a soil plant, grown under the same conditions. The yield of the plant is also greater. Scientists believe that there are several reasons for the drastic differences between hydroponic and soil plants. The extra oxygen in the hydroponic growing mediums helps to stimulate root growth. Plants with ample oxygen in the root system also absorb nutrients faster. The nutrients in a hydroponic system are mixed with the water and sent directly to the root system. The plant does not have to search in the soil for the nutrients that it requires. Those nutrients are being delivered to the plant several times per day. The hydroponic plant requires very little energy to find and break down food. The plant then uses this saved energy to grow faster and to produce more fruit. Hydroponic plants also have fewer problems with bug infestations, funguses and disease. In general, plants grown hydroponically are healthier and happier plants.
Hydroponic gardening also offers several benefits to our environment. Hydroponic gardening uses considerably less water than soil gardening, because of the constant reuse the nutrient solutions. Due to lack of necessity, fewer pesticides are used on hydroponic crops. Since hydroponic gardening systems use no topsoil, topsoil erosion isn't even an issue. Although, if agricultural trends continue to erode topsoil and waste water, hydroponics may soon be our only solution.

Growing Mediums

The purpose of a growing medium is to aerate and support the root system of the plant and to channel the water and nutrients. Different growing mediums work well in different types of hydroponic systems. A fast draining medium, such as Hydroton or expanded shale works well in an ebb and flow type system. Hydroton is a light expanded clay aggregate. It is a light, airy type of growing medium that allows plenty of oxygen to penetrate the plant's root system. Both types of grow rocks can be reused, although the shale has more of a tendency to break down and may not last as long as the Hydroton. These grow rocks are very stable and rarely effect the pH of the nutrient solution.
Rockwool has become an extremely popular growing medium. Rockwool was originally used in construction as insulation. There is now a horticultural grade of Rockwool. Unlike the insulation grade, horticultural Rockwool is pressed into growing cubes and blocks. It is produced from volcanic rock and limestone. These components are melted at temperatures of 2500 degrees and higher. The molten solution is poured over a spinning cylinder, comparable to the way cotton candy is made, then pressed into identical sheets, blocks or cubes. Since Rockwool holds 10-14 times as much water as soil and retains 20 percent air it can be used in just about any hydroponic system. Although the gardener must be careful of the pH, since Rockwool has a pH of 7.8 it can raise the pH of the nutrient solution. Rockwool cannot be used indefinitely and most gardeners only get one use per cube. It is also commonly used for propagation.
Other commonly used growing mediums are perlite, vermiculite and different grades of sand. These three mediums are stable and rarely effect the pH of the nutrient solution. Although, they tend to hold too much moisture and should be used with plants that are tolerant to these conditions. Perlite, vermiculite and sands are very inexpensive options, and work charitably in wick systems, although they are not the most effective growing mediums.

Nutrients

Most of the principles that apply to soil fertilizers also apply to hydroponic fertilizers, or nutrient solutions. A hydroponic nutrient solution contains all the elements that the plant normally would get from the soil. These nutrients can be purchased at a hydroponic supply store. Most are highly concentrated, using 2 to 4 teaspoons per gallon of water. They come in liquid mixes or powered mixes, usually with at least two different containers, one for grow and one for bloom. The liquids are the slightly more expensive and the easiest to use. They dissolve quickly and completely into the reservoir and often have an added pH buffer. The powered varieties are inexpensive and require a little more attention. They need to be mixed much more thoroughly and often don't dissolve completely into the reservoir. Most do not have a pH buffer.
Like soil, hydroponic systems can be fertilized with organic or chemical nutrients. An organic hydroponic system is considerably more work to maintain. The organic compounds have a tendency to lock together and cause pumps blockage. Some hydroponic gardeners simply supplement their hydroponic gardens with organic nutrients, using the chemical nutrients as the main food supply. This gives the plants a stable supply of nutrients without the high maintenance a hydro-organic system.

pH

Most plants can grow hydroponically within a pH range of 5.8 to 6.8, 6.3 is considered optimal. The pH in a hydroponic system is much easier to check than the pH of soil. Many hardware, pet, and hydroponic supply stores sell pH-testing kits. They range in price from $4.00 to about $15.00, depending on the range and type of test you prefer. Testing pH is easy and essential in a hydroponics system. If the pH is too high or too low the plant will not be able to absorb certain nutrients and will show signs of deficiencies. pH should be checked once a week. It is easy to adjust by adding small amounts of soluble Potash to raise pH, or phosphoric acid to lower pH. There are also several pH meters available. These give a digital reading of the pH in the system. The pH meter cost around $100 and are not necessary in most cases.

Hydroponic Systems

Hydroponic systems are characterized as active or passive. An active hydroponic system actively moves the nutrient solution, usually using a pump. Passive hydroponic systems rely on the capillary action of the growing medium or a wick. The nutrient solution is absorbed by the medium or the wick and passed along to the roots. Passive systems are usually too wet and do not supply enough oxygen to the root system for optimum growth rates.
Hydroponic systems can also be characterized as recovery or non-recovery. Recovery systems or recirculating systems reuse the nutrient solution. Non-recovery means just what it says. The nutrient solution is applied to the growing medium and not recovered.

The Wick System

The wick system is a passive non-recovery type hydroponic system. It uses no pumps and has no moving parts. The nutrients are stored in the reservoir and moved into the root system by capillary action often using a candle or lantern wick. In simpler terms, the nutrient solution travels up the wick and into the root system of the plant. Wick systems often uses sand or perlite, vermiculite mix and a growing medium. The wick system is easy and inexpensive to set-up and maintain. Although, it tends to keep the growing medium to wet, which doesn't allow for the optimum amount of oxygen in the root system. The wick system is not the most effective way to garden hydroponically.

The Ebb and Flow System

The Ebb and Flow hydroponic system is an active recovery type system. The Ebb and Flow uses a submersible pump in the reservoir and the plants are in the upper tray. They work on a simple flood and drain theory. The reservoir holds the nutrient solution and the pump. When the pump turns on, the nutrient solution is pumped up to the upper tray and delivered to the root system of the plants. The pump should remain on for about 20 to 30 minutes, which is called a flood cycle. Once the water has reached a set level, an overflow pipe or fitting allows the nutrient solution to drain back into the reservoir. The pump remains on for the entire flood cycle. After the flood cycle the nutrient solution slowly drains back down into the reservoir through the pump.
During the flood cycle oxygen poor air is pushed out of the root system by the upward moving nutrient solution. As the nutrient solution drains back into the reservoir, oxygen rich air is pulled into the growing medium. This allows the roots ample oxygen to maximize their nutrient intake. Rockwool and grow rocks are most commonly used growing mediums in Ebb and Flow type systems. The Ebb and Flow is low maintenance, yet highly effective type of hydroponic gardening.

Nutrient Film Technique

The Nutrient Film Technique or NFT system is an active recovery type hydroponic system. Again, using submersible pumps and reusing nutrient solutions. The NFT uses a reservoir with a submersible pump that pumps the nutrient solution into a grow-tube where the roots suspended. The grow-tube is at a slight downward angle so the nutrient solution runs over the roots and back into the reservoir. The nutrient solution flows over the roots up to 24 hours per day.
Oxygen is needed in the grow-tube so capillary matting or air stones must be used. The plants are held up by a support collar or a grow-basket and no growing medium is used. The NFT system is very effective. Although, many novice hydroponic growers find it difficult to fine tune. It can also be very unforgiving, with no growing medium to hold any moisture, any long period of interruption in the nutrient flow can cause the roots to dry out and the plants to suffer and possibly die.

Continuous Drip

The Continuous Drip system is an active recovery or non-recovery type system. This system uses a submersible pump in a reservoir with supply lines going to each plant. With drip emitter for each plant the gardener can adjust the amount of solution per plant. A drip tray under each row of plants, sending the solution back to the reservoir, can easily make this system an active recovery type. In the early days of hydroponics, the extra solution was leached out into the ground. Continuous Drip systems are often used with Rockwool. Although, any growing medium can be used with this system, thanks to the adjustment feature on each individual drip emitter.

Buying a System or Building a System

This is the most asked question relating to hydroponics. Should I buy one or build one? This author recommends a little of both. If you have an engineer's mind and dream of building your own hydroponic system, buy one first! Getting an inexpensive system will allow you to get your feet wet and give you a better understanding of how hydroponics works. The hands on experience is worth the cost of the system and chances are, you will be able to reuse the parts in that system when you set out to build your own.
If you would rather get right into building your own, do your research. Get all the information you can and don't rely on just one source. This is a constantly changing industry and there are many books still on the shelves that are already outdated. Building your own system can be very rewarding or extremely frustrating. It's mostly trial and error so, be patient.
Hydroponic gardening is the wave of the future. It is currently being studied in classrooms around the country, local horticultural societies and in government funded research at major universities and NASA. It is also becoming a popular hobby. Hydroponics is fun, exciting and easy to get involved in.

Tuesday, June 19, 2012

Industrial Biotechnology Companies Receive Green Chemistry Awards for Cleaner, Safer Production and Energy Savings


WASHINGTON, Jun 18, 2012 (BUSINESS WIRE) -- Industrial biotechnology is being used to improve production of cleaner, healthier products, saving energy, reducing costs, and reducing pollution from manufacturing. The Biotechnology Industry Organization (BIO) today congratulated member companies Elevance Renewable Sciences and Codexis on receiving 2012 Presidential Green Chemistry Challenge Awards.
"Industrial biotechnology is already being used to produce products for the home that are cleaner and safer for the environment, require less energy for manufacturing and lower production costs," said Brent Erickson, executive vice president of BIO's Industrial & Environmental Section. "BIO congratulates our members who have been recognized through the Presidential Green Chemistry Awards for their pioneering advances in applying industrial biotechnology to manufacturing. Their achievements show that more widespread adoption of industrial biotechnology processes can help establish a new path for sustainable economic growth and job creation, without continued reliance on foreign oil."
Elevance Renewable Sciences, Inc. received a Small Business Award for producing high-performing, renewable specialty chemicals at advantageous costs. Elevance employs Nobel-prize-winning catalyst technology to produce novel, high-performance renewable specialty chemicals for many uses that combine the benefits of both petrochemicals and biobased chemicals. The technology consumes significantly less energy and reduces greenhouse gas emissions by 50 percent compared to petrochemical technologies.
Codexis, Inc. received a Greener Synthetic Pathways Award for an efficient biocatalytic process to manufacture simvastatin, a leading drug for treating high cholesterol. The previous multistep method for producing simvastatin was wasteful and used large amounts of hazardous reagents. Codexis optimized the chemical process to greatly reduce hazard and waste, be more cost-effective and meet the needs of customers.
About BIO
BIO represents more than 1,100 biotechnology companies, academic institutions, state biotechnology centers and related organizations across the United States and in more than 30 other nations. BIO members are involved in the research and development of innovative healthcare, agricultural, industrial and environmental biotechnology products. BIO also produces the BIO International Convention, the world's largest gathering of the biotechnology industry, along with industry-leading investor and partnering meetings held around the world. BIO produces BIOtech NOW, an online portal and monthly newsletter chronicling "innovations transforming our world." Subscribe to BIOtech NOW.
Upcoming BIO Events
2012 BIO International Convention June 18-21, 2012 Boston, MA
BIO Business Forum June 18 -- 21, 2012 Boston, MA
BIO India International Conference September 12 -- 13, 2012 Mumbai, India
Livestock Biotech Summit September 19 -- 21, 2012 Kansas City, MO
BIO Investor Forum October 9-10, 2012 San Francisco, CA
Pacific Rim Summit on Industrial Biotechnology and Bioenergy October 10 -- 12, 2012 Vancouver, Canada
The BIO Convention in China October 24 -- 25, 2012 Shanghai, China
SOURCE: Biotechnology Industry Organization
BIO 
        Paul Winters,             202-962-9237       
        pwinters@bio.org
        


Copyright Business Wire 2012 
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