Scientists identify gene that dramatically boosts yield in tomatoes

Washington, March 29 (ANI): A team of scientists has identified a gene that pushes hybrid tomato plants to spectacularly increase yield.

The yield-boosting power of this gene, which controls when plants make flowers, works in different varieties of tomato, and crucially, across a range of environmental conditions.

“This discovery has potential to have a significant impact on both the billion-dollar tomato industry, as well as agricultural practices designed to get the most yield from other flowering crops,” said Zach Lippman from Cold Spring Harbor Laboratory (CSHL), one of the three authors on the study.

The study is co-authored by Israeli scientists Uri Krieger and Professor Dani Zamir.

The team made the discovery while hunting for genes that boost hybrid vigor, a revolutionary breeding principle that spurred the production of blockbuster hybrid crops like corn and rice a century ago.

Hybrid vigor, also known as heterosis, is the miraculous phenomenon by which intercrossing two varieties of plants produces more vigorous hybrid offspring with higher yields.

First observed by Charles Darwin in 1876, heterosis was rediscovered by CSHL corn geneticist George Shull 30 years later, but how heterosis works has remained a mystery.

Shull’s studies suggested that harmful, vigor-killing gene mutations that accumulate naturally in every generation are exposed by inbreeding, but hidden by crossbreeding.

“But there is still no consensus as to what causes heterosis,” said Lippman.

“Another theory for heterosis, supported by our discovery, postulates that improved vigor stems from only a single gene – an effect called “superdominance” or “overdominance”,” he added.

To find overdominant genes, the team developed a novel approach by turning to a vast tomato “mutant library” – a collection of 5,000 plants, each of which has a single mutation in a single gene that causes defects in various aspects of tomato growth, such as fruit size and leaf shape.

Selecting a diverse set of mutant plants, most of which produced low yield, the team crossed each mutant with its normal counterpart and searched for hybrids with improved yield.

Among several cases, the most dramatic example increased yield by 60 percent.

This hybrid, the team found, produced greater yields because there was one normal copy and one mutated copy of a single gene that produces a protein called florigen.

This protein, touted as the breakthrough discovery of the year in 2005 in Science magazine, instructs plants when to stop making leaves and start making flowers, which in turn produce fruit.

“Our results indicate that breeding with hybrid mutations could prove to be a powerful new way to increase yields, not only in tomato, but all crops,” said Lippman. (ANI)

Short- and long-term memories require same gene, but in different brain circuits

Washington, August 18 (ANI): Conducting experiments on fruit flies, a group of scientists have found that long-term and short-term memories are stored very differently because they depend upon the activity of a gene in different circuits of the brain.

Assistant Professor Josh Dubnau, of Cold Spring Harbor Laboratory (CSHL), has ofund that both short- and long-term memories require the same gene, known as rutabaga, of which humans also have a similar version.

He and his colleagues say that a rapidly occurring, short-lived trace in a group of neurons that make up a structure called the “gamma” lobe produces a short-term memory, while a slower, long-lived trace in the “alpha-beta” lobe fixes a long-term memory.

During the study, the researchers placed flies in a training tube attached to an electric grid, and administered shocks through the grid right after a certain odour was piped into the tube.

They observed that the flies with normal rutabaga genes learnt to associate the odour with the shock, and, if given a choice, buzzed away from the grid.

On the other hand, the flies that carried a mutated version of rutabaga in their brains lacked both short- and long-term memory, did not learn the association, and failed to avoid the shocks.

However, the researchers also found that total memory deficit did not occur when flies carried the mutated version in either the gamma or in the alpha-beta lobes.

They said that restoring the normal rutabaga function in the gamma lobe caused the flies to regain short-term memory, but not long-term memory.

Similarly, added the researchers, restoring the gene’s function in the alpha-beta lobe alone restored long-term memory, but not short-term memory.

“This ability to independently restore either short- or long-term memory depending on where rutabaga is expressed supports the idea that there are different anatomical and circuit requirements for different stages of memory,” Dubnau said.

His team will next try to determine how much cross talk, if any, is required between the two lobes for long-term memory to get consolidated, hoping that it may add to the progress that scientists have already made in treating memory deficits in humans with drugs aimed at molecular members of the rutabaga-signalling pathway to enhance its downstream effects.

A research article describing the study has been published in the journal Current Biology. (ANI)

‘DNA Sudoku’ to revolutionise genome sequencing, medical genetics

Washington, June 25 (ANI): Sudoku, the popular mathematics puzzle that has taken people by storm, is now set to revolutionize the world of genome sequencing and the field of medical genetics, according to a new study.

Researchers at Cold Spring Harbor Laboratory (CSHL) have combined 2,000-year-old Chinese math theorem with concepts from cryptologyto develop what they dubbed as the “DNA Sudoku”, because of its similarity to the logic and combinatorial number-placement rules used in the popular game.

The strategy allows tens of thousands of DNA samples to be combined, and their sequences – the order in which the letters of the DNA alphabet (A, T, G, and C) line up in the genome – to be determined all at once.

The accomplishment is quiet contrary to past approaches that allowed only a single DNA sample to be sequenced at a time.

It also has an upper hand on current approaches that, at best, can combine hundreds of samples for sequencing.

“In theory, it is possible to use the Sudoku method to sequence more than a hundred thousand DNA samples,” said CSHL Professor Gregory Hannon, leader of the team that invented the “Sudoku” approach.

With such efficiency, the approach promises to reduce costs dramatically.

The new method has tremendous potential for clinical applications. It can be used, for example to analyse specific regions of the genomes of a large population and identify individuals who carry mutations that cause genetic diseases – a process known as genotyping.

The key to the team’s innovation is the pooling strategy, which is based on the 2,000-year-old Chinese remainder theorem.

The method is currently best suited for genotype analyses that require only short segments of an individual’s genome to be sequenced to find out if the individual is carrying a certain variant of a gene or a rare mutation.

However, with the improvement in sequencing technologies and researchers gaining the ability to generate sequences for longer segments of the genome, Hannon envisions wider clinical applications for their method such as HLA typing, already an important diagnostic tool for autoimmune diseases, cancer, and for predicting the risk of organ transplantation.

The report will be published as the cover story in the July 1 issue of the journal Genome Research.(ANI)

Isolated birds learn ‘wild-type’ song over several generations

London, May 4 (ANI): Highlighting the role of genetics in the development of culture, a new study have found that a bird raised in isolation will, over several generations, produce a song similar to that sung by the species in the wild.

Biologists at The City College of New York (CCNY) and Cold Spring Harbor Laboratory (CSHL) conducted the study on zebra finches.

Dr. Olga Feher, who performed the experiment for her dissertation at CCNY, said that first generation male zebra finches raised in isolation produced an unstructured, often abnormal-sounding song that was quite different from the “wild-type” song.

These birds were paired in a “tutor-pupil” relationship with a new generation of zebra finches that imitated their tutors’ songs, but changed certain characteristics.

The researchers observed that the alterations accumulated over generations and by the fourth generation the song had evolved toward the “wild-type” song.”

“We were surprised the song reverted back to the “wild-type” song so fast,” nature quoted Feher as saying.

She added: “Culture appears to be encoded in the birds. It just needed a few generations to emerge,” said Dr. Ofer Tchernichovski, CCNY Professor of Biology.

It was found that the same pattern of evolution in the song occurred whether the subsequent generations of male birds were raised among female birds, which do not sing, and siblings in a colony setting or just among isolate males one-on-one.

The researchers observed a similar phenomenon among deaf children in Nicaragua, where children developed a rudimentary sign language in the home that spontaneously evolved into a more sophisticated sign language when they were placed in a school with other deaf children.

Feher concluded that the experiment “identified some encoded traits of culture.”

This finding could be used to explain why different species develop different song cultures,” added Tchernichovski.

The study was published in the latest edition of Nature. (ANI)