Now the researchers are combining technology to resolve plant pathogenic genomes, With the help of new genome sequencing and assembly tools, plant scientists can learn more about the function and development of highly damaging plant pathogens that cannot be tamed by fungicides, antibacterial and antiviral agents.
However, using this genomic technology is not an easy task. The process requires not only time, but also money. Researchers have now proven that this expensive process can be improved by combining two generations of technology.
What costs one and a half and two million dollars can now be done in nine days for $ 1,000 – and technology is presented in the field with greater accuracy and application than ever before. Think of it as an analogy with a library full of books, two-thirds or three-quarters of it fully written. technology to resolve plant pathogenic genomes.
Before the project began, Haak, an assistant, and his team tried to prove that it was possible to produce a complete assembly in a relatively short time – but they needed a relatively complex genome to test their theory.
“The evolutionary cousin is a pathogen that triggered famine in Ireland in the 19th century, where at least one million people died and at least one million more people began to move.
One reason for this is that their genomes are configured so that they can develop intervention options by farmers in the field.
Microscopic image of a large root which divides the photo into two diagonal parts. On each side of the root there are many P. capsici spores that resemble lollipops. researchers are combining technology to resolve plant pathogenic genomes.
Images of P. capsici spores attach to Arabidopsis roots and begin the infiltration process. John Hurlich for Virginia Tech. With this type of pathogen, virulence genes are often found in poor areas associated with repetitive regions in the genome.
This repetitive area tends to develop rapidly and is key to understanding its pathogenicity or ability to cause disease.
To better understand the internal function of P. capsici, scientists need to extract DNA samples from pathogens and carry out genetic sequencing.
Genetic sequencing is the process that determines the sequence of nitrogen bases – or As, Cs, Gs, and Ts – that make up the body’s DNA.
However, only a number of DNA segments can be read in genome sequencing.
Scientists must then take this small sequence and put it together again so that DNA is displayed in the correct order.
Generating actual order data is not a problem. Gather this data. Gather sequence information in the correct order. In areas that are rich in replication, sometimes we are made by two genes that do not belong together, or we divide the complete gene into two because we believe that repetition occurs right in the middle.
In general, completing the body’s genomes requires strong technology – and patience. And although bioinformatics has made big strides over the years, not every generation is always better than the last. Every generation of technology has its own strengths.
With first generation technology, it takes one and a half years and around $ 2 million to sort the P. capsici genome. However, with Haak technology, it only takes nine days from DNA extraction to polished collection – and only costs $ 1,000.
To make things better, this technology can cut information 100,000 times more in about 1.5 percent of cases. And the technology is the size of a USB stick.
The second generation technology makes a very accurate, short reading. However, they do not perform well in repetitive areas.
And if scientists have to go back and reassemble the genome, there is a possibility of error.
With the new technology from P. capsici, Haak and McDowell experienced a shock. Haak and his group revealed that the genome was 1.5 times larger than previously thought.
“This is 30 percent of the genome that we didn’t even know existed, and this part of the genome is undoubtedly enriched with genes that are really important and help us understand what interacts with plants or reacts to fungicides or sprays for Haak, proof of concept is the most interesting thing about the results of this book.
We have something like a sequence archive database that is filled with all types of short reading sequences. In fact, with this newer technology, we can use all available data to produce more genomes with this quality.
The next generation of Haak technology is expected to revolutionize the way scientists collect genome data. With new, real-time data that can be accessed, scientists can improve previous assemblies and quickly create new ones that they can share in a sequence archive database.
I think this speaks for Fralin’s Virginia Tech-driven environment, which allows this type of collaboration to be put together and to receive critical support at an early stage. said the researcher.