Category Archives: Outreach project

Who’s afraid of germs? Apparently, plants are.

Researchers at UBC’s Michael Smith labs have identified a crucial gene that regulates the immune response in plants. Yes you heard correctly, the plant immune system.

Because we live the majority of our lives in cities, where the only thing we see wrong with plants is the burnt lawns in August, we could be excused for not knowing that plants can ‘get the flu’. But it’s true, plants get sick much like we do, with similarities down to the molecular scale.

Source: Wikimedia Commons

 This is the expertise of Dr. Li’s lab; paving the way to mapping the immune system of plants. This is no easy task. Teasing out the relationships between the dozens of genes responsible for plant immunity a like trying to put together a jigsaw puzzle blindfolded, not knowing what the assembled picture will look like. Recently however, they have published a paper that puts a piece solidly into place.

They have identified the gene that regulates the immune response by adjusting how NLR’s (an important class of immune receptors) are regulated. The gene, called CPR1, is part of a class of proteins that is involved in ubiquitination, which is the way all multicellular organisms ‘tag’ the proteins that need to be disposed of.

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This unfolding field of research is being spearheaded right here in UBC as well as in collaboration with teams from Beijing’s National Institute of Biological Sciences and Duke University. And although plant pathology is often overshadowed by its more charismatic, better-funded cousin, the study of the animal immune system, it’s by no means less important.

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 Music: Ergo Phizmiz – Papageno Drunk. Creative Commons.

So if we can get the plant to do the heavy lifting by making a protein that could adjust how hard the plant fights against a certain pathogen, we may eventually move away from using chemical control techniques that are often toxic to farmers and consumers alike.

Although it’s nice to imagine a bright tomorrow where all food crops will be perfectly immune against any blight that comes their way, we have to face the facts. In order for us to have our “Jetsons” dream come true, basic research must come first.

After all, as Dr. Li notes, even Albert Einstein didn’t realize that research on the atom could someday lead to atomic weaponry.  So we have no sound way to tell what fruits this research will bear in the future. Let’s hope that the next generation of scientists will only weaponize our crops metaphorically speaking.

 

 

The Missing Key: Psammosa pacifica

The mystery of our origins has always been a lifelong question even before the development of science. That development led to the theory of evolution and the debate of how humans and chimps have a common ancestor has been ongoing ever since. Not only that, it also led to many disputes and evolutionary questions between other lineages as humans have an innate curiosity of how things relate to one another.

A collage of protists source: wikimedia commons

As each lineage has things unique to them, our researcher became very interested in one particular group known as protists.

In today’s age, protist plays a role both positively and negatively, as the group covers a very wide spectrum. On the negative side, they are the reason for diseases such as malaria, with an estimated 207 million cases and 675,000 deaths in 2012 alone. Protist are also responsible for causing 3 billion dollars of loss per year in the poultry industry. Although protists do play an important role in other areas, such as acting as a primary food producer, their negative traits cause protist to be a very relevant issue in this day and age.

We met with Dr. Noriko Okamoto of UBC, who was able to find an organism called Psamoosa pacifica that contained the unique trait of two different groups of protist, known as dinoflagellates and apicomplexans, and was able to deduce that these two different groups shared a common ancestor through the use of serial Transmission Electron Microscopy (TEM) tomography, which allowed her to create many thin slices of the newly found organism and create a 3D image of its structure to compare.

Highlighted images of the structures of apicompexan, dinoflagellate, and Psammosa pacifica
Source of the images used: http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0084653

 For a crash course lesson on dinoflagellates and apicomplexans, listen to the following podcast below:

 

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Thus, her research was able to answer a long-standing evolutionary question of how apicomplexans and dinoflagellates are related to each other and their origin.This study may lead to answers about how the protists are related and help build on the knowledge of ancestries we currently have.

This video talks about the implications of her research as it delves into how it impacts both the general public and other scientific fields:

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While finding a common ancestor between organisms may seem like a mere curiosity in action, it has the potential to help the humanity. As an example, the scientists were able to find a lead on when and the origin of the HIV-1 virus by finding the ancestral codes in HIV-1 virus that codes for AIDS. Likewise, while even our researcher is not very clear on how beneficial this information may be to the scientists in other fields, they will surely find uses for it when the time comes as her study provides brand new knowledge in molecular levels.

I hope this blog post has raised some awareness on protists and the importance of finding a common ancestor.

-By Jong Hwan Seo, Jeffrey Chen, Hyunbin Park, and Yuri Tomura (Group 2)

Tomato Leaves Provide Insight to Natural Selection

By looking at differences that are found in domestic and wild tomato leaf DNA and traits, Dr. Chris Muir, from UBC Biodiversity Research Center, can confirm that the driving force behind all changes observed in physical traits are due to natural selection. Genetics account for various differences observed, and are responsible for making all organisms unique from one another.  Naturally, some differences are more fitted for survival in the environment than others. Thus, some traits tend to dominate, and organisms with these traits have a higher survival rate. The video below examines the concept of natural selection:

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Dr. Muir’s research builds on top of previous research experiments, as it uses genetic data collected by the Tomato Genetics Resource Center to determine where mutations lie. The Tomato Genetics Resource Center provides visualizations, which maps out where mutations are located. These images are known as introgression lines as pictured below. Each line is a different gene, and the shaded regions account for different types of mutations.

Image 1: Introgression Lines Courtesy of Tomato Genetics Resource Center

Determining which mutations are responsible for physical traits in the leaves is like doing a puzzle.  Dr. Muir would look at which differences could be found in physical traits of the tomatoes, and where the mutations were in that particular tomato. If the same physical traits were constantly being altered, such as leaf thickness, and the same regions of genes were affected, the two are likely to be correlated.

Instead of focusing on the entire tomato, Dr. Muir focused on leaf traits. He looked at several different types of leaves, which physically looked quite different from one another.

Image 2: Different variations of leaves in various types of tomatoes courtesy of Dr. Muir

The traits that were measured included leaf surface area and weight, as well as density and location of stomata and trichomes. Both stomata and trichomes appear to be rather complex terms, but they are merely scientific terms used to describe the pores and hairs, respectively, present on leaf surfaces. Both are responsible for regulating transpiration, leaf temperature, and other crucial cellular activities.

Although commonly overlooked, leaves are important to each plant’s survival. Leaves are responsible for growth stimulation of plants (Lam and Leopold 1966), and for photosynthesis – the harvest of energy. The size of the leaves, and the amount of stomata or trichome would influence the plants’ ability to survive in different environments.

Dr. Muir’s work was tedious, but rather simple. Using scanners, he measured the surface area, and using a scale, he measured the weight.

Image 3: Describing the Role of Stomata courtesy of Berkeley Education

He used an interesting application to examine the stomata and trichome. He applied clear nail polish, and look at the hardened impressions underneath the microscope.

The results were clear. Different types of tomatoes had distinct, unique traits that helped it to survive in the environment. Natural selection played a role in making these changes happen.

Dr. Muir’s work can be applied to many industries, and used in a variety of applications. To learn more, listen to the interview with Dr. Chris Muir below:

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Science 300 Group 3 – Christy Kwok, Sophia Hu, Claire Curran, and Felix Tang

Literature Referenced:

Lam, S. and Leopold, A.C. 1966. Role of Leaves in Phototropism. Plant Physiology. 41:847-851

Moyle, L.C., Muir, C.D. and Pease, J.B. 2014. Quantitative genetic analysis indicates natural selection on leaf phenotypes across wild tomato species (Solanum sect. Lycopersicon; Solanaceae).