Tag: Cool Tools/Techniques

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What Is CRISPR?

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It might sound like a science fiction author made up genetic engineering, but it’s a real tool researchers use in the laboratory! A gene is a segment of DNA that codes for a protein. The information within a gene directs the building of a protein, block by block, through the process of gene expression. For a variety of reasons, including learning about certain cellular processes, scientists use genetic engineering in the lab to manipulate a cell’s genes and the proteins they encode.

Bacteria, shaped as a cluster of orange spheres with bumpy surfaces, on top of an uneven surface.
Streptococcus bacteria under the microscope. Species in this genus, such as Streptococcus pyogenes, have a CRISPR-based defense system. Credit: NIAID/NIH.

One of the most commonly used genetic engineering techniques is called clustered regularly interspaced short palindromic repeats (CRISPR), named for the odd, repeating sequences that researchers found in bacterial DNA in 1987.

Eventually, researchers discovered that these sequences are part of a bacterial immune system. (Just like humans, bacteria are susceptible to viral infections!) Some bacteria are able to insert short sequences of DNA from viruses that previously infected them into their own genome, allowing them to “remember” and more quickly recognize that virus in the future. If the invader tries to attack again, the bacterium recognizes and kills it by chopping up the part of its DNA that matches the “memory” using a special type of protein, an enzyme called CRISPR-Associated (Cas) protein. Our own immune systems also have the ability to remember pathogens through our adaptive immune response.

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Trainee Colton Pelletier Builds a Rotifer-Studying Robot

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Colton Pelletier posing in front of complex laboratory machinery and a computer screen.
Colton Pelletier with Roti-Bot. Credit: Grace Boland, RWU.

During his time at Roger Williams University (RWU) in Bristol, Rhode Island, Colton Pelletier built a robot that will help simplify data collection for research projects in the lab he worked in—and others—for years to come. Aiding in Colton’s success in the lab was NIGMS funding through the Institutional Development Award (IDeA) Networks of Biomedical Research Excellence (INBRE) program. INBRE funds statewide networks of higher education in IDeA states such as Rhode Island, which have historically received low levels of NIH funding. The program supports faculty research, mentoring, student participation in research, and research infrastructure by connecting primarily undergraduate institutions with research-intensive universities in the state.

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Science Snippet: Zooming In on Nanoparticles

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A circle divided into six different, brightly colored slices, each with a different style of nanoparticle. In the center is a gray circle with the word nanoparticles.
Nanoparticles come in many different shapes and configurations. Credit: Adapted from Stevens, et. al., under Creative Commons License 4.0.

Nanoparticles may sound like gadgets from a science fiction movie, but they exist in real life. They’re particles of any material that are less than 100 nanometers (one-billionth of a meter) in all dimensions. Nanoparticles appear in nature, and humans have, mostly unknowingly, used them since ancient times. For example, hair dyeing in ancient Egypt involved lead sulfite nanoparticles, and artisans in the Middle Ages added gold and silver nanoparticles to stained-glass windows. Over the past several decades, researchers have studied nanoparticles for their potential uses in many fields, from computer engineering to biology.

A nanoparticle’s properties can differ significantly from those of larger pieces of the same material. Properties that may change include:

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Curiosity-Driven Science: Q&A With Saad Bhamla

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What do worm blobs and insect pee have to do with human health? We talked to Saad Bhamla, Ph.D., assistant professor of chemical and biomolecular engineering at Georgia Institute of Technology (Georgia Tech) in Atlanta, to find out.

Q: What did your path to becoming a scientist look like?

A portrait shot of Saad Bhamla.
Credit: Rob Felt, Georgia Tech.

A: I grew up in Dubai and did my undergraduate work in India, which is where I was first introduced to science. The science faculty members seemed to be having so much fun and would say things like “for the love of science,” but I couldn’t figure out what joy they were getting until I got a taste of it myself—then I was hooked. I like the idea that you can create a legacy doing science because someone can come along 100 years later and build on your work.

After undergrad, I went to Stanford University and earned my Ph.D. in the lab of Gerald Fuller, Ph.D., and then stayed at Stanford for postdoctoral work (postdoc) in the lab of Manu Prakash, Ph.D. In 2017, I joined the faculty at Georgia Tech. On paper, I’m a chemical engineer, but I describe myself as more of a biophysicist.

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Building a Digital Immune System

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A headshot of Dr. Helikar.
Credit: Courtesy of Dr. Tomas Helikar.

The power of computer code has been a longtime fascination for Tomas Helikar, Ph.D., a professor of biochemistry at the University of Nebraska-Lincoln (UNL). In college, when he learned he could use that power to help researchers better understand biology and improve human health, Dr. Helikar knew he’d found his ideal career. Since then, he’s built a successful team of scientists studying the ways we can use mathematical models in biomedical research, such as creating a digital replica of the immune system that could predict how a patient will react to infectious microorganisms and other pathogenic insults.

A Career in Computational Biology

Dr. Helikar first became involved in computer science by learning how to build a website as a high school student. He was amazed to learn that simple lines of computer code could be converted into a functional website, and he felt empowered knowing that he had created a real product from his computer.

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Career Conversations: Q&A With Polymer Chemist Frank Leibfarth

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A headshot of Dr. Leibfarth.
Credit: Courtesy of Dr. Frank Leibfarth.

“I love that you can change the molecular-level structure of a material, then pull it, bend it, or twist it and see firsthand how the molecular changes you introduced influence its stretchiness or bendiness,” says Frank Leibfarth Ph.D., an associate professor of chemistry at the University of North Carolina (UNC) at Chapel Hill. In an interview, Dr. Leibfarth shares with us his scientific journey, his use of chemistry to tackle challenges in human health and sustainability, and his beliefs on what makes a career in science exciting.

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Automating Cellular Image Analysis to Find Potential Medicines

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A professional photo of Dr. Carpenter.
Dr. Anne Carpenter. Credit: Juliana Sohn.

When she started college, Anne Carpenter, Ph.D., never guessed she’d one day create software for analyzing images of cells that would help identify potential medicines and that thousands of researchers would use. She wasn’t planning to become a computational biologist, or even to focus on science at all, but she’s now an institute scientist and the senior director of the Imaging Platform at the Broad Institute of Massachusetts Institute of Technology (MIT) and Harvard in Cambridge.

Starting Out in Science

Before beginning her undergraduate studies at Purdue University in West Lafayette, Indiana, Dr. Carpenter’s strongest interests were reading and writing. Then, her subjects expanded. “In college, I liked science as much as anything else, and I realized that was unusual, as a lot of other people really struggled with it. I decided to pursue science because I enjoyed it and the field had good job prospects,” she says. Dr. Carpenter majored in biology because she felt it had the “juiciest questions” as well as a direct impact on human health.

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Career Conversations: Q&A With Evolutionary Biologist William Ratcliff

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Dr. Ratcliff wearing a lab coat and safety goggles and sitting at a microscope.
Dr. William Ratcliff. Credit: Courtesy of Dr. William Ratcliff.

“Being a researcher is special because there aren’t many jobs that allow you to spend the majority of your time thinking about the things you find the most interesting in the whole world,” says William Ratcliff, Ph.D., an associate professor of biological sciences and the director of the interdisciplinary graduate program in quantitative biosciences at Georgia Institute of Technology (Georgia Tech) in Atlanta. We talked with Dr. Ratcliff about his career path, research on yeast, and advice to budding scientists.

Q: How did you first become interested in science?

A: My family owns land in Northern California that has been passed down for more than 100 years. When I was a child, my brother and I would spend summers on that land getting lost in the woods. We would really see the forest for its parts: seeing how organisms interacted with one other, tracking stages of development, and listening to birdcalls. My grandmother would identify plants by their scientific names, and we’d discuss their reproduction strategies. We became amateur natural historians during those summers. Perhaps it’s no surprise my brother and I both got Ph.Ds. in biology.

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