Why Sequencing DNA In Space Is A Big Deal

Why Sequencing DNA in Space is a Big Deal

… And How You Can Talk to the Scientists Who Made It Happen

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Less than one month ago, DNA had never been sequenced in space. As of today, more than one billion base pairs of DNA have been sequenced aboard the International Space Station, Earth’s only orbiting laboratory. The ability to sequence the DNA of living organisms in space opens a whole new world of scientific and medical possibilities. Scientists consider it a game changer. 

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NASA astronaut Kate Rubins, who has a background in genomics, conducted the sequencing on the space station as part of the Biomolecule Sequencer investigation. A small, commercial, off-the-shelf device called MinION (min-EYE-ON), manufactured by Oxford Nanopore Technologies in the UK, was used to sequence the DNA of bacteria, a virus and rodents. Human DNA was not sequenced, and there are no immediate plans to sequence human DNA in space. 

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(Image Credit: Oxford Nanopore Technologies)

The MinION is about the size of a candy bar, and plugs into a laptop or tablet via USB connection, which also provides power to the device. The tiny, plug and play sequencer is diminutive compared to the large microwave-sized sequencers used on Earth, and uses much less power. Unlike other terrestrial instruments whose sequencing run times can take days, this device’s data is available in near real time; analysis can begin within 10-15 minutes from the application of the sample.

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Having real-time analysis capabilities aboard the space station could allow crews to identify microbes, diagnose infectious disease and collect genomic and genetic data concerning crew health, without having to wait long periods of time to return samples to Earth and await ground-based analysis.

The first DNA sequencing was conducted on Aug. 26, and on Sept. 14, Rubins and the team of scientists back at NASA’s Johnson Space Center in Houston hit the one-billionth-base-pairs-of-DNA-sequenced mark.

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Have more questions about how the Biomolecule Sequencer works, or how it could benefit Earth or further space exploration? Ask the team of scientists behind the investigation, who will be  available for questions during a Reddit Ask Me Anything on /r/science on Wednesday, Sept. 29 at 2 p.m. EDT. 

The participants are:

Dr. Aaron Burton, NASA Johnson Space Center, Planetary Scientist and Principal Investigator

Dr. Sarah Castro-Wallace, NASA Johnson Space Center, Microbiologist and Project Manager

Dr. David J. Smith, NASA Ames Research Center, Microbiologist

Dr. Mark Lupisella, NASA Goddard Space Flight Center, Systems Engineer

Dr. Jason P. Dworkin, NASA Goddard Space Flight Center, Astrobiologist

Dr. Christopher E. Mason, Weill Cornell Medicine Dept. of Physiology and Biophysics, Associate Professor

More Posts from The-sleepy-chemist and Others

8 years ago

Largest Batch of Earth-size, Habitable Zone Planets

Our Spitzer Space Telescope has revealed the first known system of seven Earth-size planets around a single star. Three of these planets are firmly located in an area called the habitable zone, where liquid water is most likely to exist on a rocky planet.

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This exoplanet system is called TRAPPIST-1, named for The Transiting Planets and Planetesimals Small Telescope (TRAPPIST) in Chile. In May 2016, researchers using TRAPPIST announced they had discovered three planets in the system.

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Assisted by several ground-based telescopes, Spitzer confirmed the existence of two of these planets and discovered five additional ones, increasing the number of known planets in the system to seven.

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This is the FIRST time three terrestrial planets have been found in the habitable zone of a star, and this is the FIRST time we have been able to measure both the masses and the radius for habitable zone Earth-sized planets.

All of these seven planets could have liquid water, key to life as we know it, under the right atmospheric conditions, but the chances are highest with the three in the habitable zone.

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At about 40 light-years (235 trillion miles) from Earth, the system of planets is relatively close to us, in the constellation Aquarius. Because they are located outside of our solar system, these planets are scientifically known as exoplanets. To clarify, exoplanets are planets outside our solar system that orbit a sun-like star.

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In this animation, you can see the planets orbiting the star, with the green area representing the famous habitable zone, defined as the range of distance to the star for which an Earth-like planet is the most likely to harbor abundant liquid water on its surface. Planets e, f and g fall in the habitable zone of the star.

Using Spitzer data, the team precisely measured the sizes of the seven planets and developed first estimates of the masses of six of them. The mass of the seventh and farthest exoplanet has not yet been estimated.

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For comparison…if our sun was the size of a basketball, the TRAPPIST-1 star would be the size of a golf ball.

Based on their densities, all of the TRAPPIST-1 planets are likely to be rocky. Further observations will not only help determine whether they are rich in water, but also possibly reveal whether any could have liquid water on their surfaces.

The sun at the center of this system is classified as an ultra-cool dwarf and is so cool that liquid water could survive on planets orbiting very close to it, closer than is possible on planets in our solar system. All seven of the TRAPPIST-1 planetary orbits are closer to their host star than Mercury is to our sun.

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 The planets also are very close to each other. How close? Well, if a person was standing on one of the planet’s surface, they could gaze up and potentially see geological features or clouds of neighboring worlds, which would sometimes appear larger than the moon in Earth’s sky.

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The planets may also be tidally-locked to their star, which means the same side of the planet is always facing the star, therefore each side is either perpetual day or night. This could mean they have weather patterns totally unlike those on Earth, such as strong wind blowing from the day side to the night side, and extreme temperature changes.

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Because most TRAPPIST-1 planets are likely to be rocky, and they are very close to one another, scientists view the Galilean moons of Jupiter – lo, Europa, Callisto, Ganymede – as good comparisons in our solar system. All of these moons are also tidally locked to Jupiter. The TRAPPIST-1 star is only slightly wider than Jupiter, yet much warmer. 

How Did the Spitzer Space Telescope Detect this System?

Spitzer, an infrared telescope that trails Earth as it orbits the sun, was well-suited for studying TRAPPIST-1 because the star glows brightest in infrared light, whose wavelengths are longer than the eye can see. Spitzer is uniquely positioned in its orbit to observe enough crossing (aka transits) of the planets in front of the host star to reveal the complex architecture of the system. 

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Every time a planet passes by, or transits, a star, it blocks out some light. Spitzer measured the dips in light and based on how big the dip, you can determine the size of the planet. The timing of the transits tells you how long it takes for the planet to orbit the star.

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The TRAPPIST-1 system provides one of the best opportunities in the next decade to study the atmospheres around Earth-size planets. Spitzer, Hubble and Kepler will help astronomers plan for follow-up studies using our upcoming James Webb Space Telescope, launching in 2018. With much greater sensitivity, Webb will be able to detect the chemical fingerprints of water, methane, oxygen, ozone and other components of a planet’s atmosphere.

At 40 light-years away, humans won’t be visiting this system in person anytime soon…that said…this poster can help us imagine what it would be like: 

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Make sure to follow us on Tumblr for your regular dose of space: http://nasa.tumblr.com

9 years ago

How Smells Trigger Memories By SciShow

SciShow explains how smells can bring back early memories – even memories that your brain didn’t know you had. 

Hosted by: Hank Green

10 years ago

I Recently read About these amazing glow in the dark creatures in the newspapers and thought it was worth sharing 1. Saprobe Panellus Stipticus, Fungi:

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Found in Asia, Australia, Europe and North America, the bio-luminescence emitted by the Saprobe fungi that grows on decaying wood...

10 years ago
Corrugated Liomera - Liomera Rugata

Corrugated Liomera - Liomera rugata

This ultra-pinkish crab (actually magenta) is scientifically named Liomera rugata (Decapoda - Xanthidae), a species which inhabits in coral reefs of the Red Sea, Tahiti, Hawaii, Philippines, China Sea, Japan, India and French Polynesia. It is also commonly known as Corrugated Crab due to the visible granules that cover the surface of carapace.

References: [1] - [2]

Photo credit: ©Todd Aki | Locality: Hilo, Hawaii (2014)

8 years ago

And now, we shall pretend to be mathematicians.

Quantum mechanics lecturer on solving the Hermite equation (via mathprofessorquotes)

10 years ago

Science never goes out of STYLE! And we prove it with this scientific a capella cover song!

Submitted by asapscience.

Submit some science here! :)

8 years ago
Straight Outta Answers

Straight Outta Answers

8 years ago

Using the Power of Space to Fight Cancer

From cancer research to DNA sequencing, the International Space Space is proving to be an ideal platform for medical research. But new techniques in fighting cancer are not confined to research on the space station. Increasingly, artificial intelligence is helping to “read” large datasets. And for the past 15 years, these big data techniques pioneered by our Jet Propulsion Laboratory have been revolutionizing biomedical research.

Microgravity Research on Space Station

On Earth, scientists have devised several laboratory methods to mimic normal cellular behavior, but none of them work exactly the way the body does. Beginning more than 40 years ago aboard Skylab and continuing today aboard the space station, we and our partners have conducted research in the microgravity of space.  In this environment, in vitro cells arrange themselves into three-dimensional groupings, or aggregates. These aggregates more closely resemble what actually occurs in the human body. Cells in microgravity also tend to clump together more easily, and they experience reduced fluid shear stress – a type of turbulence that can affect their behavior. The development of 3D structure and enhanced cell differentiation seen in microgravity may help scientists study cell behavior and cancer development in models that behave more like tissues in the human body.

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In addition, using the distinctive microgravity environment aboard the station, researchers are making further advancements in cancer therapy. The process of microencapsulation was investigated aboard the space station in an effort to improve the Earth-based technology. Microencapsulation is a technique that creates tiny, liquid-filled, biodegradable micro-balloons that can serve as delivery systems for various compounds, including specific combinations of concentrated anti-tumor drugs. For decades, scientists and clinicians have looked for the best ways to deliver these micro-balloons, or microcapsules, directly to specific treatment sites within a cancer patient, a process that has the potential to revolutionize cancer treatment.

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A team of scientists at Johnson Space Center used the station as a tool to advance an Earth-based microencapsulation system, known as the Microencapsulation Electrostatic Processing System-II (MEPS-II), as a way to make more effective microcapsules. The team leveraged fluid behavior in microgravity to develop a new technique for making these microcapsules that would be more effective on Earth. In space, microgravity brought together two liquids incapable of mixing on Earth (80 percent water and 20 percent oil) in such a way that spontaneously caused liquid-filled microcapsules to form as spherical, tiny, liquid-filled bubbles surrounded by a thin, semipermeable, outer membrane. After studying these microcapsules on Earth, the team was able to develop a system to make more of the space-like microcapsules on Earth and are now performing activities leading to FDA approval for use in cancer treatment.  

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In addition, the ISS National Laboratory managed by the Center for the Advancement of Science in Space (CASIS) has also sponsored cancer-related investigations.  An example of that is an investigation conducted by the commercial company Eli Lilly that seeks to crystallize a human membrane protein involved in several types of cancer together with a compound that could serve as a drug to treat those cancers. 

“So many things change in 3-D, it’s mind-blowing – when you look at the function of the cell, how they present their proteins, how they activate genes, how they interact with other cells,” said Jeanne Becker, Ph.D., a cell biologist at Nano3D Biosciences in Houston and principal investigator for a study called Cellular Biotechnology Operations Support Systems: Evaluation of Ovarian Tumor Cell Growth and Gene Expression, also known as the CBOSS-1-Ovarian study. “The variable that you are most looking at here is gravity, and you can’t really take away gravity on Earth. You have to go where gravity is reduced." 

Crunching Big Data Using Space Knowledge

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Our Jet Propulsion Laboratory often deals with measurements from a variety of sensors – say, cameras and mass spectrometers that are on our spacecraft. Both can be used to study a star, planet or similar target object. But it takes special software to recognize that readings from very different instruments relate to one another.

There’s a similar problem in cancer research, where readings from different biomedical tests or instruments require correlation with one another. For that to happen, data have to be standardized, and algorithms must be “taught” to know what they’re looking for.

Because space exploration and cancer research share a similar challenge in that they both must analyze large datasets to find meaning, JPL and the National Cancer Institute renewed their research partnership to continue developing methods in data science that originated in space exploration and are now supporting new cancer discoveries.

JPL’s methods are leading to the development of a single, searchable network of cancer data that researcher can work into techniques for the early diagnosis of cancer or cancer risk. In the time they’ve worked together, the two organizations’ efforts have led to the discovery of six new Food and Drug Administration-approved cancer biomarkers. These agency-approved biomarkers have been used in more than 1 million patient diagnostic tests worldwide.

Make sure to follow us on Tumblr for your regular dose of space: http://nasa.tumblr.com

10 years ago
Flower Mushroom Coral - Ricordea Yuma
Flower Mushroom Coral - Ricordea Yuma

Flower Mushroom Coral - Ricordea yuma

Ricordea yuma (Corallimorpharia - Ricordeidae) is a species of soft coral belonging to a group commonly referred to as mushroom corals. These soft corals are very popular among aquarists due to their vibrant and varied color patterns. 

Ricordea yuma is found in the tropical Pacific. Like other Corallimopharians, this one has the ability to rapidly colonize available substrate.

References: [1] - [2] - [3]

Photo credits: [Top: ©Felix Salazar | Locality: nano reef tank, 2008] - [Bottom: ©Scott Cohen | Locality: reef tank, 2009]

10 years ago
Drugs Under The Microscope
Drugs Under The Microscope
Drugs Under The Microscope
Drugs Under The Microscope
Drugs Under The Microscope
Drugs Under The Microscope
Drugs Under The Microscope
Drugs Under The Microscope
Drugs Under The Microscope
Drugs Under The Microscope

Drugs Under The Microscope

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