Tigers Bite

Posted by amanda on Wednesday, May 26th, 2010

Asian tiger mosquito, Aedes Albopictus

Asian tiger mosquito, Aedes Albopictus

Noticed anything new in the air lately? A high-pitched buzzing? Perhaps a six-legged, winged creature with a long proboscis out of the corner of your eye? The time of the mosquito is upon us. I received my first mosquito bite of the year the other day while innocently drinking my tea by the garden. I didn’t notice any stripes, but as the Asian tiger mosquito is now a well-established Maryland resident, I expect to see them soon.

Discovered in Maryland in 1987, the Asian tiger mosquito (Aedes albopictus) is an exotic species introduced to North America from Asia. Unlike the native Maryland mosquito, the Asian tiger is an extremely efficient carrier of viral disease. In 2001, tiger mosquitoes collected in Maryland tested positive for West Nile virus, a virus that mainly infects birds but can also infect humans and may result in flu-like symptoms or swelling of the brain. Only female mosquitoes bite, utilizing blood for egg development. Mosquitoes get most of their energy from flower nectar.

The best way to avoid mosquito bites is to eliminate mosquito breeding grounds. Tiger mosquitoes like to lay their eggs in pools of still water, especially in used tires. (Tires imported to Houston, Texas from Japan in 1985 may have brought tiger mosquitoes to the United States.) Here are some ways we can all work to reduce the number of mosquitoes we see this summer and the next:

  • Tip water out of barrels, buckets and wheelbarrows and turn them over so water cannot collect
  • Tip out containers that could hold water such as toys, cans or plant saucers weekly
  • Empty children’s wading pools weekly
  • Change water in birdbaths, pet watering dishes and animal troughs at least once a week
  • Get rid of old used tires
  • Clean debris from ornamental ponds and keep fountains running during the summer
  • Stock ornamental ponds with mosquito-eating fish, such as goldfish or koi
  • Maintain swimming pools and hot tubs
  • Recycle old bottles, buckets, and cans
  • Clean leaf-clogged gutters
  • Drain flat topped roofs
  • Dump water off of tarps and plastic sheeting
  • Drain water from covers on pools, boats and hot tubs
  • Repair leaky outdoor faucets
  • Cover rain barrels with mosquito screens
  • Cover garbage cans with an appropriate lid
  • Repair ripped window and door screens and make sure they fit tight; use a screen door on doors that often are left open
  • Fight the bite!

    Implanted Genome

    Posted by amanda on Friday, May 21st, 2010

    Mycoplasma

    Mycoplasma

    Is a rose still a rose if it doesn’t smell as sweet? Is a Mycoplasma capricolum still a Mycoplasma capricolum if it expresses a different genome? The answer to the first question is definitely “Yes” (especially if you could smell the roses I received on Mother’s Day). A paper published yesterday in Science confirms that the answer to the second question is a big fat “No”. Researchers at Maryland’s own J. Craig Venter Institute (JCVI) in Rockville in collaboration with their sister institute in San Diego are the first to successfully implant a new genome into a bacterial cell to create a new self-replicating bacteria that never existed before. In the most simplistic description, they created a unique new life.

    Using a novel technique in which large DNA sequences were strung together in yeast, a 1.08 Mbp (Mega base pairs, where a base pair is one unit or nucleotide of double-stranded DNA) encoding all the necessary genes to make Mycoplasma mycoides JCVI-syn1.0 was synthesized. After synthesis, the circular chromosome was implanted into the nucleus of a similar species, Mycoplasma capricolum, for gene expression. This was not easy. After the first attempt failed, the researchers found a single mutation limiting proper gene expression. In their paper, the scientists recall several obstacles that had to be overcome: They needed to develop a method to extract large chromosomes from yeast, learn how to transplant these genomes into a recipient cell, and to choose a fast-growing recipient with the required gene expression machinery as a donor.

    By synthesizing the DNA themselves, the researchers were able to include “markers” within the sequence. For example, if the genes were successfully expressed, the bacteria would be blue in color. Furthermore, they were able to leave a lasting mark on the DNA sequence by including strings of nucleotides (that when expressed into protein) spelled out an email address, the names of the scientists involved in the project, and a few famous quotations. [It isn't clear whether or not these proteins would actually be expressed. If only you could make an enzyme composed of a Shakespeare quote.]

    This paper has raised some ethical and therefore political issues. President Obama has already asked the White House bioethics commission for a review of the issues to be provided to him in a report within 6 months, stating that the creation of a new genome raised “genuine concerns”. The application of this method for the synthesis of novel compounds using bacteria, such as biofuels, make this an important industrial topic as well. Can you patent an organism that you created? Would the laws that apply to genetically engineered crops where patents are in place apply to this as well?

    In the last paragraph of the paper, the researchers write:

    “We have been driving the ethical discussion concerning
    synthetic life from the earliest stages of this work (25, 26). As
    synthetic genomic applications expand, we anticipate that this
    work will continue to raise philosophical issues that have
    broad societal and ethical implications. We encourage the
    continued discourse.”

    Let the discourse begin.

    Hubble Hubbub

    Posted by amanda on Wednesday, May 5th, 2010

    Hubble movie

    2D talk before the 3D movie

    When you see a star-filled picture of space, chances are it was taken by the Hubble Space Telescope (HST). Last night, my daughter and I were treated to a screening of the Hubble 3D IMAX movie at the Maryland Science Center celebrating 20 years of the HST orbiting the earth.

    Before the show, Dr. Jennifer Wiseman, NASA Goddard Chief of the Laboratory for Exoplanets and Stellar Astrophysics, gave a brief history of HST’s adventures in space. In 20 years, HST has orbited the earth over 110,000 times, viewing the universe in a way we never could with ground telescopes. Although it was launched on April 24, 1990, the pristine images that Hubble is known for weren’t possible until December of 1993, when a repair crew carried by the Space Shuttle Endeavor replaced faulty parts and updated others. Whether or not the astronaut crew would be able to complete the difficult repairs was unknown, and the repair was an anxious time for scientists at NASA Goddard who could only watch and hope from the ground. Due to the astronauts’ success at that and other maintenance visits to the telescope, we have garnered immense insights into the birth and death of stars, the distance of far-off galaxies, and the origins of the universe. Servicing Mission 4 in May of 2009 is expected to extend the life of the HST to at least 2013.

    The IMAX movie itself centers around the first astronaut visit, and the joy of astronauts and researchers when the HST finally reaches its full operational potential. The repair portion of the movie is flanked by beautiful in-depth images of nebulae where you enter a star nursery and view what may be the origin of a new galaxy. Besides the drama of space and science, there is also humor, due mostly to astronaut Drew Feustel.

    If you have any interest in space or just an interest in looking at beautiful pictures, see this movie. Viewing the achievements of scientists, astronauts, and the NASA program will inspire you. During the movie, my daughter kept reaching her hands out to catch the stars, certain that the universe was within her grasp.

    Oral Flora

    Posted by amanda on Saturday, April 17th, 2010

    mouth

    Mouth with probably over 240 species of bacteria inside
    http://www.flickr.com/photos/mbaruzza_2/

    It’s been an interesting week in the stratosphere with a fireball in Wisconsin caught on video and a giant ash plume from the eruption of Iceland’s Eyjafjallajökull volcano.

    But I’m feeling a bit introspective. Published in The ISME Journal, researchers (including a couple from the J. Craig Venter Institute in Rockville and the Institute For Genome Sciences at the University of Maryland School of Medicine) finally determined the bacterial diversity of our mouths or at least of 10 lucky individuals.

    The researchers collected 26 separate samples from different parts of each healthy person’s mouth and pooled them, collecting and amplifying the RNA sequences present. RNA (or ribonucleic acid) contains the important coding information from DNA. RNA is necessary to every living organism, transcribed from DNA and translated into protein. Without RNA, there would just be pieces of DNA code, unable to be read or to be used as a template to construct protein. By isolating and amplifying a specific piece of RNA present only in bacteria, scientists are able to determine specific species through deciphering the sequences. In this study, around 1000 sequences per mouth were analyzed.

    So what did they find? Contrary to past estimates that the mouth harbors 500-700 different bacterial species, this study found about 240 belonging to 9 different phyla or groups. As you may expect, not every mouth is the same. Subject 4 had the greatest number of bacteria (lucky duck), and only around 50 different species were expected to be shared between any two individuals with 11 shared between all 10 of the people studied. If you’re really into species (and who isn’t?), the magic 11 are: Haemophilus parainfluenzae, Streptococcus oralis, Streptococcus sanguinis, Granulicatella adiacens, Veillonella parvula, Veillonella dispar, Rothia aeria, Actinomyces naeslundii, Actinomyces odontolyticus, Prevotella melaninogenica and Capnocytophaga gingivalis. Interestingly, although every subject had sequences belonging to the group of bacteria known as Neisseria, no single specific Neisseria species was shared across all subjects. Our mouth bacterial flora also appears to be very distinct from that found in our colon, confirming that these are very different environments (as if we didn’t know that already).

    It’s already known that bacterial flora can be passed from mother to child. I wonder if this study had been conducted with healthy couples who kiss frequently, if they would find a more similar bacterial diversity than 10 strangers. But that study probably isn’t a strong candidate for NIH funding.

    Antiwho?

    Posted by amanda on Monday, April 12th, 2010

    TARDIS

    I spent the past two weeks in the well-known parental hell of daycare illness, swapping germs with my beloved sticky-handed, snotty-nosed daughter. As every working parent can attest, missing work first to nurse your child and then to nurse yourself is one of biggest downsides of parenting with career ambition. Watching Doctor Who reruns while in a medicine-induced haze kept me entertained, and now all I think about is traveling carefree through time and space. And this is why you, dear reader, get to hear about quarks and quantum theory.

    In the early 20th century, there was a great revolution in physics with the birth of quantum mechanics, replacing classical mechanics as the description of motion on an atomic scale. Max Planck, the founder of quantum theory (and father of four…although I doubt they attended daycare), showed that electromagnetic radiation in a cavity can only be emitted in quantized form (the energy could only be in a multiple of a certain unit). Modern chemistry now relies on quantum mechanics for the description of most atomic and molecular phenomena.

    Quantum field theory is used in particle physics and combines quantum mechanics with special relativity (theory on the structure of spacetime, ala Doctor Who). In the simplest of descriptions, quantum field theory tells us that all types of particles have antiparticles of the same mass but the opposite electric charge. Or that for all matter for any physical system describable in quantum field theory, there exists an antimatter analog. If we could describe you with quantum field theory, we would need to account for the existence of an antiyou. But not all is based on charge. For neutral atoms, an antiatom can also exist. Whereas a neutron is made up of quarks, an antineutron is made of antiquarks.

    Yet we see very little antimatter. Look around and you see a lot of plain old matter, but where is the antimatter? We can see some examples, such as positively charged electrons (positrons in some radioactive decay) and antiprotons (present in cosmic rays) which can be used to form an antihydrogen atom. This lack of antimatter in our matter-filled universe is not completely understood but has been hypothesized to be caused by a temporary difference in physical laws for matter and antimatter occurring after the Big Bang (explained by a theory known as the CP violation). If there were complete symmetry, our universe would simply be an empty sea of radiation consisting of no matter at all.

    Published recently in Science, researchers from something called the STAR Collaboration (made up of researchers from 54 separate institutions) describe how they formed and detected an antihypertriton, a variant of the heavy isotope of hydrogen called tritium. By using the Relativistic Heavy-Ion Collider (RHIC) at Brookhaven National Laboratory (BNL), they were able to briefly produce hot and dense matter (a quark gluon plasma) with an energy density similar to that of the universe a few microseconds after the Big Bang. In this process of extremely energetic heavy-ion collisions, they were able to create and observe the antihypertriton containing nine antiquarks (if you must know: four up, four down, and one “strange”). This is the first observation of an antimatter hypernucleus, an antinucleus with net strangeness. This research confirms our understanding of the existence of antimatter and helps scientists explore the dynamics of heavy ion collisions.

    I’m secretly hoping that someday this research will help in creating the TARDIS.

    Star Light, Star Really, Really Bright

    Posted by amanda on Friday, March 26th, 2010

    hubblep3-300x300

    NASA Hubble Space Telescope Collection

    The universe is expanding, and from far, far away in space and time, astronomers can see the formation of massive galaxies. These bright clusters of stars more than a few million light years away appear redder (or redshifted) than closer stars which helps in determining their distance and thus, time, in the development of the universe. Astronomers study these distant massive galaxies to better understand the timescale of galaxy formation and how galaxy shapes are formed, such as disks and bulges.

    Observation of some of these massive galaxies in the early Universe (known as sub-millimeter galaxies due to their wavelength, or high redshift) has revealed a very high rate of star formation, higher than expected from models. One hypothesis for this fast rate is the possibility of the merging of two gas-rich galaxies. Direct examination of the star-forming regions of these very distant galaxies has been difficult due to the limitations of modern-day telescopes.

    In a paper published this week online in Nature, a group of scientists, including two from the Department of Astronomy at the University of Maryland, use a unique solution to study one of these massive galaxies from the young Universe. By studying a sub-millimeter galaxy (known as SMMJ2135-0102), they took advantage of strong gravitational lensing that magnifies the galaxy from the bending of light by massive galaxy clusters that lie behind them. With this magnification, they then used high-resolution sub-millimeter imaging to resolve the star-forming regions at a linear scale of only 100 parsecs (one parsec is about 3.26 light years or 31 trillion kilometers), only slightly higher than the resolution of viewing giant molecular clouds in our own Milky Way.

    By comparing brightness and size between the high redshift galaxy and local galaxies and molecular clouds in the present-day Universe, the researchers found that the star forming region was not only 100 times larger, but also 100,000,000 times brighter. And although the star-forming energetics are much higher than local galaxies, the underlying physics of the processes are the same. Because the physics are similar, this means that techniques used for star-forming processes in the Milky Way can be used for sub-millimeter galaxies.

    So physics has not changed between the early Universe and the present-day Universe — young Universe galaxies are just really, really big, bright, and productive.

    Ruth L. Kirschstein

    Posted by amanda on Monday, March 22nd, 2010

    Ruth Kirschstein

    Most graduate students and postdocs in the biomedical sciences associate the name “Ruth L. Kirchstein” with a group of highly sought after awards offered by the NIH, the Ruth L. Kirschstein National Research Service Awards (NRSA), responsible for 119 individual fellowships and 115 institutional training grants in Maryland out of over 15,000 nationwide.

    Congress named the NRSA after Dr. Ruth Kirschstein in 2002. A resident of Bethesda for over 45 years, Dr. Kirschstein was the first woman director of an NIH institute, National Institute of General Medical Sciences. Before that, she made major contributions in the safe development of the polio vaccine. Among many of her accomplishments in her long career with the NIH, she organized funding for and mobilized a team of NIH scientists to research the emerging AIDS epidemic and to search for treatments.

    Kirschstein was an advocate of predoctoral research training and for promoting diversity in the scientific community. Entering medical school in 1947, she faced discrimination for being a woman in a primarily male field and even reported receiving a rejection letter from one medical school stating, “We only take men.” While at the NIH, she made it a priority to recruit women scientists in an equal proportion to men, recommending them for peer review panels, and supporting their membership in the Institute of Medicine.

    Dr. Kirschstein died in October of 2009, but her name will still usher some promising young scientists onto the path of a research career.

    Heat-sensing Vipers

    Posted by amanda on Thursday, March 18th, 2010

    pit viper

    Timber rattlesnake; Taken by Tad Arensmeier from St. Louis, MO, USA

    Hikers in Maryland are repeatedly warned at trailheads about the presence of venomous snakes. According to the Maryland DNR, there are over 27 species and subspecies of snakes in Maryland, including two venomous pit vipers, the copperhead and timber rattlesnake. Pit vipers are named for their large specialized pit organs located between the nostril and eye on each side of their face. These organs allow pit vipers to sense infrared radiation, detecting warm-blooded prey at temperatures above ~30°C and distances of up to one meter.

    The pit organ is composed of a thin membrane suspended in a hollow chamber. This membrane, serving as an infrared antenna, is packed with mitochondria (cellular power plants) and linked to many nerve fibers. These fibers send signals from the pit organs to the brain. The sensitivity of detection is dependent on the anatomical and molecular characteristics of the pit organ.

    This week in a Nature advance online publication, scientists reveal the identity of the molecular sensor used by pit vipers and describe how these sensors convey information to the snake brain. Rather than “seeing” in infrared, the pit organ actually heats up due to the ion channel TRPA1. Researchers found TRPA1 in nerve endings leading to the pit organ at levels 400x that in other nerve endings. Humans and other mammals also have TRPA1 (63% similar to pit viper) which is activated by the pungent agent from wasabi and mustard plants. Unlike our TRPA1, the pit viper receptor is not only activated by the mustard agent but also by heat above 28°C. The heat activation of these channels provides an infrared map to the snake brain.

    Interestingly, the researchers found no activation of TRPA1 channels in cooler temperatures, although it is known that snakes can respond to temperatures well below 28°C, perhaps to locate cooler areas in which to rest. Is there another receptor that can detect cooler climes? Or maybe the anatomy of the pit organ tunes TRPA1 in a way we haven’t yet explored.

    According to the Maryland DNR, only 2-5 people get bitten by a venomous snake in the state each year. If you happen to be one of the unlucky ones, just remember:
    - Don’t apply ice.
    - Do keep the bite immobilized and below your heart.
    - Don’t apply a tourniquet.
    - Do wash it with soap and water.
    - Don’t make an incision.
    - Do get help immediately.

    Carol Greider

    Posted by amanda on Sunday, March 14th, 2010

    Carol Greider

    Recipient of the 2009 Nobel Prize for Physiology or Medicine, Carol Greider is the first woman at a Maryland institution to win the award. Along with the work of co-winners Elizabeth Blackburn (her graduate advisor at U.C. Berkeley) and Jack Szostak, Greider’s research at Johns Hopkins has contributed immensely to the understanding of telomeres and their shortening.

    Telomeres are sequences of repetitive DNA at the ends of chromosomes that protect the chromosome from unintentional annealing and degradation. In each replication of a chromosome, telomeres shorten due to the way they are added on to chromosome ends by the enzyme telomerase, which was discovered by Greider and Blackburn in 1985. Intriguingly, most of what we know about telomeres comes from the study of a protozoan with 40,000 chromosomes per cell (compared to our 46), Tetrahymena. More on Greider’s research can be read at her lab’s website.

    In a talk she gave last week at Johns Hopkins School of Medicine, Greider made a list of what you need to become a successful scientist:

  • Show up.
  • Pay close attention.
  • Work on something you love.
  • Read, read, read…
  • Read critically.
  • Don’t believe everything you read.
  • Make bold hypotheses.
  • Don’t believe the status quo.
  • Critically test your hypotheses.
  • Disprove your own models.
  • Be nice to people.
  • Stand up for yourself.
  • Ignore (perceived) obstacles.
  • Rely on friends and family.
  • Talk to people about your ideas.
  • Have fun (most of the time).
  • Although her talk was mainly on her research with telomeres, this list is the part that I really took to heart. It can now be found above my lab bench.

    The Internal Compass

    Posted by amanda on Thursday, March 11th, 2010

    Billions of white blood cells are streaming through your bloodstream. They’re on patrol, defending you from foreign invaders and protecting you from infection. Some respond to parasites, others to viruses and allergens. When certain white bloods cells called neutrophils detect an infection or area of injury, they will move in, engulfing and digesting any foreign bacteria or fungi in their path. But how does a neutrophil know where to go? How does it sense its target? What is its internal compass?

    Neutrophils, and many other cells, use chemotaxis, the detection and directed movement of cells in response to a chemical gradient. In an advance publication of the Annual Review of Biophysics, Kristen Swaney and members of the Devreotes Lab in the Department of Cell Biology at Johns Hopkins University review the process of chemotaxis in eukaryotic cells (like our neutrophils). Much of what we know about chemotaxis in these cells is from the study of Dictyostelium, a soil-living amoeba commonly (and lovingly?) known as slime mold.

    YouTube Preview Image

    Neutrophil chasing a bacterium

    The process of chemotaxis does not actually begin with signal detection but with random cell movement. Cells like neutrophils and Dictyostelium extend pseudopodia (literally “fake feet”) made up of filaments consisting of many molecules of actin protein. The actin in these filaments interacts with myosin protein at the cell’s end, causing contraction (just like in your muscle cells), propelling the cell forward. After extension, the cell reassembles the actin filaments, so it can begin again. With this ambling gait, the cell moves in a random direction. In the absence of an attractant, cells extend pseudopodia from each side uniformly. But once the cell senses an attractant, pseudopodia extend toward the signal. Most notable is the wave-like motion through the cell when an attractant is present. This wave is caused from the recruitment of actin-binding proteins sequentially from the inside of the cell to points on the surface and may underlie the generation of pseudopodia.

    Cells detect chemical attractants with receptors on their surfaces. Once receptors bind an attractant molecule, a signal cascade is initiated and a network of signaling pathways is activated leading to the formation of actin into filaments and movement. Eukaryotic cells are capable of sensing both the amount of attractant and the location of the attractant in space, detecting how many receptors have bound attractant and where those receptors are located on their surface. Interestingly, if an attractant is present in low amounts, the cell will “adapt” to the presence of attractant and actually be more sensitive to an attractant gradient by ignoring the background.

    Genetic analysis of Dictyostelium has revealed a complex and wide range of interacting players in the process of chemotaxis. In her review, Swaney emphasizes that we still have much to learn about the components involved in wave propagation, the mechanism of attractant adaptation, the localization of components, and the complexity of multiple signaling networks. There are many pieces to an internal compass.