Author Archives: frances gu

You Are What You Eat: Plastic is a Tasty Meal for Some Bacteria

 

Electron Microscopy Photograph of Bacteria digesting a matrix of polyethylene molecules. Courtesy Oda.

 

 

Plastic is one the major pollutants of our oceans and lands. But for one organism, it is a tasty meal.

In a riveting study published in 2016, researchers led by Dr. Kohei Oda from the Kyoto Institute of Technology discover bacteria in soil, wastewater and plant sludge that degrade polyethylene terephthalate (PET), a major compound used in plastic products like bottles and clothing.

One of the most imperative issues we face for the future is how to create an environmentally sustainable society. A million plastic bottles are bought every minute and this number is constantly on the rise — unless we can find new technologies to recycle them at a faster rate than consumption. Wouldn’t it be great if we could throw our plastic bags into a bacteria den and voila–it would disappear?

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PET is used globally in plastic products and is particularly concerning for environmentalists because of its stable chemical structure. Up until recently, the enzymatic degradation of PET was only known for a couple of fungi species. For this reason, recycling via bioremediation was not possible for plastics. However researchers in Japan screened organisms in various environments exposed to PET, such as soil and wastewater, and found that a specific bacterium was contaminated with PET particles. This organism was later isolated as Ideonella sakaienis which uses PET as its main energy and carbon source.

Researchers used electron microscopy to study I. sakaienis and saw that the bacterium clasp onto PET particles and release enzymes which break down the plastic into useful molecules which eventually serve as food for the bacteria. The byproduct are two environmentally friendly monomers, terephthalic acid and ethylene glycol. These results are promising and researchers hope that this solution can be applied on industrial scales to clean up deeply polluted oceans and land; however, this may not occur on timescales that are reasonable.

Plastic waste in a residential area in Los Angeles. Courtesy McDonald.

The use of bio-organisms to remedy environmental disasters is not only restricted to plastic pollutants. Some species of microbes have been observed to break down harmful compounds in oil spills.

Though this sounds good in theory, it may not work in practice.  Chris Reddy, a marine chemist who worked on Vibrio and Pseudomonads species asserts that “the concept that nature will eat [oil] all up is not accurate, at least not on the time scale we’re worried about.” If microbes could digest PET or petroleum, we would not use them for our roads or plastic bottles. However, in the long run, it is a viable idea.

Microbial geochemist Samantha Joye of the University of Georgia disagrees with Reddy, and she believes that given enough time,”[microbes] are clever, they’re tough, they can basically eat nails…. The microbes have to save us again.”

Microbial remedies to the plastic problem may be a viable solution, however future work needs to focus on how to make this occur on faster timescales –time is of the essence when it comes to saving the planet.

Source:

A bacterium that degrades and assimilates poly(ethylene terephthalate)
Shosuke Yoshida et al. Science 351, 1196 (2016);

Can we use science to explain Traditional Chinese Medicine?

Traditional Chinese medicine shop (Courtesy, H.K. Tang)

 

A few years ago, when I still lived in China, I developed chronic headaches. To remedy my suffering, my mother put a stop to the painkillers and dragged me to a naturopathic Traditional Chinese Medicine (TCM) clinic instead.

Nestled in a refurbished Chinese courtyard, this clinic boasts authenticity. Instead of Life magazines and complimentary mints in the waiting room, this clinic is adorned with cherry blossoms and traditional antiquities. Scurrying behind pharmacy counters, white-coat clad workers methodically package mysterious medicines: cushioned in tin pans are an array of dried creatures, herbs and roots. Gogiberries and grasshopper, deer-musk and ginseng.

After a doctor made a study of my tongue and told me my problem was due to the imbalance of ‘yin and yang’ in my spleen, I was prodded with a dozen needles and prescribed an esoteric potion of willow-bark to drink up for the next two weeks. I scoffed at the absurdity of this pseudoscience but my mother was swayed by its ancient history.

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To my surprise, I immediately felt better. But I wasn’t quite sure why. Was it a placebo effect? Or did the potion actually work? I shifted my perspective by trying to view the matter through the lens of science.

A new viewpoint hit me: the abstruse nature of TCM may have been under-credited as superstition instead of practical folk wisdom. A causal theory created to explain the successes of treatment is not imperative in Chinese culture, and therefore practitioners are tolerant of uncertainty. There is no need for empirical evidence as to ‘why’ the willow-bark concoction worked; it simply does. However, Western doctors will validate willow-bark’s effectiveness through controlled trials by isolating the active ingredient isolating the active ingredient to understand its effects.

The active ingredient later discovered? Aspirin.

Recorded since 1550 BC, ancient Egyptians used Aloe vera to soothe skin irritation, while the famous Greek Physician, Hipprocrates collected nearly 400 different natural agents and described their uses. Natural products play an ancillary role in modern medicine now, but they still form an entire branch of organic chemistry: natural product synthesis.

Chinese doctors have been trying to catch up to Western science and are keen on collecting solid empirical data to sway the rest of the world.

Possible Mechanism in explaining a theory in TCM. Courtesy Zhao.

Recently published in a well-known scientific journal, Zhao et al. (2008) used organic chemistry and spectroscopy to explain theories behind TCM. They isolated significantly changed metabolites like cholic acid, phenylalanine and kynurenic acid to explain the mechanism. Further studies also show the breadth of TCM in treating diseases like cancer, eczema, Bell’s palsy, and more.

This whole ordeal led me to a new way of thinking: just because there is no scientific explanation for certain phenomena now, does not mean there won’t be one indefinitely. We must not be quick to dismiss claims on grounds of cultural unfamiliarity. The open-ended nature of knowledge in general asserts that there is nothing sacrosanct indefinitely and we should be tolerant of all up-and-coming ideas, beliefs and perspectives.

Source:

  1. Xinjie Zhao, Yi Zhang, Xianli Meng, Peiyuan Yin, Chong Deng, Jing Chen, Zhang Wang, Guowang Xu, Effect of a traditional Chinese medicine preparation Xindi soft capsule on rat model of acute blood stasis: A urinary metabonomics study based on liquid chromatography–mass spectrometry, In Journal of Chromatography B, Volume 873, Issue 2, 2008, Pages 151-158, ISSN 1570-0232, https://doi.org/10.1016/j.jchromb.2008.08.010.
    (http://www.sciencedirect.com/science/article/pii/S1570023208006028)
  2.  Li X, Yang G, Li X, Zhang Y, Yang J, et al. (2013) Correction: Traditional Chinese Medicine in Cancer Care: A Review of Controlled Clinical Studies Published in Chinese. PLOS ONE 8(6): 10.1371/annotation/b53a0b8b-3eb6-44a2-9c37-bc9bb66bfe7e. https://doi.org/10.1371/annotation/b53a0b8b-3eb6-44a2-9c37-bc9bb66bfe7e

 

Skin-deep tattoo woes: study confirms presence of tattoo ink nanoparticles in lymph nodes

A compelling study published last Tuesday in Nature‘s Scientific Reports has confirmed that tattoo ink nanoparticles dangerously circulate the body. In this groundbreaking study, scientists from the European Synchrotron Radiation Facility (ERSF) have demonstrated overwhelming evidence for the movement and long-term deposition of toxic elements in tattoo pigments in tissues which lead to inflammation as well as other side effects upon tattooing.

Think before you ink; experts believe there are long-term safety concerns in tattoo inks. Untitled (c) Dan Prado.  CC BY-NC-SA 2.0

Whether it be a daring drunken escapade or a meaningful memento, getting a tattoo in Western societies has long been culturally accepted and not particularly novel. Tattoos have been around for millennia, the earliest artifacts dating to 1200 BC. Due to the recent popularity of tattoos, however, some began to ponder safety concerns of this seemingly innocuous trend.

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Concerns for tattoo ink safety are rising.

 

When it comes to the safety of tattoos, people are generally worried about the sterilization of needles, and rightly so, as infectious diseases like methicillin-resistant Staphylococcus aureus (widely known as MRSA) and HIV are known to spread through improper sanitation. However, the authors of the study believe that the chemical compounds of the inks pose an equivalent, if not greater risk for customers.

“People should be aware of the unknown risks that might come along with tattooing, rather than presuming that the colours are safe,” explains Ines Schreiver, first author of the study.

Currently, the toxicological data for individual ink ingredients are accessible, but the specific in vivo (Latin for “within the living”) interaction of tattoo compounds with cells are uncertain. So, researchers from the ERSF decided to not only to characterize the specific compounds within the dyes, but also quantify the size range of the molecules and qualify biomolecular changes in the affected tissues.

A key objective of the study was to show that organic dyes, inorganic compounds and metallic elements from tattoo particles were able to translocate from the skin to the lymph nodes in nano form, which means the particles are on the magnitude scale of 10-9 meters. Tissue samples were collected from deceased donors, and photographic evidence from comparing lysed skin and lymph nodes showed that the lymph nodes became tinged with the colour of the tattoo on the skin. Using spectroscopic techniques, the scientists were then able to identify compounds as well as quantify metal content such as Nickel and Chromium, which are linked to carcinogenicity.

Synchrotron X-ray fluorescence measurements allowed the researchers to pinpoint compounds at the micro and nano scale. Most particles detected were found at the micro scale, but the smaller particles on the nano scale had the pesky ability to migrate to the lymph nodes and induce enlargement which can lead to a myriad of other health issues.

If this finding has changed your mind about tattoos, keep an eye out for related studies. The authors of this paper will likely go ‘skin-deep’ in further research.

Frances Gu