Showing posts with label microbes. Show all posts
Showing posts with label microbes. Show all posts

Jan 24, 2011

Time-lapse photography of growing mould - Amazing video!

Please watch the following video made by Nick Lariontsev, and then let me know if you don't think that microbes are fascinating things.




The video was made using time-lapse photography, with several fungi as 'actors': apparently, Aspergillus fumigatus, Botrytis, Mucor, Trichoderma and Cladosporium. You can see several pictures of the device used to take the photos at Nick's LiveJournal. See, for instance, this one (photo courtesy of Nick Lariontsev):

Nick - LiveJournal

I found the video via The Microbiology Daily (a Twitter newspaper) <<< @KristaMarquis (Twitter) <<< MicroCulture (Tumblr) <<< Fungi (Tumblr) <<< Interact With (Tumblr) <<< YouTube <<< Nick (LiveJournal).


Microbes rule!!


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Oct 6, 2010

Microbial pigments: an untapped resource for teachers, artists and researchers

Elvis Lives! - painted on agar media using the bacterium Streptomyces coelicolor
The journal PLoS Biology has launched a new series of articles on education "to present innovative approaches to teaching critical concepts, developments, and methods in biology." The title of the first article in the series is In Living Color: Bacterial Pigments as an Untapped Resource in the Classroom and Beyond.

From the article:

"Soil bacteria from the Streptomyces genus represent a source of interesting natural products that have been largely overlooked by artists, researchers, and teachers. This article is intended to encourage amateurs and professionals alike to explore this overflowing source of biopigments. Not only does this endeavor have the potential to lead us toward a fertile nexus between art and science, it may also lead to a more sustainable and environmentally friendly way to color the world around us in the future. The relevance of biopigments to many facets of science, technology, and society, makes this material an outstanding tool to engage students of varying academic interests across multiple age groups. Therefore, we encourage teachers of all levels to consider using biopigments as a vehicle to introduce the scientific method to their students. To facilitate the implementation of biopigments into science and art curricula, we have provided a list of useful online resources and information about procuring materials [...] as well as recommend ways to evaluate the effectiveness of the lesson [...]."




Original article (and image source):
Charkoudian LK, Fitzgerald JT, Khosla C, Champlin A (2010) In Living Color: Bacterial Pigments as an Untapped Resource in the Classroom and Beyond. PLoS Biol 8(10): e1000510. doi:10.1371/journal.pbio.1000510
Image: “Elvis Lives!” painted on agar media plates using the bacterium Streptomyces coelicolor.



Related links:
- Microbial Art, a collection of unique artworks created using living bacteria, fungi, and protists.
- Painting With Penicillin: Alexander Fleming's Germ Art. The scientist created works of art using microbes, but did his artwork help lead him to his greatest discovery? By Rob Dunn. Smithsonian.com, July 12, 2010.
- Streptomyces: they're twisted! Twisted Bacteria, Aug 10, 2007.


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Jun 22, 2010

TED videos: excellent talks about life, the universe and everything -- including microbes

Modified TED logoTED is a nonprofit organization devoted to "ideas worth spreading." They are mostly known because of their growing collection of fascinating talks about a wide array of topics, including science, art and anything in-between (or around). The talks are recorded and the videos are freely available at their website, where you can also find information about the speakers and interactive transcripts (including translations to various languages).

In this post I'm collecting links to all the TED videos I could find related to the microbial world.

Topics include: life in the deep oceans, medical mysteries, bacterial Esperanto, predicting pandemics, robots turned into microbiologists, new approaches to handle infectious diseases, looking for life on Mars and beyond, fungi that could save the world, bacteria that may have caused mass extinctions...

Awesome, huh?

I'm also embedding a video for one of the latest TED talks: Seth Berkley: HIV and flu -- the vaccine strategy. The speaker, epidemiologist Seth Berkley, is the founder of the International AIDS Vaccine Initiative. In this talk, filmed last February, he spoke about new methods for making vaccines for AIDS and flu.





I also recommend reading this interview on the TED blog, where Seth Berkley commented on the same subject. I am copying here a few remarkable quotes:

I was very disappointed by public concerns that we ordered too much flu vaccine and that some might get wasted. (...) I think that both declaring this a global pandemic and accelerating vaccine production as quickly as possible were the right decisions. If you want to prepare a population for an emergency it means that you might ultimately spend some money that isn’t used.
That's a good point. Many criticisms have been raised in the last months against WHO decisions in relation to the recent flu pandemic. And some of those criticisms were undeserved, in my opinion.


In the interview, Berkley explained why so much effort was put on developing treatments --rather than preventive vaccines-- for AIDS. And he described the extraordinary work they're doing with the International AIDS Vaccine Initiative.


To the question "Are the members of the younger generation of scientists as invested in creating a vaccine as was the case 10 years ago or so?" he responded:
Sadly not. (...) The problem is not that young scientists don’t think vaccines are incredibly important, the problem is that it is seen as such a difficult problem, such a long-term problem that what they’re worried about is: Can they build a career on it? Can they get the types of breakthroughs they need in a rapid time frame that would make it a productive place to work?
It is disturbing that the "productivity" concept not only is doing harm to many researchers' careers but may also be slowing down the development of much-needed medical treatments...


Why not focus just on the treatment of infected people, and forget about an AIDS vaccine? Berkley explained:
(...) from a public policy point of view, there’s great expense involved in dealing with the epidemic through treatment and reaching people when they’re already infected. (...) But this is a long-term entitlement program, because once you put somebody on treatment, they have to get treatment for the rest of their lives and they develop conditions, they develop toxicity and they need other treatments. So, there’s almost a sense now that all of the bright lights of that unbelievable effort -- the unprecedented emergency program for AIDS relief, Bush’s triumph that people look on as being a great thing that he did, will create a demand that gets higher and higher and higher just to keep up with where we are.
So, making an effective vaccine against AIDS may be very difficult. But it is worth the effort.




And finally, as promised, this is the list of other TED videos related to the small living beings (in chronological order, newest first):


[Added October 15th, 2010 -- Eben Bayer: Are mushrooms the new plastic? "Product designer Eben Bayer reveals his recipe for a new, fungus-based packaging material that protects fragile stuff like furniture, plasma screens -- and the environment." July 2010. Found via MicrobiologyBytes.]


TED video: Magnus LarssonMagnus Larsson: Turning dunes into architecture. "Architecture student Magnus Larsson details his bold plan to transform the harsh Sahara desert using bacteria and a surprising construction material: the sand itself." July 2009.





TED video: Nathan WolfeNathan Wolfe: hunting the next killer virus. "Virus hunter Nathan Wolfe is outwitting the next pandemic by staying two steps ahead: discovering deadly new viruses where they first emerge -- passing from animals to humans among poor subsistence hunters in Africa -- before they claim millions of lives." February 2009.





TED video: Bonnie BasslerBonnie Bassler: discovering bacteria's amazing communication system. "Bonnie Bassler discovered that bacteria "talk" to each other, using a chemical language that lets them coordinate defense and mount attacks. The find has stunning implications for medicine, industry -- and our understanding of ourselves." February 2009.





TED video: Hans RoslingHans Rosling on HIV: New facts and stunning data visuals. "Hans Rosling unveils new data visuals that untangle the complex risk factors of one of the world's deadliest (and most misunderstood) diseases: HIV. He argues that preventing transmissions -- not drug treatments -- is the key to ending the epidemic." February 2009.





TED video: Kary MullisKary Mullis' next-gen cure for killer infections. "Drug-resistant bacteria kills, even in top hospitals. But now tough infections like staph and anthrax may be in for a surprise. Nobel-winning chemist Kary Mullis, who watched a friend die when powerful antibiotics failed, unveils a radical new cure that shows extraordinary promise." February 2009.





TED video: James NachtweyJames Nachtwey fights XDR-TB. "Photojournalist James Nachtwey sees his TED Prize wish come true, as we share his powerful photographs of XDR-TB, a drug-resistant strain of tuberculosis that's touching off a global medical crisis. Learn how to help at http://www.xdrtb.org" October 2008.





TED video: Paul StametsPaul Stamets: six ways mushrooms can save the world. "Mycologist Paul Stamets lists 6 ways the mycelium fungus can help save the universe: cleaning polluted soil, making insecticides, treating smallpox and even flu." March 2008.





TED video: Peter WardPeter Ward: Earth's mass extinctions. "Asteroid strikes get all the coverage, but "Medea Hypothesis" author Peter Ward argues that most of Earth's mass extinctions were caused by lowly bacteria. The culprit, a poison called hydrogen sulfide, may have an interesting application in medicine." February 2008.





TED video: Paul EwaldPaul Ewald: can we domesticate germs? "Evolutionary biologist Paul Ewald drags us into the sewer to discuss germs. Why are some more harmful than others? How could we make the harmful ones benign? Searching for answers, he examines a disgusting, fascinating case: diarrhea.". March 2007. (I embedded this video in a previous post.)





TED video: Bill StoneBill Stone explores the world's deepest caves. "Bill Stone, a maverick cave explorer who has plumbed Earth’s deepest abysses, discusses his efforts to mine lunar ice for space fuel and to build an autonomous robot for studying Jupiter’s moon Europa." "How do you take a robot and turn it into a field microbiologist?" March 2007.





TED video: Laurie GarrettLaurie Garrett on lessons from the 1918 flu. "In 2007, as the world worried about a possible avian flu epidemic, Laurie Garrett, author of "The Coming Plague," gave this powerful talk to a small TED University audience. Her insights from past pandemics are suddenly more relevant than ever." February 2007.





TED video: Penelope BostonPenelope Boston says there might be life on Mars. "So the Mars Rovers didn't scoop up any alien lifeforms. Scientist Penelope Boston thinks there's a good chance -- a 25 to 50 percent chance, in fact -- that life might exist on Mars, deep inside the planet's caves. She details how we should look and why." February 2006.





TED video: Larry BrilliantLarry Brilliant wants to stop pandemics. "Accepting the 2006 TED Prize, Dr. Larry Brilliant talks about how smallpox was eradicated from the planet, and calls for a new global system that can identify and contain pandemics before they spread". February 2006.





TED video: Joe DeRisiJoe DeRisi solves medical mysteries. "Biochemist Joe DeRisi talks about amazing new ways to diagnose viruses (and treat the illnesses they cause) using DNA. His work may help us understand malaria, SARS, avian flu -- and the 60 percent of everyday viral infections that go undiagnosed." February 2006.





TED video: David GalloDavid Gallo on life in the deep oceans. "With vibrant video clips captured by submarines, David Gallo takes us to some of Earth's darkest, most violent, toxic and beautiful habitats, the valleys and volcanic ridges of the oceans' depths, where life is bizarre, resilient and shockingly abundant." February 1998.






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May 14, 2010

My selection of YouTube videos related to the microbial world

My microbiology playlist at YouTube
During the last couple of years I've been collecting some YouTube videos related to microbiology. My microbiology playlist includes now over 70 videos of very different styles, including not only academic lectures and documentaries, but also animated movies and funny songs.

You can watch many of these videos using the embedded viewer (see below).

Or, you can watch all of them on my YouTube channel. You will find there other playlists, including:
- Microscopy
- Molecular and Cell Biology
- Other sciences

Please let me know if you find any of the playlists useful or, at least, entertaining.


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Apr 30, 2010

Elio Schaechter comments on state microbes at NPR (podcasts)

NPR logo. Image source: Wikipedia.It seems that Wisconsinites are not getting their own state microbe after all. What a shame!







Transcripts of these radio podcasts are available at the NPR website:
- A state microbe for cheese-crazed Wisconsin? April 16th, 2010.
- No state microbe for Wisconsin. April 28th, 2010.


From Wikipedia:

National Public Radio (NPR) is a privately and publicly funded non-profit membership media organization that serves as a national syndicator to 797 public radio stations in the United States.



NOTE added on May 7th, 2010:
For a thorough list of candidate state microbes, see State Microbes at Small Things Considered, May 6th, 2010.

NOTE added on October 11th, 2010:
More suggestions (including several streptomycetes) by Joan W. Bennett & Douglas Eveleigh (Rutgers, The State University of New Jersey): State Microbes, Microbe magazine, October 2010.

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Mar 17, 2010

Year of Biodiversity: only for cute animals and plants?

International Year of Biodiversity LogoThe United Nations declared 2010 to be the International Year of Biodiversity. This sounds great, let's celebrate and protect the variety of life on Earth! We must learn more about current (and past) biodiversity and the impact that human activities have on the distribution and abundance of organisms. Also, we should explore any effective ways to protect biodiversity, if only because it benefits us.

However, it strikes me as short-sighted that most biodiversity advocates seem to care only about "the cute organisms" (cute by most human standards, I guess); that is, a few particular animals and plants. But... for Pete's sake, life on Earth goes well beyond a few vertebrates, trees and corals! Surprisingly, the true diversity of life is not obvious at all in the writings of most biologists, conservationists or environmental scientists when discussing biodiversity and its protection.

I know, I know -- when a clear message is to be delivered to the general public, you cannot be comprehensive. If you can mention only a couple of examples for endangered species, you better go for the much-like-us mammal, or the colourful bird, or the pretty tree or flower. Most of us can easily sympathize with a chimpanzee (that is, really, almost one of us) or with many animals: they have faces, with two eyes and a mouth, and it's hard not to see part of our own reflection there. We often show emotional responses also to trees, flowers or grasses (even mushrooms). So, when explaining the importance of biodiversity to a general audience, sticking to the cute guys might be the wise choice.

But how is this topic treated inside the scientific community? Well, in general, I don't see much difference. When biodiversity is discussed -- in general terms -- in scientific articles, editorials or websites, the focus is again on certain plants and animals that can be seen by the unaided human eye (that is, macro-organisms). By contrast, microbes are hardly ever referenced, if at all.

Why are microbes not even mentioned most of the times? Why are some particular organisms (let's call them "the cuties" for short) the focus of research and protectionist efforts? I can think of a few possible answers:

1 - The cuties, among all the living beings, might suffer the highest risk of extinction.
2 - Although there are other organisms at higher risk, the cuties are perhaps more important (in some way) either for the preservation of particular ecosystems or for human well-being.
3 - Our current knowledge of life diversity might be very limited, and is focused on particular organisms because of historical and technical reasons.

I guess that most scientists and many learned people would agree with me that answer number 3 seems about right (but if you think otherwise, please leave a comment). Actually, it seems that we know very little on the matter. Scientists are starting to agree -- I think -- on a broad definition of biodiversity. But the field faces (at least) two huge challenges. First, there are many organisms living on (and inside) this planet that we haven't met yet, and our estimates of how many species are awaiting discovery are little more than educated guesses. Second, although biodiversity can be measured at various levels, it's often understood as referring to the number and relative abundance of different species. And deciding if two organisms belong to a single species, or to two different ones, can be really hard. Moreover, the difficulty in agreeing on species definition depends greatly on the type of organism it applies to: whereas this issue causes some serious troubles when studying cuties, it appears almost insurmountable when trying to define microbial species. Why is this so? Well, I'm not getting into this here, but let's say that the species concept was originally created and crafted for the cuties, and microorganisms just don't fit into such clothes.

However, even lacking a suitable species definition (to the embarrassment of microbiologists), we can confidently say that the microbes are much more diverse than the cuties. This diversity is shown at different levels: genetics, biochemistry, ecology... You can find microbes almost everywhere, and often in amazingly high numbers. No matter if you count individuals or you measure biomass: microbes are the (silent?) majority. Some microorganisms are essential not just for the preservation of particular ecosystems but for the continuity of life on Earth as we know it (and when I write "life" I mean "life", not just "cuties"). Under any non-human-centred point of view, life is microbial -- with a few exceptions, yes.

So, just to recapitulate... Some animals and plants appear to be on the brink of extinction because of human actions, and it doesn't seem a good idea to let them go. However, we don't know how many types of organisms are out there, or how many of them are endangered by our activities, and we don't understand the long-term effects of the extinction of any particular life form. Yes, more research is definitely needed.

But we do know that life is incredibly diverse and mostly invisible to the human eye, and that the cuties are not even the tip of the iceberg. So, any serious research or scientific communication on the diversity of life should include (in my opinion) some mention to microbes, the main actors on this movie -- at least we should acknowledge our ignorance! Microbes play key roles in nature: shouldn't we worry about the preservation of microbial diversity?

Don't get me wrong: I don't want any cuties to become extinct. But I think that scientists can do a much better job when discussing biodiversity.



Further reading:

If you find the topic of this post interesting, you must read the following excellent articles written by Sean Nee, University of Edinburgh, UK (articles can be downloaded from the author's website):

- The great chain of being. Nature (2005) 435: 429.

"Our persistence in placing ourselves at the top of the Great Chain of Being suggests we have some deep psychological need to see ourselves as the culmination of creation."

- Extinction, slime and bottoms. PLoS Biology (2005) 2(8): e272.
"There is an old Chinese curse: ‘May you live in interesting times.’ According to those who know about such things, we live in a momentous time, the time of the Sixth Mass Extinction! But most of us do not feel at all cursed. Because, in fact, the Sixth is quite different to the previous Big Five—no-one would notice this one if we were not repeatedly reminded of it by ecologists."

- More than meets the eye: Earth's real biodiversity is invisible. Nature (2004) 429: 804-805.
"We are still at the very beginning of a golden age of biodiversity discovery, driven largely by the advances in molecular biology and a new open-mindedness about where life might be found. But for this golden age to be as widely appreciated as it should, our view of the natural world must change — as radically as did our view of the cosmos when we began looking at it with technologies that allowed us to see more than can be seen with the naked eye."

- Beyond the tangled bank (pdf). This manuscript seems a slightly longer version of More than meets the eye: Earth's real biodiversity is invisible. Interestingly, it includes many references that were not incorporated into the published article.


I also recommend a thought-provoking article by Maureen A. O’Malley & John Dupré, University of Exeter, UK:

- Size doesn’t matter: towards a more inclusive philosophy of biology. Biology and Philosophy (2007) 22, 155-191.


NOTE added on April 17, 2010:
A Letter has just been published by Andrew Beattie and Paul Ehrlich in Science, highlighting what The Missing Link in Biodiversity Conservation is:
"the many millions of species within the numerous phyla of microbes and invertebrates, which represent perhaps 95% of total species and genetic biodiversity."
The authors propose to deliver a new message to the public:
"a new message, one we would like to label "production biodiversity": By protecting microbes and invertebrates, we also protect the primary industries upon which we all depend."

I agree!


Related links:
- (Added April 20, 2010) A commentary on the same subject has been published by Mercè Piqueras in her blog, La lectora corrent (in Catalan): La biodiversitat invisible.

- (Added June 23, 2010) See Dear New Scientist by Ed Rybicki, who reminds us that "the greatest part of the biodiversity on this (and probably any other) planet is viruses."

- (Added August 19, 2010) Preserving endangered species – of gut microbes, by Grant Jacobs. Or the need to preserve the human gut microbes found in ancient rural populations.

- (Added September 11, 2011) Bacteria & archaea don't get no respect from interesting but flawed #PLoSBio paper on # of species on the planet, by Jonathan Eisen.

- (Added September 11, 2011) Don’t forget to count microbes, by David Hooper & Bonnie Bassler.


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Nov 17, 2009

The Seven Dwarfs' battle against malaria

In this short Disney film (The Winged Scourge, 1943), the Seven Dwarfs teach us how to protect ourselves from the mosquitoes that transmit malaria. But some of their methods may not be quite advisable today...




Thanks to MicrobeWorld for letting me know about this video!

A collection of old Disney documentaries (including this one) can be viewed at thelostdisney channel on YouTube.

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Nov 15, 2009

Microbes and infectious disease, 50 years ago

The following videos are short educational films made in the 1940s and 1950s and provide some basic knowledge on infectious diseases and microbiology. How much has this basic knowledge changed after half a century? Which specific statements in the videos should be changed (and why) if you wanted these films to comply with today's microbiology? Please leave any comments here.

Video no. 1: Bacteria footage (AVG-BF231) [on bacterial biology]




Video no. 2: Insects As Carriers of Disease (1945) [a Disney film]




Video no. 3: Outbreak of Salmonella Infection (1954)




The three videos were uploaded onto Google Video by A/V Geeks. They have been digitizing thousands of TV commercials held at Duke University’s Hartman Center for Advertising.

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Jun 13, 2009

Infectious: Stay Away

"Infectious: Stay Away" is an exhibition at the Science Gallery, Dublin. From the official page:
THE INFECTION HAS TAKEN HOLD. Nearly 30,000 individuals have already been exposed to the INFECTIOUS exhibition in the Science Gallery. If you are brave enough to enter the containment zone on Pearse Street you are advised to wear protective clothing. INFECTIOUS is a major new exhibition exploring mechanisms of contagion and strategies of containment through science and art including a live epidemic simulation, an opportunity to have your DNA swabbed from your cheek and analysed and to get up close and intimate with a Petri dish as you cultivate the bacteria from your lips in our Kiss Culture experiment.

This seems like a good excuse to visit Dublin...




(Found via The Scientist)

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Jun 28, 2008

Relaxing at the microscope

A video from YouTube (Microorganism Spacial Journey) showing microscopic images of microbes and other tiny beasts, accompanied by a very relaxing music.


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Jun 3, 2008

Martian microbes: remember we are friends

I have always been a huge fan of life at the cellular level...

The Colbert ReportMon - Thurs 11:30pm / 10:30c
Microbe Beat!
www.colbertnation.com
Colbert Report Full Episodes2010 ElectionFox News



If the embedded video does not work, you can try this link.

(Hat tip: The Tree of Life)

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May 19, 2008

Paul Ewald: Can we domesticate germs?

TED (Technology, Entertainment, Design) is a group of conferences that "brings together the world's most fascinating thinkers and doers, who are challenged to give the talk of their lives (in 18 minutes)." The following video corresponds to a talk by Paul Ewald, director of the program in Evolutionary Medicine at the Biology Department of the University of Louisville; he has written popular news articles, academic papers, and two books. In his conference, Ewald reasons that, for the control of infectious diseases, alternative strategies should be privileged over the never-ending development of more new drugs. The central idea consists of creating conditions that favor the less virulent variants of pathogenic microbes — in contrast to the present rise in drug-resistant strains due to the overuse of anti-infective medicines.



Link for the video at TED (filmed on March 2007): Paul Ewald: Can we domesticate germs?.
Or view it at YouTube.

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May 9, 2008

Big bacteria with lots of DNA

Thiomargarita
Size matters.

That's why there are no insects as big as horses [*], or bacteria as large as to be seen without the use of a microscope. Well, actually, the latter is not true —although a typical bacterial cell is not longer than 5 micrometers, a few species such as Thiomargarita namibiensis (left image) and Epulopiscium fishelsoni may reach a length of over 0.5 millimeters (500 micrometers); enough to become visible to the naked eye.

Big bacteria enjoy some advantages; for instance, they can not be swallowed by most predators (such as ciliates) that feed on smaller cells. But they also face important problems, especially those related to diffusion limitation. In general, bacteria obtain their food molecules by diffusion; for this reason, their cells need to maintain a high surface-to-volume ratio. Thiomargarita solves this problem by creating a huge central vacuole that fills about 98% of the cell volume, leaving only a thin layer of cytoplasm lining the cell wall. However, Epulopiscium appears to have a low surface-to-volume ratio (despite the presence of many invaginations of its cell membrane). This anomaly might be partially explained by the fact that Epulopiscium lives in the gut of a tropical fish, presumably a very rich medium (that is, a high concentration of nutrients may compensate their poor diffusion into a big cell). Additionally, this bacterium has some peculiarities that may be related to this issue: it reproduces by forming internal daughter cells (see figure below), and most of its DNA is arranged around the periphery of the cytoplasm.

Life cycle of Epulopiscium
ResearchBlogging.orgRemarkably, a recent article published on PNAS reports that each Epulopiscium cell has tens of thousands of copies of the genome. Because so far nobody has been able to culture Epulopiscium, the authors had to collect some tropical fishes (Naso tonganus, a unicorn fish) on reefs around Lizard Island, Australia. Then, they extracted the intestinal contents, and handpicked thousands of individual Epulopiscium cells with the aid of a microscope and a micropipettor (an automated device for pipetting microliter volumes). Finally, the researchers used quantitative PCR (Polymerase Chain Reaction) to enumerate the copy number of certain genes on individual cells and in DNA obtained from populations of cells. Epulopiscium large cells contained about 250 picograms (pg) of DNA (compare to 6 pg of DNA in a human diploid cell!), corresponding to several tens of thousands of copies of a ≈3.8 megabase genome.

Such an extraordinarily high number of genome copies per cell could be related to Epulopiscium evolution in a number of interesting ways. Given the biased distribution of DNA within the cytoplasm, these big cells might possess a functional compartmentalization. In the authors' words:

"In this way, a large bacterium could function like a microcolony, with different regions of the cell independently responding to local stimuli, which would alleviate some of the pressure to remain small for the sake of rapid intracellular diffusive transport."
The article ends with:
"The enormous, polyploid Epulopiscium cell has converged on the advantages of social microbes but with additional benefits (exceptional motility, enhanced resistance to predation) normally found in large eukaryotic microbes or multicellular organisms."
Epulopiscium: another fascinating microbe!


Original article:
Mendell, J.E., Clements, K.D., Choat, J.H., Angert, E.R. (2008). Extreme polyploidy in a large bacterium. Proceedings of the National Academy of Sciences USA, 105(18), 6730-6734. DOI: 10.1073/pnas.0707522105


Related links:

[*] Giant insects might reign if only there was more oxygen in the air, EurekAlert.


+++++++++++++++++++++++++++++++++++++++++++++++++++++++
Etymology of species names:

Epulopiscium
= “guest at a fish's banquet”
(Latin epulo [sumptuous food, banquet] + piscium [of a fish])

fishelsoni
= "of Fishelson"
(in honor of Lev Fishelson [Tel Aviv University, Israel], one of the discoverers of Epulopiscium)

Thiomargarita
= "sulfur pearl"
(Greek thio [sulfur] + margarita [pearl])

namibiensis
= "from Namibia"

(Please correct me if I'm wrong)
+++++++++++++++++++++++++++++++++++++++++++++++++++++++


Image sources:
Thiomargarita, at the cover of Science (April 16, 1999). The photomicrograph shows three cells under polarized light (middle cell is ~0.2 mm in diameter), and the small yellow spheres are sulfur globules that are restricted to the thin outer layer of the cell. Image: Ferran Garcia-Pichel.
● Life cycle of Epulopiscium. Reprinted by permission from Macmillan Publishers Ltd: Nature Rev. Microbiol. 3, 214-224 (2005). Copyright 2005.

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Mar 4, 2008

How is a cow like an ethanol production plant?

U.S. Dairy Forage Research Center
Hummm... dunno, but microbes may have something to say...
(Found via Microbeworld)

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Feb 12, 2008

The Bio-Art Case: The End?

Fresh news on the bio-art case, as read on The Scientist:

"A geneticist was sentenced to one year of unsupervised release (no jail time) and a $500 fine for supplying bacteria to an artist, according to the Buffalo News, bringing to an end a well-publicized case that began more than three years ago."
Further reading:

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Feb 1, 2008

Anthropomicrobiology

Microbiology TodayThe current issue (February 2008) of Microbiology Today includes a number of articles devoted to the microorganisms that live in our body. In an introductory article (Life on us), Robin Weiss writes:

"As an ecosystem, it has become clear that we are only part human, because a significant amount of our biomass is microbial. In demographic terms, microbes outnumber our own cells. While there are 1014 human cells in the average adult, there are probably ~1015 bacteria and >1017 viruses associated with the human body. In terms of genetic diversity and complexity, the microbial metagenome of humans may be greater than the 3×109 base pairs of human DNA."

So, we are superorganisms, composed of many organisms. In fact, it seems that the collective genome of our microbial symbionts (the microbiome) may contain over 100 times as many genes as our own genome, and provides traits that humans did not need to evolve on their own (from an article in Science).

In Life on us, the author makes another thought-provoking remark:
"Thus while we share >98 % host DNA sequence similarity with the chimpanzee, the microbial and viral species that live on or on us are only ~50 % shared with the great apes."
Definitely, those tiny passengers in our bodies should have influenced our evolution. How much of our "humanity" (whatever makes us different from other apes) do we owe to our microbial cells??

*********************************************

A collection of related links (in chronological order, newest first):
*********************************************

Etymological addendum:

Anthropomicrobiology = anthropo + microbiology
Microbiology = micro + biology
Biology = bio + logy
*********************************************

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Jan 22, 2008

Petri Dish Circus

The following video (by MicrobeWorld, grabbed from SciVee) portrays an interview to Mary Resing, artistic director for Active Cultures, a theater company from Maryland, US. She talks about Petri Dish Circus, a play inspired by the extraordinary, classic book Microbe Hunters by Paul de Kruif. The video includes some excerpts from the actual performance.

(If video functioning is not smooth:
click on "pause", wait for a few minutes as the video gets fully loaded [indicated as a blue bar growing from left to right], then click on "play")




Links:

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Jan 10, 2008

Microbial Astronauts

Clipart from Clipartheaven.com
Do you want to increase your productivity? Buy a ticket for the next spaceflight!

It may work... if you are a microbe with the ability to produce an interesting metabolite, such as an antifungal agent. The treatment involves some kind of unknown mutation, but that's OK as long as you become a better producer with a stable behavior.

ResearchBlogging.orgScientists from Zhejiang University and Shandong Lukang Pharmaceutical Co. (China), recently published the following article (open access):

Jingle, L., Jianping, L., Zhinan, X., Wei, S., Peilin, C. (2007). Space-flight mutation of Streptomyces gilvosporeus for enhancing natamycin production. Chinese Journal of Chemical Engineering, 15(5), 720-724. Link to publication.

Streptomyces gilvosporeus is a bacterium that produces natamycin (also known as pimaricin), which is an antifungal agent used as a treatment for fungal keratitis and also as a food preservative. Tubes containing spores of this microbe were placed in a sample module of a returnable satellite, which was launched from the Jiuquan Satellite Launching Center in Gansu Province, China. After orbiting the earth for 18 days, the bacterial taikonauts landed safely in a returning module. Then, ground-based scientists grew these spores and studied their colony morphology, survival rate, and natamycin production. As compared to similar spores that had never left the Earth, some of the space travelers behaved differently. This was expected, and most likely due to mutations produced by the spaceflight conditions (including cosmic radiation, microgravity, and vacuum). After selecting for the best natamycin producers, a stable overproducer strain was isolated.

The authors cite other reports on the use of spaceflight for obtaining improved microbial strains. But, more generally, the relationship between microbes and space is fascinating, involving different aspects such as:

  • physiological responses of microbes to spaceflight conditions (affecting growth, pathogenicity, production of interesting metabolites...),
  • health of astronauts (microgravity weakens the immune system, which might make astronauts prone to infections),
  • microbial contamination of spaceships (terrestrial microbes landing on other worlds, and vice versa?),
  • panspermia theory and the origin of life,
  • etc.

Some links:

- NASAexplores: Microbes in Space!
- Microbes May Threaten Lengthy Spaceflights, washintonpost.com.
- NASA Study Will Help Stop Tiny Stowaways To Mars, ScienceDaily.
- Russian rocket carries experiment to be analyzed at MSU, Montana State University.
- Spaceflight shown to alter ability of bacteria to cause disease, Biology news Net.
- Microbial responses to microgravity and other low-shear environments, Microbiol Mol Biol Rev.

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Jan 9, 2008

The Bio-Art Case

Clipart from Clipartheaven.comThe news came out on Oct. 11, 2007 (by Carolyn Thompson, AP, as seen at Examiner.com)*:

“A college researcher has admitted to illegally mailing bacteria to an avant-garde artist friend in a federal case that arts supporters see as an attack on artistic expression.
Dr. Robert Ferrell's attorney, who characterized the mailed material as "high school science bacteria," said the University of Pittsburgh genetics professor agreed to plead guilty to a misdemeanor count of "mailing an injurious article" because of his poor health.”
This is a sad story, you may know the case. Steven Kurtz, artist and professor at the State University of New York in Buffalo, asked for some inoffensive bacterial cultures to Dr. Ferrell, who saw no problem in sending them. The artist used the bacteria as part of an art exhibit. However, in June 2004, both men were investigated for possible involvement in “bio-terrorism,” although finally charges were only for “felony mail and wire fraud.” For details, please follow the links:

- Professor pleads guilty in bio-arts case (phillyBurbs.com)
- Geneticist pleads guilty to misdemeanor in "art bioterror" case (The Scientist)
- Mail harmless bacteria, go to jail (Aetiology)
- CAE (Critical Art Ensemble) Defense Fund

(*) It seems that the original link to the article at Examiner.com does not work anymore, but here it goes: Professor pleads guilty in bio-arts case. Ah, this is the temporary nature of the internet...

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Dec 19, 2007

Germ Stories, by Arthur Kornberg

This book might be a good present... and not necessarily for a child!

From University Science Books:

Over the years, Nobel laureate Arthur Kornberg regaled his children and grandchildren with rhyming tales of the tiny beasties in the germ parade. Arthur's poems and stories are now available for all in this beautifully rendered children's picture book. Germ Stories will bring the microscopic world to life for the very youngest readers and grown ups alike with its richly imaginative narrations and its vividly rendered art and color photos.
(A Spanish translation might be soon available)

Links:
Germ Stories, by Arthur Kornberg
University Science Books

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