Twelve Months of Manly

I have decided to do something which I have yet to do here on my blog, and that is participate in an Internet fad, which in this case is called "Twelve Months."

The rules are simple:
-Post the link and first sentence from the first blog entry for each month of the past year.

So, let's see what turns up!

January:
Two interesting things have happened to me over the past few days. (I had just gotten a letter in the mail from the Prime Minister's Office)

February:
Yeah, I know it's been a while. Yeah, I know you all have been eagerly awaiting my next post. (Posted all my tweets about the science conference I went to)

March:

Based on my background, as well as my thesis, many people assume that I am an animal guy through and through. Granted, my thesis was on frog salinity tolerance, and I know quote a bit about a vast majority of animals – but that is not my only area of interest. (Book review of SUPERBUG)

April:
NO Posts (Had just graduated and began looking for work in earnest)

May:
Welcome, welcome, welcome! (Changed the name of my blog to "The definitive host" from "Musings of a Manly.")

June:
Sorry for the long delay between posts, but it's gotten surprisingly hectic over here. (Posted my Masters project on black-footed ferrets)

July:
NO Posts (Working for someone in Texas)

August:
NO Posts (Went to Europe)

September:
NO Posts (Started a new full-time job, and did not make me want to write even more)

October:
Hey there folks, sorry for my prolonged absence! (Posted all the links to my LabSpaces posts that I had been making over the past few months)

November:
NO Posts (Sorry ... but the job was eating up a lot of time)

December:
Are there aliens among us? (About the Arsenic Aliens story)

Quite the busy year, eh?

But don't you worry, as this trend of months going by without a post shall continue no more!
One of my New Year's Resolutions is to write more on my blog, as well as workout more and finish my novel ... it's going to be a great year :)

Aliens and Arsenic: A Love Story

NOTE: THIS POST IS TAKEN FROM MY NEWEST LABSPACES POST WHICH CAN BE FOUND HERE

Are there aliens among us?

Short answer – No, at least not yet.

Despite the journalistic frenzy that was the NASA press conference held a few days ago, the paper published in the journal Science about a rather unique organism that was hailed as “extraterrestrial” by the news media fell short of its promise.

Sadly, the organism they discuss is clearly terrestrial, albeit an odd one.

In the paper, the author’s discuss a bacterium that was able to use the element arsenic instead of phosphorus, but I’m getting ahead of myself. First, a little information is needed regarding DNA.

DNA possesses a backbone of a phosphate bound to a sugar molecule. The phosphate is a phosphorous atom bound to four oxygen atoms. Now remember this, it is important.

Arsenic, which is directly below phosphorus on the periodic table, shares many of the same properties with phosphorous. In fact, arsenic can bind with four oxygen atoms to create arsenate, which behaves in a very similar way to phosphate.

Now, what the researchers did in the science paper was go to Mono Lake in California and find an “extremophile” bacteria, which is a bacteria that can survive in extremely harsh conditions (such as very high salt, temperature, high concentrations of acid, etc…). The scientists then isolated a strain of the bacteria in the lab and began to examine it.

In the lab, the researchers fed the bacteria essential nutrients, including phosphate, with little arsenic. Then, they gradually removed phosphate and replaced it with increasing concentrations of arsenic.
Over time, there was no phosphate left in the nutrients and only arsenic. By probing the DNA and proteins of the bacteria, they found that the organisms were using arsenate instead of phosphate.

Basically, they had created arsenic-based life. They did not find arsenic-based life, but had experimentally created it.
 
This is where the news media got it wrong.

It’s just like my mom when she got me to eat spinach. She would place a few leaves of spinach into a salad, saying it was a different type of lettuce, and I would eat it all together and not be able to tell the difference. Gradually, the salads became more and more spinach and less lettuce, until there was no lettuce left.

When asked if I liked the ‘salad’ and I replied with a big yes, did my mother admit that there was no lettuce in the salad - just spinach. From then on, I began to eat spinach.

See, the bacteria uses phosphate just like us. They prefer it!

But, they are adapted to live in Mono Lake, which has high concentrations of arsenic (the ability to survive there is amazing in and of itself), and can incorporate it into their biological mechanisms when absolutely necessary.

Also, by taking a look at a diagram from the paper below, you can see that all was not well with the arsenate bacteria. In fact, the arsenic bacteria (D) took longer to grow than their phosphate counterparts (C), despite their increased size.

As well, the arsenic-reared bacteria had huge vacuoles (fluid filled sacs) within them. What those sacs mean is up to interpretation, as arsenic-based compounds are not very durable in water. Perhaps it was to segregate water from the fragile compounds?

Suffice to say, the discovery was cool, but it is not extraterrestrial life. It was alien, but not unlike a genetically altered E. coli or Drosophila.

Other questions also rise up regarding a phosphate-free existence:
-       What about ATP/ADP/AMP?
-       Were there traces amounts of phosphorous used in such low amounts that they were undetectable?
-       What about all other DNA replication, translation and transcription?

This research is interesting, and has some great potential, but is lightyears away from proof of extraterrestrial life.

Here is the paper from Science:
Wolfe-Simon, F., Blum, J., Kulp, T., Gordon, G., Hoeft, S., Pett-Ridge, J., Stolz, J., Webb, S., Weber, P., Davies, P., Anbar, A., & Oremland, R. (2010). A Bacterium That Can Grow by Using Arsenic Instead of Phosphorus Science DOI: 10.1126/science.1197258

Also, here is a great article written by Carl Zimmer about the discovery, where he actually interviewed the lead author and researcher in the paper:
http://blogs.discovermagazine.com/loom/