Saturday, May 8, 2010

Neanderthal Hanky Panky with Humans


(Picture from here.)

I've had a love affair with Neanderthals since I was a kid.

From Brian Aldiss' Neanderthal Planet to Neanderthal references in Sover and Harrison's Apeman, Spaceman, I've been a junkie pretty much forever.

It's not an accident my first short story sale (A Capella Blues) was about the end of Neanderthals. I revisited them last year with a story, Two Boys, about Neanderthal resurrection.

For a long time it's been the position that Neanderthals and Homo sapiens never interbred. This has been, I think, resoundingly disproved by analysis of the recently sequenced Neanderthal genome.

Neanderthals co-existed with European humans for thousands of years. For a species (ourselves) that's been known to copulate with goats and dogs, I've always thought that it was impossible for humans not to have copulated with Neanderthals. I speculated on this in A Capella Blues, thinking that one significant difference between Neanderthals and Homo sapiens was the open ended sexual nature of humans as opposed to a closed estrous cycle of other primates.

The delirious humping mentality of Homo sapiens aside, the question of offspring was always curious. Hence, the research.

The Neanderthal sequences were first reported back in 2006. (Incidentally, inspiring Two Boys.) The work had to be redone because of Homo sapiens contamination. That work was completed and reported in this week's Science magazine gave evidence of interbreeding in several ways.

First, it was noted that the Neanderthal genome was pretty uniformly distinct across much of its range as evidenced by the difference between the samples sequenced and known human sequences. Even so, Neanderthal genetic difference from human appears to be pretty minor. There were only 78 differences in the sequences that "encode proteins that are uniformly present in humans but absent in Neanderthals." (See here.)

The similarity between the species is more than skin deep, much of it in the regulation of other genes. Neanderthals had the human form of many regulatory genes 90% of the time. There were still several changes in the Human Accelerated Regions (HARs) that humans had picked up since the original divergence from Neanderthals.

So far, this does not constitute evidence of interbreeding.

The authors looked for what is called a "selective sweep": a mutation that proves useful and migrates through the population since its selective advantageous.

They found 200, many involving neural development. One of which shows evidence of sweeping through humans after we picket up the Neanderthal copy. We've got the Neanderthal copy of the gene.

To push this further, the copy of the gene that is Neanderthal isn't uniformly spread through the human population. It shows up in European and Asian populations much more uniformly than it shows up in African populations. Neanderthals were restricted to Europe and Asia when the human invasion began.

This brings up very interesting ideas. For example, if the genes involved were advantageous enough to spread through one population (Europe and Asia) but not through another (African), what does that mean in modern times? Were they advantageous only in the areas where the Neanderthal was prevalent? Are they advantageous or disadvantageous today? The nature of the sweep says the genes were important enough to sweep through the populations at the time but that says nothing of the nature of the advantage.

Not all the Neanderthal DNA was sequenced: there's not a complete genome available. So we're not going to see my characters from Two Boys any time soon.

But we might some day.

Links:
Original Science Articles
Nobel Intent
Science News: Here, here, here, here.
BBC
Gordon's Notes
John Hawks
Jerry Coyne and here
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Friday, May 7, 2010

Deep Idiocy


Okay. This one is such an idiotic idea, just placing it in the Wall of Idiots section was too little.

Representative Charles Dent (R-PA) and Senator Joe Lieberman (I-CT) have proposed a plan to "revoke the citizenship of Americans who side with terrorists". (See here.)

Note: It doesn't say plan to prosecute Americans or try them. It's to revoke their citizenship.

Hell, even baby rapers and mass murderers, people who have poisoned their aging mothers, people who eaten their fellow man, have not had their citizenship revoked. They've had their voting rights revoked. They've had their property confiscated. But they have remained citizens.

Of course, there would have to be a "complete investigation" and "convincing evidence".

No. "The burden of proof would have to be on the State Department." I don't care. Citizenship is not something the government should be able to take away. When did we give our government ex cathedra power?

You! Over there! I don't like you. You don't deserve to be a citizen. You are hereby excommunicated from being an American.

Fox News is, of course, right there to help.

This is bad ju-ju. A reprehensibly stupid idea. In a similar (but nowhere near as egregious) show of governmental idiocy Senator Orrin Hatch (R-UT) slammed the FBI for Mirandizing Faisal Shahzad, an American citizen.

Is it not remarkable that those that claim to distrust Big Government are the very first to give that government Big Power?
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Thursday, May 6, 2010

Dealing with Oil Spill Facts, not Whining


(Picture from here.)

It didn't take long for the rightees to somehow blame Obama for the oil spill.

Facts are always good for situations like these. A fairly good timeline is shown here, here, here and here.

To summarize:

4/20: Deepwater Horizon explodes
4/21: Deputy Interior Secretary David Hayes goes to Gulf to coordinate. BP/Transocean gives statement on incident. No mention of possible spill.
4/22: Rig sinks. Obama briefed. Government monitoring spill but largely search and rescue. Helicopters and ships employed.
4/23: Coast Guard thinks no oil appears to be leaking. Search and rescue suspended.
4/24: Leak discovered by underwater remote Coast Guard cameras. Estimated at 1000 barrels/day. Approves plan to to have remote underwater vehicles activate blowout preventer. Efforts fail.
4/26: Weather keeps oil from moving to coast.
4/27: US Department of Interior and Homeland Security announce plans for investigation. Coast Guard investigates possibility of burning spill. BP announces relief well to be built nearby. Effort will take months. Obama officials meet with executives of BP. Coast Guard sets up protective booms around wildlife refuges.
4/28: Coast Guard attempts to burn spill. Burn successful but won't stop rest of spill. Capping leak estimated to take months. Coast Guard ups estimate to 5000 barrels/day. BP COO Suttle disputes estimate. National emergency declared. Louisiana emergency declared. Obama pledges resources to spill. Relief rig reaches site.
4/29: BP COO Suttle admits new estimate might be accurate.
4/30: More visits to the Gulf region. Obama halts new offshore drilling. Orders new inspections for all 30 deepwater drilling rigs and 47 deepwater production platforms.
5/1: Coast Guard names national incident commander. Oil leakage estimates from non-governmental sources upped again to 25,000 barrels/day. (Limbaugh says it's eco-terrorism.) Louisiana national guard sends equiment. Relief rig begins drilling.
5/2: Obama visits coast guard. Fishing banned for 10 days.
5/3: BP CEO says BP will pay for clean up and legitimate legal claims. BP tries to install shutoff valve. Coffer dams being built to capture oil. (Limbaugh claims cleanup isn't necessary. Sea will take care of it.)
5/4: Workers rescued in lifeboats sue Transocean for holding them in lifeboats for 10 hours.
5/5: One leak stopped. Two others remain.

To compare this to Katrina, see the FactCheck timeline here.

Now, compare the facts above to the vitriol below.

Jeff Crouere, for Human Events, titled his article: "Obama fiddled while the gulf burned". His big problem is that Obama didn't remark on it until 9 days later and didn't visit the region immediately.

Newt Gingrich links the Gulf spill to immigration and border control. (You'd have to ask him how that works. I couldn't figure the logic except that Obama is president of the same country as the problems.) He likes to spin things and says the Coast Guard "claimed" there was no leak. Well, surprise, they looked through cameras, didn't see one and said there wasn't one. Then, found one and said there was. Dealing with facts has never been Newt's strong suit.

Could it have been done better? Probably. Nobody expected the explosion and we don't do well with unexpected crises.

The big difference, one these two authors do not seem to understand or blithely hope their audiences don't comprehend, is that the Bush administration they're comparing Obama to didn't act until he got there and the Obama administration clearly did. The Coast Guard was there doing search and rescue within hours. There were people stuck in New Orleans for weeks.

I guess when you operate a completely top down administration, nothing happens until the big guy looks at it. Doesn't seem that these guys realize the difference.

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Imagine a black Tea Party

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Wednesday, May 5, 2010

All Oil, All the Time


(Picture from here.)

Since the oil keeps gushing, I thought it was actually time for me to weigh in.

Not on the spill itself, of course. You can get all the information you need from the net or the papers. Dispersants have their own problems. And we're going to see both our shrimp, oysters and endangered species go down. If this turns out to be politically big enough, like the Santa Barbara oil spill of 1969, it could have a significant impact on the industry. Schwartzenegger has already pulled support for off shore drilling.

But it's the comedy that keeps on giving.

(Full list here.)

Texas Governor Rick Perry (R) has said that the spill was an "act of God" and cannot be prevented. Just give up. And who can forget the comic stylings of Michael Brown when he attempted to manage FEMA in the wake of Katrina. He said Obama wanted the oil spill to happen.

The hits keep on coming. Roland Guidry, oil spill coordinator for Louisiana, said "Those guys don't spill oil." John McCain said the same so it's got to be true.

Even Obama thought it was safe.

George Will thought the resistance to off shore drilling was manufactured by the left so the government has a "rationale to ration."

And we can never forget Sarah Palin's mantra: Drill, Baby, Drill. From the state that brought us the Exxon Valdez.

But the Greatest Hits recording has to be British Petroleum itself.

Who can forget the classic 2005 Texas City disaster that killed 15 and injured 170. Where the company pleaded guilty to federal felony charges. The executives were contrite and shook their heads.

Or the nearly five thousand barrels of oil that leaked through the snow in Palin's very own Alaska in 2006. They'd been warned to check things four years earlier but the costs were "draconian". The executives were contrite and shook their heads.

I'm sure the Gulf spill will go down as an instant classic. And when the aggressive cost cutting, the missing back up safety gear and 100% increase of quarterly earnings are factored in, the executives will be contrite and shake their heads.

Grinning.
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Tuesday, May 4, 2010

Go Cape Wind! Better than an Off Shore Drilling Rig!


About five or six years ago there was a big debate up here on Logan Airport's new runway. Let me define my terms: big debate in this context was a lot of huffing and puffing before the new runway was put in place and East Boston got smacked by a bunch of new noise and pollution.

One of the reasons the runway was a foregone conclusion was the presented alternative: expanding Hanscom Field.

(BTW: You've probably heard of Hanscom Field in the second X-Man movie, when the X-Men are ordered to land at Hans-Com Air Force Base. Mispronounced to sound all military. It's pronounced Hans-come. But what of that.)

The difference? East Boston is poor, immigrant and used to getting shafted. Hanscom is next to Lexington-Bedford-Lincoln. All wealthy communities. Who are the politicians going to shaft?

Given the above story, you can imagine the glee with which I read that Cape Wind has been approved. The NIMBYs have been all over this one. Liberal lions (and yes, that is a reference to the the late Ted Kennedy) suddenly turn their backs on everything they've ever stood for when their precious view is threatened by a minuscule wind farm.

There was even a study commissioned to determined if the 42k gallon electrical oil could ever be at threat to the Cape Cod coast. Makes me wonder how it compares to the spill that's going on in the Gulf that might come up here. Oh, yeah. That spill is in the millions. And the study that was commissioned to see how much damage fuel oil tankers might due to the coast. Oh, wait. I missed the on line publication of that one.

I'd rather Cape Wind than the off shore drilling rig. But, since I'm a connoisseur of apoplexy, it sure would be fun to watch Exxon try to put one in.
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Monday, May 3, 2010

About "The Great Caruso"


The Great Caruso goes up on Book View Cafe today. Read it here.

This story goes back to my mother, Opal Lee Popkes. (A bit about her work here.)

To say Opal was idiosyncratic would be an insult to idiosyncratic people. She went her own way and did things for her own reasons. Other peoples opinions or reasons did not sway her. She was a writer, as I am. I have fourteen packing boxes of manuscripts in the attic I'm working my way through slowly, figuring out what to do with them.

Opal died in 2004 from a stroke. I still feel robbed.

Opal smoked a good deal of her life. She quit when I was about fourteen or so. She was forty-six.

When I was in college, Opal asked me if I could get her some marijuana. After all, they put it in brownies, didn't they? I, of course, knew nothing about this substance personally but like any college student had heard a few things. I suggested that most people seemed to smoke it.

Mom thought about it for a moment and decided against it. She said it had taken her so much effort to quit smoking that she didn't want to get tempted back into it. As far as I know, she never tried brownies but knowing Opal, you can never tell.

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Sunday, May 2, 2010

It's a Big Universe Out There


I've been getting stale lately, talking so much about evolution. So I thought I'd talk a little about some space missions and space news. After all, if Obama can pitch it, so can I.

This is a very, very quick list of some very interesting space news and missions that have come across my desk recently. I haven't gone into detail on any of them. But the original articles do.

Themis: is a fairly large asteroid that orbits out beyond Mars. Using earth bound telescopes, they found that there was frost on the surface. What's interesting is that in the environment of Themis, this ice could not be stable being exposed to space and not permanently in shadow. Therefore, the water had to come from somewhere. Many theories abound: did it come from a recent encounter? Does it come from the interior? Nobody knows.

Dark Flow: Somewhere on the other side of the universe, distant clusters of galaxies are moving at mega-mph towards the same place. The visible universe can't account for it. Which means that something out there, past where we can see, is dragging its neighbors in for a visit. What is it? No one knows.

Spirit: Poor little doomed Mars sprite. She tries so hard but can't get unstuck. No communication from her has been received since March 22. But we have hope.

Opportunity: is like the old Timex watches. Takes a licking and keeps on ticking. She is driving past some craters at the moment. She's on her way to Endeavour Crater. Both Spirit and Opportunity's home page is here.

Mars Local
: One of the great things about studying Mars is that meteorites have been discovered that originated on Mars. One of these is ALH84001. Lately, the true age of the meteorite is 400 million years younger than previously thought. It was formed when Mars was wet and had a magnetic field. Life, maybe?

Stephen Hawking: is afraid of aliens. Who knew?

Kepler: is NASA's attempt to find earth like planet. Why? Well, to scare Stephen Hawking, for one. So far, Kepler has discovered 8 planets. (See here.) Still more or less Jupiter sized. Stay tuned. There's some evidence that the Kepler team has held data back in order for it to be fully analyzed prior to release. See here.

Gamma Ray Bursts: (And here.) These are the largest known explosions. One reason they occur is when stars collapse into black holes. The NASA Swift observatory has been watching them since 2004 and just bagged GRP #500. How big an explosion? Well, the Milky Way is 100, 000 light years across. If a GRB happened anywhere in it, we'd be dead.

Hot Jupiters: may not always orbit in the plane of the star's rotation. Our planets do. But some of the exoplanets don't. About a quarter of the hot Jupiters discovered had orbits in a different plane of the host star. Very curious-- planetary formation theories suggest that the normal gravitational push and pull should line them all up in the same plane as the star. Ours do. Of course a sample size of one is never very good. These other planets may well have a different history.

Epsilon Aurigae: is an eclipsing binary star. But, eclipsed by what? Every 27 years it fades for more than a year, then it returns. That's either a mother of a planet or something else. Now, it turns out that it may well be surrounded by a disk of debris dust that is "optically thick but geometrically thin".

Hubble: turns 20. Here's a retrospective in pictures.

Cassini: is the largest and most complex robotic spacecraft ever built. It's still there. It's studying Titan, Enceledus. It even dropped a probe on Titan which seemed to plop into a world of liquid methane. And it's only six years old. Lightning strikes on Saturn here. Dione and Titan flyby here.

The Sun: NASA launched the Solar Dynamics Observatory, which has my vote for the best eye candy from a currently operational space craft. That's the sun from SDO up at the top, there.

There are a lot of missions going on up there: AIM, looking at polar clouds. Aqua, studying earth's water. NASA's current mission are listed and discussed here.

Go have fun.

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