Tag-Archive for » research «

May 23rd, 2009 | Author: sarcozona

A beautiful post on hierarchies and judgement within marginalized communities.

The Skeptic’s Book of Pooh-Pooh points out an awesome news story on the danger anti-vaxers create for children in their communities.  The anti-vaxers hypocrisy is also on display in their support of chemical castration for autistic boys.

We can’t expect toxic products to stop coming from China anytime soon.  Honesty and transparency are impossible with a government that actively represses knowledge of its own history.

Women continue to be kidnapped, sexually assaulted, and brutally murdered in Mexico.  Despite the hundreds of victims that are likely the victims of one or more serial killers, the police aren’t doing anything about it.

As the AZ legislature slashes education funding across the state, especially at the university level, the AZ Republic has a timely article about the importance of research – even if it sounds ridiculous.

Justice.”


Lindsay Beyerstein
explains that we do still need journalists and should be paying them – most bloggers provide commentary and synthesis, not reporting.

The role of partisanship in California’s economic crisis.

Something to have nightmares about: the rise of private policing in the US.

Right wing extremists kill more law enforcement officers.

Dr. Isis’s fantastic post Boys Talk About How Girls Should Talk About Science…

It’s easy to consider a civil discourse when you’ve never had your ass grabbed by a colleague, been called “young lady” in front of your peers, or been asked about your reproductive plans.  It’s easy to ask the participants to be calm, and minimize profanity, when you don’t have to keep in the back of you mind which which men to avoid at a meeting when they’ve been drinking.

Plants recognize themselves.

The representation of hetero men in conventional pornography vs. the spectrum of things hetero men actually enjoy.

FSP on “us and them.”

The next cake I’m going to bake.

Pennsylvania is starting to look like the deep south half a century ago.

Texas AND Alaska charge victims for their own rape kits.

March 31st, 2009 | Author: sarcozona

I’ve been learning to use R and it’s been making my job a lot easier.  Sometimes, though, I get stuck on the silliest things.  One problem I ran into very early on was adding more than one set of points to a plot.  Even with the many instructions and examples, I still couldn’t figure this simple problem out!  Even more frustrating was that sometimes it seemed to work and other times it didn’t.

Then I figured out the difference between when it worked and when it didn’t -  (for anyone else with this problem) xlim and ylim MUST be specified in the original plot parameters.  As excited as I was to figure this out, I’m also a little embarrassed it was so hard for me!

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March 18th, 2009 | Author: sarcozona

LL Cool Joe started an interesting meme a couple weeks ago and Leo tagged me.

The rules:

1. You’ve got to post a link from the person who tagged you.
2. List 8 things that you know about on your chosen subject. You get to choose the subject.
3. You don’t have to tag anyone but you can if you want. If you do, let them know on their blog that they’ve been tagged.
4. List the rules.

Leo gave some awesome tips on baking light bread, and I considered telling you about cornbread or cookies, but, inspired by my plant chemical ecology seminar this week, I’ve decided to share some interesting ecological tidbits instead.  While most people are somewhat aware of the interconnectedness of our world, most people miss out on all the fantastic details.
ResearchBlogging.org

  1. Fruit flies are not very common in the desert because they like a lot of water.  A few species in the Sonoran, however, survive on rotting cacti.  Cacti generally produce lots and lots of nasty chemicals and different cacti produce different nasty chemicals.  Each species of fruit fly can only handle certain nasty chemicals.  The fruit flies figure out which cacti have the right nasty chemicals by smell – but not the smell of the cactus.  Each kind of cactus has its own unique community of microbes that produces its own unique smelly chemicals that the flies recognize.
    Fogleman, J. (2001). Chemical Interactions in the Cactus-Microorganism-Drosophila Model System of the Sonoran Desert Integrative and Comparative Biology, 41 (4), 877-889 DOI: 10.1093/icb/41.4.877
  2. Maculinea butterfly caterpillar skins “smell” like ant larvae, so when an ant stumbles across one of these caterpillars it’s like “OMG MY BABY ISN’T IN THE NEST” and takes it home and feeds it at the expense of actual ant larvae. antNash, D., Als, T., Maile, R., Jones, G., & Boomsma, J. (2008). A Mosaic of Chemical Coevolution in a Large Blue Butterfly Science, 319 (5859), 88-90 DOI: 10.1126/science.1149180
  3. As carbon dioxide increases in the atmosphere, many plants end up with a higher carbon (sugar) to nitrogen (protein) ratio.  This is bad news for the herbivores because there’s already way more sugar than protein in plants and the herbivores need protein badly.  When the carbon to nitrogen ratio goes up, herbivores often have to eat more and take longer to develop.  This eventually leads to fewer herbivores: Since they’re around longer, they are eaten more often by their predators. Since they have to eat more to get enough protein, they ingest more of the toxins plants produce – and plants can produce more toxins because of the extra carbon.  And since there’s so much more sugar than protein, the herbivores can starve to death – a candy diet wouldn’t work out so well for you either.
    Scrub Oaks And Sky, Grayton Beach State Park, FL 2008 by Lone Cypress

    Scrub Oaks And Sky, Grayton Beach State Park, FL 2008 by Lone Cypress

    STILING, P., & CORNELISSEN, T. (2007). How does elevated carbon dioxide (CO) affect plant–herbivore interactions? A field experiment and meta-analysis of CO-mediated changes on plant chemistry and herbivore performance. Global Change Biology, 13 (9), 1823-1842 DOI: 10.1111/j.1365-2486.2007.01392.x

  4. Mycorrhizae are a mutualism between plants and fungi.  The plant provides the fungus with carbohydrates and the fungus helps the plant get nutrients from the soil, like nitrogen.  Plants make carbohydrates from carbon dioxide and sunlight and their growth is usually limited by nitrogen.  While fungi can absorb nitrogen and phosphorus from the soil, they can’t make their own carbohydrates.  Elevated levels of atmospheric carbon dioxide help the plant grow more, but also mean that the plant requires more nitrogen.  So, if carbon dioxide is higher, the plant gives away more carbohydrates to the fungi in exchange for more nitrogen.  Remember, though, that the fungi need nitrogen, too.  Some species of mycorrhizae grow so much when the plant is exposed to elevated levels of carbon dixoide that it uses up all of the nitrogen instead of giving it to the plant – not only does it steal the carbohydrates the plant makes, it takes up all the soil nutrients the plant needs.
    Mycorrhizae on plant roots

    Mycorrhizae

    ALBERTON, O., & KUYPER, T. (2009). Ectomycorrhizal fungi associated with seedlings respond differently to increased carbon and nitrogen availability: implications for ecosystem responses to global change.  Global Change Biology, 15 (1), 166-175 DOI: 10.1111/j.1365-2486.2008.01714.x

  5. Even if the soil is wet, a plant can still be too dry, especially if it’s cold outside.  When water is cold it becomes more viscous.  You may not notice that cold water is thicker than warm water, but to a plant it’s the difference between milk and a milkshake.

    Lopushinsky, W, & Kaufmann, M (1984). Effects of Cold Soil on Water Relations and Spring Growth of Douglas-fir Seedlings

  6. Plants use long dead cells to transport water.  You can think of a bunch of them together like a bunch of tiny connected pipes.  Water is not pushed through the pipes from the ground (with a positive pressure)– it is pulled through the plant like water through a straw (with a negative pressure).  Transpiration – the evaporation of water from the leaves – is what pulls water through the plant.  This is only possible because water has a very strong tensile strength.  Water molecules tend to cling to one another very tightly so that in a plant, there is a column of water from the roots to the leaves that is stretched like a rubber band.
    Water conducting cells in plants

    Water conducting cells in plants

    Dixon, & Joly (1894). On the ascent of sap Annals of Botany

  7. The system plants use to get water works pretty well, but there can be some pretty serious problems.  Plants basically suck water from the soil.  When the soil is dry, they suck harder.  Sometimes they suck so hard that air comes through the sides of the water conducting cells.  Once air gets in, it expands and fills up the cell and “breaks” the column of water.  This is called cavitation.  Since there are lots of these cells and lots of little water columns, this isn’t usually a big deal, but if it happens too often, the plant can die.  Different plants experience cavitation at different levels of water stress.  I study pinyon pine trees that grow with juniper trees.  Pinyon pine water conducting cells cavitate in much “wetter” soils than juniper.  For example, these two pictures show a pinyon juniper woodland at two points in a particularly dry year.  In the first picture, you see both pinyon and juniper.  In the second picture, almost all of the living trees are juniper.
    Pinyon-Juniper Woodland

    Pinyon-Juniper Woodland

    Juniper woodland

    Juniper woodland

    Linton, M., Sperry, J., & Williams, D. (1998). Limits to water transport in Juniperus osteosperma and Pinus edulis: implications for drought tolerance and regulation of transpiration Functional Ecology, 12 (6), 906-911 DOI: 10.1046/j.1365-2435.1998.00275.x

  8. The world is complicated: there are countless interactions between organisms and predictions can be nearly impossible.  What we are sure of is that people are changing the climate very quickly and our ecosystems are also changing in ways that will very likely have terrible consequences for us and other species.  I study ecology not just because it’s beautiful and fascinating, but also because it may give us the information we need to live better in the world.

I’ll tag Brooke, Lights, Carpe Omnis, Eugenie, Transient Theorist, Karina, and FreedomGirl.

February 25th, 2009 | Author: sarcozona

I’ve been working madly to get some data together to present at a conference in a few months and last night I wrote the last line of code, plotted the data, and just sat there for a minute. Sometimes (and by sometimes I mean all the time) science is surprising. Something I thought was sort of a continuous process is actually more of an on or off process. And while this surprise has very inconvenient timing (or maybe I should just get things done earlier…), it is going to completely change how I put this piece of my research into my fancypants model. Bonus: I think it’s going to reduce error, too.

On another note, last night I dreamed I was Siler’s sidekick and I kept thinking “OMG why does he have to make such a mess? I’m so hungry and this is going to take forever to clean up.” In real life, I am not that callous, though I am hungry all the time.

January 14th, 2009 | Author: sarcozona
getting a cookie

My mentor, cutting down a dead tree for me

I want to know how different soil types affect pinyon pine growth during drought and if there’s a difference in growth between trees that die in the drought and those that have survived so far.  So I needed some cookies.

tree cookies

tree cookies

We had no idea that there would be two feet of snow on the ground at the site, which made working much much harder.  As much as I usually hate fieldwork, you would think that I would have had a terrible time.  Actually, I had a great time.  Of course, that might have had a little to do with the drugs I had to take to deal with the change in elevation.

September 01st, 2008 | Author: sarcozona

in my natural habitat

I have to read a lot of papers for work, and every once in awhile I write one of my own. Keeping track of all the papers and then citing them and building bibliographies can be pretty time consuming. Citation managers make the job a lot easier. I’ve been using RefWorks for the past year, but recently switched to Zotero after reading about it at Ruminations of an Aspiring Ecologist.

Zotero is much faster and easier to use.  The integration with Firefox is flawless and importing references is effortless.  For databases without automatic RefWorks export options for their citations, I had to download a citation file, then import it into RefWorks in a separate (tricky) step.  I say tricky because I had to choose several options on the import that were different for different databases and often not very intuitive.  This doesn’t happen with Zotero.

The biggest problem I have with Zotero is that it doesn’t work with Microsoft Office 2008 yet.  So I’m using both RefWorks and Zotero until the new plugin gets built.  Hopefully that will be soon.  I’m excited about not using clunky RefWorks anymore.

May 28th, 2008 | Author: sarcozona

ResearchBlogging.org

Carbon dioxide levels have been increasing since the industrial revolution and have been increasing really really fast since the 1950s. You’ve all seen the hockey stick graph.

hockey stick graph

I’ve been looking at pinyon pine tree rings for the past year and think there might be something going on with increasing CO2 and what the rings are doing. So I’ve got a stack of papers to read through and thought I’d share some of them with all of you.

Carbon dioxide is pretty good for plants because plants need carbon for photosynthesis. We’re interested in what higher levels of CO2 will do to plants because if plants are growing more and eating more carbon dioxide it could help slow down global warming. But giving most plants most places extra carbon dioxide doesn’t seem to do much in the long run because plants need lots of other things to grow, like nitrogen and water, and carbon isn’t usually the most limiting. It’s the same for you: it doesn’t matter how many vegetables you eat if there’s no water.

But what about plants where carbon might be a limiting factor for growth? Carbon can be limiting in hot, dry places because to get carbon, plants have to lose water. Plants have little tiny pores in their leaves called stomata. They have to open these to let in CO2, but water escapes whenever they’re open. A lot of plants that live in hot, dry places have evolved a different kind of photosynthesis to deal with this.

stoma

Another place carbon might be limiting is at very high elevations. Atmospheric CO2 concentrations decrease with increasing elevation. That means that in the same amount of space there’s less CO2. This happens to all gases. Flagstaff is above 2000 meters. When people move here, they have a hard time breathing for awhile because of the lower oxygen concentration.

Lamarche et al. looked at tree rings in the 1980s of bristlecone pine growing at 3100 meters. They found that the trees had increasing growth since about 1840. Initially they thought that this was due to warmer temperatures, but then when it cooled down in the 60s, the trend kept going and even accelerated. So, the faster growth wasn’t due to hotter temperatures.

bristlecone

But was it caused by higher CO2 levels? Plants can only use so much CO2, no matter how much is available. Like at Thanksgiving dinner, there’s lots of food available, but you can only eat so much. In the 1960s, CO2 was between 223 and 230 ppm at 3500 meters. For spruce, that concentration is well below what it considers CO2 saturation and so is probably well below what bristlecone considers saturation.

While the authors didn’t really have enough data from enough places to say for sure CO2 makes trees growing at high altitudes grow more, what they do have certainly suggests it.

This paper is over 20 years old, so we’ll see what more recent papers have found…

LAMARCHE, V.C., GRAYBILL, D.A., FRITTS, H.C., ROSE, M.R. (1984). Increasing Atmospheric Carbon Dioxide: Tree Ring Evidence for Growth Enhancement in Natural Vegetation. Science, 225(4666), 1019-1021. DOI: 10.1126/science.225.4666.1019

May 01st, 2008 | Author: sarcozona

The 4th edition of Berry Go Round is up at Foothills Fancies.  Go check it out!

Highlights:

This post on redbuds makes me terribly homesick.

Julia is right: this seed fern fossil discovery is very exciting.

The twists and turns of research.

Bryophytes rock my world.

March 13th, 2008 | Author: sarcozona

Poor Brazilians figuring out who’s really screwing them over

A very addictive game

John McCain is a hypocrite

John McCain thinks I’m a baby machine

Another university goes after the people who aren’t really cheating

A song to brighten your day

It’s a computer, it’s a mouse brain!

Frida Kahlo, survival, and the stories we tell ourselves

Survivor: scientists edition

UNC drag show pictures

Poorly trained campus police + assault rifles = dead students

Pulp fiction cover art (and atheists)

A very big squid

Rapid evolution of a plant in Montpellier

US “democracy” in action

March 06th, 2008 | Author: sarcozona

ResearchBlogging.orgNothofagus dombeyi, or coihue, is a large tree that grows in the Andes. In the late 90s, northern Patagonia was hit with a pretty severe drought that killed many of these trees. So what was the difference between the trees that kicked it and the trees that are still going strong?

Some trees constantly live with higher water stress than others. This is usually due to where they’re growing. If a tree is on a particularly steep patch of ground, the water runs off before it can suck it up. If a tree is growing in shallow soil or on a very sunny slope, it’s going to be a lot thirstier than your average tree in the forest.

The authors of this study thought that these trees might be the ones to be hit hardest during the drought since they were already stressed. They also considered the possibility that the trees growing in more water stressed areas are different and better able to cope with drought. The trees used to the good life might have invested more in their tops than their roots, which could be bad news in a drought. A tree with a smaller root system might not be able to suck up enough water to support all its branches in a very dry year.

The authors also wondered if there were a way to look at a tree and use where and how its growing to predict whether or not it will survive a drought.

So, what did they find?

more…