2014년 4월 15일 화요일

Pillbug lab--Animal behavior


1. Abstract

     Using pillbugs so as to observe animal behavior, a series of labs was conducted in a behavior chamber divided into two areas both covered with filter paper. My parter and I observed pillbug behavior for 7 minutes and 30 seconds for each lab, recording lab data (number of pill bugs in each area) every 30 seconds. The first lab showed that pillbugs strongly prefer a wet environment to a dry one, the second lab that pillbugs, albeit moderate, prefer an environment of high sugar content, and the third that pillbugs have fairly strong affinity to rocky terrains artificially created with beads.

 

2. Introduction

     Animal behavior is, to rephrase the definition written in the pre-lab handout distributed beforehand, an animal's response to external stimuli. The study of animal behavior consists of two different types of questions: proximate questions and ultimate questions. Proximate questions are focused on the ostensible mechanics of a particular behavior. An example of a proximate question regarding bird song would be ‘how often and long does the bird sing?’ or ‘what muscles enable the bird to sing?’ Ultimate questions, on the other hand, deal with more fundamental causes of a behavior mainly pertaining to the evolutionary reasons. One ultimate question regarding bird song is ‘how does the singing affect the bird’s chance of survival in the ecosystem?’ Fixed action pattern is an animal’s instinctive, genetically inherent behavioral response to what’s called a sign stimulus, an occurrence of a particular situation that stimulates an animal to show the response. Prominent examples of fixed action pattern include mate dancing of birds and aggression between male sticklebacks (Wikipedia, s.v. fixed action pattern). Imprinting refers to the process by which an animal acquires a certain reaction mechanism to a particular stimulus that soon becomes an instinct. For instance, a baby goose, between 13 to 16 hours after hatching (Wikipedia, s.v. imprinting), a period known as a ‘critical period’, would ‘imprint’ on its memory a particular subject (not necessarily an adult goose) as its lifelong guardian. Kinesis and taxis are two types of animal responses—kinesis is a random, undirected reaction to a stimulus, and taxis a specific one with well-guided directions. The pillbug experiment gives good sense of the two concepts. Taxis occurred when pillbug moved from one area to another in accordance with its preference of light, heat, moisture, sound or chemicals. Kinesis was exhibited when the pillbugs simply moved around the filter paper regardless of the stimulus. Classical conditioning is a type of learning in which the repeated memories of a certain stimulus trigger an involuntary reaction to another stimulus. After experiencing loud thunderstorms at least once in our lifetimes, we automatically close our ears when we see a lightening from the sky due to classical conditioning. Operant conditioning refers to a learning of a behavior aimed for practical benefit or reward. When a dog, knowing that he will be rewarded with a treat afterwards, obeys his master’s order to sit down, a perfect example of operant conditioning has been exhibited.


3. Hypotheses

         Independent variable: water (wetness of the filter paper), honey (sugar content of filter paper), beads (rockiness of the terrain)

         Dependent variable: Number of pillbugs in each chamber

A.   Moisture Lab

If a wet environment is created, the pillbugs would exhibit taxis by moving there instead of staying in a dry one.

B.    Honey Lab

If we drench one chamber with honey, the pillbugs would be attracted to it due to its general preference of sugar, also exhibiting taxis.

C.    Terrain Lab

       

If a rocky terrain is formed, the pillbugs, exhibiting kinesis until it reaches there, would eventually show the tendency to prefer a rockier environment.

 

4. Materials

- 10 pill bugs

- 3 behavior chambers

-approximately 10mL of water

-app. 10ml of honey

-around 50 beads

-Brushes

-6 pieces of filter paper

 

 

5. Procedure

 

A.   Place 10 pillbugs in a behavior chamber whose two rooms are covered with filter papers. One should always remain dry as a control.  

B.    Record the number of pillbugs every 30 seconds in each room, carefully observing their behaviors.

C.    After at least 7 minutes, put the pillbugs back into the beaker using brushes. Prepare for the next experiment, changing the independent variable.

 

6. Results

 

A. Moisture lab:

 

Time (minutes)
# in dry chamber
# in wet chamber
0
2
8
0.5
2
8
1
2
8
1.5
2
8
2
1
9
2.5
1
9
3
0
10
3.5
0
10
4
0
10
4.5
0
10
5
0
10
5.5
0
10
6
0
10
6.5
0
10
7
0
10

 

The initial hypothesis was true. Pillbugs definitely preferred a wet environment to a dry one.

 

B. Honey Lab

 

Time (minutes)
# in dry chamber
# in honey chamber
0
2
8
0.5
2
8
1
2
8
1.5
2
8
2
3
7
2.5
3
7
3
3
7
3.5
2
8
4
3
7
4.5
2
8
5
1
9
5.5
3
7
6
4
6
6.5
4
6
7
3
7


Belying our initial hypothesis that pillbugs would show strong affinity to honey, the pillbugs were rather evenly spread in both chambers, albeit exhibiting a moderate preference of honey.

C. Terrain Lab

Time (minutes)
# in dry chamber
# in bead chamber
0
0
10
0.5
1
9
1
3
7
1.5
5
5
2
6
4
2.5
5
5
3
7
3
3.5
6
4
4
7
3
4.5
9
1
5
10
0
5.5
9
1
6
10
0
6.5
8
2
7
9
1

 

The preference of an uneven terrain was very obvious at first, but the pillbugs soon started to freely move around, perfectly exhibiting kinesis. However, since their behavioral tendency to gather around the beads was very dramatic, I would still call the initial hypothesis valid.

7. Conclusion

Apart from superficial observations, the lab suggests a significant ultimate question regarding adaptive traits often maintained and evolved through natural selection. The behavioral tendencies pillbugs demonstrated were in many cases related to adaptive traits acquired so as to increase their chances of survival in nature. Pillbugs, over time, have evolved/adapted to live under dark, damp objects such as trees or organic garbage to avoid their predators. This accounts for their preference of wet filter paper. Sugar can possibly be a good source of nutrient for the pillbugs to generate ATP. Pursuit of sugar must have been beneficial to their survival. Likewise, pillbugs are fond of rocky terrains for they are capable of inhabiting under rocks, a desirable trait that prevents them from being noticed by predators.

2014년 3월 12일 수요일

Immune System quiz


Answers to the questions

  1. Provides an immediate nonspecific immune response.

First line of defense is like a moat and high stone walls of castle.

1)    Mechanical barriers: skin, mucosa

2)    Chemical barriers: The skin and mucous membranes secrete proteins such as lysozymes or hydrochloric that kill the germs

3)    Biological barriers: Living organisms in the body that compete with pathogens.

 

Once the invaders (bacteria, virus, or parasite etc) enter through the cut and get into the body, they would then encounter the second line of defense.

Inflammatory response is the first response to infection or injury and is the same regardless of the type of pathogen.  Inflammation is triggered by chemicals called cytokines and histamines, which are released when tissues are damaged. The cytokines and histamines cause changes in the damaged tissue. The changes help remove the cause of the damage and start the healing process. Another role of cytokines is to attract leukocytes to the site of inflammation. Some leukocytes are nonspecific and respond in the same way to most pathogens. Nonspecific leukocytes include monocytes, macrophages, neutrophils, eosinophils, and basophils. Monocytes, macrophages, and neutrophils destroy pathogens in the blood and tissues by phagocytosis. Phagocytosis is the process of engulfing and breaking down pathogens and other unwanted substances. In addition to phagocytosis, both monocytes and phagocytes produce chemicals such as cytokines that cause inflammation and fever. A fever is a higher-than-normal body temperature that may help fight infection.


<phagocytosis by a macrophage>

 

 

2.     Activates T and B cells in response to an infection

1.    B-cell activation in Humoral Immune Response

B cells are responsible for the humoral  immune response. The humoral immune response takes place in blood and lymph and antibodies are produced by activated B-cells, ‘plasma cells’.


 

2) T-cell activation in cell- mediated immune response


Activation of T-cells needs other cells help. B cells or leukocytes such as macrophages engulf pathogens in phagocytosis and display parts of the pathogens’ antigens on their surface. The cells are then called antigen-presenting cells. When a naïve T cell encounters one of these cells with an antigen matching its own, it begins the activation process. After T cells are activated, the various types of T cells play different roles in the immune response.

3.    Responds to a later exposure to the same infectious agent

The immune response is specific to a particular pathogen, and it allows the immune system to “remember” the pathogen after the infection is over. Memory cells are activated B or T cells that retain a “memory” of a specific pathogen long after an infection is over .If the pathogen tries to invade the body again,  the immune system can launch a much faster, stronger attack. This lets the immune system destroy the pathogen before it can cause harm.

  1. Disinguishes self from nonself

Immune cells do not actually recognize and respond to pathogens but to the antigens (antibody + generator) they carry.  Antigens are protein molecules that the immune system recognizes as nonself. Antigens include proteins on pathogens, cancer cells, and the cells of transplanted organs. Both B and T cells can “recognize” specific antigens because they have receptor molecules on their surface that bind to particular antigen molecules or pieces of antigen molecules. As shown in the figure, the fit between a receptor molecule and a specific antigen is like a lock and key. Receptors on each B or T cell recognize and bind to just one type of antigen. The human body makes lymphocytes with receptor sites for a huge number of possible antigens that may be encountered throughout a person’s life.




 

2014년 2월 25일 화요일

Endorphin


     It is unfortunate that the society shows no mercy to narcotics, but what if the human body secretes one that is about fifty times more potent than heroine? Endogenous Morphine, better known as Endorphin, is a peptide hormone mainly released from the pituitary gland located in the base of the brain. Endorphin is secreted when we are under severe stress, fear or pain. It helps us forget the pain and control our emotions by interacting with the receptors of the cells. In fact, endorphin is so potent that it doesn’t simply alleviate pain but literally makes us high-- How awesome is that? Particularly famous is a state known as ‘Runner’s high’ where an exhausted athlete suddenly experiences a feeling of euphoria due to endorphin release. Endorphin also helps mothers endure immense pain when giving birth. Scientists say that many near-death experiences those religious frauds always blab about may also be a product of endorphin release. No wonder that endorphin is released to its max when you’re dying.

     In those days when our biological ancestors lived in the wild, it was necessary that they withstand stress and pain following physically demanding tasks like running and hunting. Therefore a certain group of mutants that somehow happened to have Endorphin would have been able to survive better, leaving their awesome genetic trait to humanity. In short, it’s survival of the fittest all over again.   

2014년 2월 23일 일요일

Lactic Acid Fermentation

Kimchi
(Source: http://c.ask.nate.com/imgs/qrsi.php/11793224/21217261/0/1/A/17c782b771bb9b8a2768bbaebf4269ca.jpg)


     Unlike what many foreigners think, Kimchi actually has a sour taste. Kimchis that can be found in grocery stores of America are in many cases something what's called 'Raw-Kimchi', a type of Kimchi that hasn't fully undergone fermentation. Where does this sour taste come from? How is the process of fermentation related to Kimchi's unique sourness loved by many Koreans?

     Glycolysis, the first step of cell respiration in which a glucose (C6H12O6) splits into two pyruvates (C3H4O3), is anaerobic, meaning that it is capable of occurring without oxygen. Anaerobic respiration however undergoes a completely different path from that of aerobic respiration which eventually generates about 38 ATPs. Fermentation is one type of anaerobic respiration. Fermentation also generates certain amount of ATPs, 'recharging' the used up NAD+s to once again form NADH. In aerobic respiration, these NADHs can later on give up electrons to oxygen to eventually generate H2O. But in anaerobic respiration, as its name suggests, there exists no oxygen within the system that can accept electrons.
   
   (Source: http://blog.naver.com/dbok1234?Redirect=Log&logNo=110165450698)

Once again take a look at the chemical equation of anaerobic glycolysis:

C6H12O6 + 2NAD+ -> 2C3H4O3 + 2ATP + 2NADH + 2H+


Without O2, the 2NADH and 2H+ undergoes what's called lactic acid fermentation. A total of 4 H+s, two of which dissociated from NADH, attaches to two pyruvic acids (two each) to form lactic acid (C3H6O3). Lactic acid is what gives a sour flavor to fermented foods including Kimchi, cheese and yogurt. Making all this happen are lactic acid bacteria better known as lactobacillus. The presence of lactic acid Bacteria is crucial to fermentation. Without lactobacillus, A food would undergo putrefaction, or simply rot instead of fermentating.
(Source:  http://www.computescotland.com/acrylamide-offset-by-lactic-acid-bacteria-3652.php)

2014년 1월 28일 화요일

The Strange Case of Hwang Woo Suk

 
                                                               Hwang Woo Suk (1952~)

     Unfortunately, many Koreans including I associate stem cells, the greatest asset of modern science, with one of the most scandalous incidents of fraud in human history. A sequence of revelations and the ensuing national delirium has showed how science, when combined with blind nationalism and dirty political calculations, can push one nation into an abyss of irrationality.
     It was 2004 when Hwang, a professor/researcher of Seoul National University, announced that his team was successful in culturing an embryonic stem cell from a cloned human somatic cell. This seemingly groundbreaking achievement, outlined in a 9 page paper published in <Science> (http://www.sciencemag.org/content/303/5664/1669.full.pdf), gave Hwang a literally untouchable reputation as a national hero. Hwang's method of creating an embyonic stem cell was a classical one that extracts the embryo from a zygote (This means that Hwang's method, regardless of the all scandals and scams involved, was to soon become outdated whatsoever, along with the discovery of the innovative iPSC method.) Awed by this seemingly unforeseen technology and the new possibilities sprouting from it, Koreans lavished almost unconditional support to this powerful figure. There were even talks about adding his success story in middle school textbook. That pretty much explains itself.
     In 2005, a group of young scientists in an online community named BRIC raised questions about the pictures used in Hwang's 2004 paper. Apparently the pictures used in Hwang's paper were all identical, merely a set of photos taken in different angles. As the doubt rapidly spread online, Hwang's team promptly announced that everything was a minor 'mistake', and claimed that they have already informed <Science> about this error. These excuses later on turned out to be flagrant lies. The entire nation was divided into two. Many politicians and mass media zealously defended Hwang, condemning the doubters as traitors to the nation. Many scientists and experts who either questioned or criticized Hwang were often blackmailed by his advocates. Engulfing the country was Fascist madness that, no matter what Hwang has done, every Korean should all support this hopless fraud and cheat. Eventually after a sequence of honest testimonies given by many courageous whistle-blowers, Hwang was virtually ostracized from the Korean scientific community.
      This shameful incident was literally an atomic bomb dropped on Korean society. Perhaps the ugliest aspects of Korea were revealed to the world--moral hazard of scientists who refused to seek the truth, corrupted politicians who advocated Hwang for political purposes, incompetence of the government to resolve the situation, academia's negligence in scientific verification, and above all, the Korean people's tendency of extreme nationalism. We have seen through this incident how the interference of nationalism in science can cause unimaginably detrimental consequences. Science should always exist as science. "Science knows no country, because knowledge belongs to humanity, and is the torch which illuminates the world." (Pasteur).   

2014년 1월 24일 금요일

Stem Cell 101

1.  The type of stem cell which the article mainly discusses is the embryonic stem cell. Sperm and egg undergo fertilization form a zygote. A zygote then divides into many cells through cell division, and these cells form what's called embryos after division and differentiation. It is after differentiation that each embryo acquires a specific function, only able to form certain cell types such as muscle or bone. The scientific principle behind stem cells is that this embryo, once not having underwent differentiation, is capable of becoming any of the 220 cell types in the human body. By extracting those 'pluripotent' embryos and growing them seperately, we are able to obtain the embryonic stem cells which can be used to regenerate damaged tissues and organisms.
     Another type of stem cell, perhaps the more orthodox and uncontroversial among the two, is the adult stem cell. Adult stem cells are yet undifferentiated cells that are capable of differentiating into specific organisms if necessary. Unlike embryonic stem cells, adult stem cells inherently exist in the human body (usually in the marrows) in extremely small amounts, and are incapable of forming all cell types with no limitations. One renowned example of an adult stem cell existing in our bodies is the Hematopoietic Stem Cell, widely used in bone-marrow transplantation among leukemia patients.
     The newly developed  iPCS perhaps epitomizes the cutting edge stem cell technology of the era--iPCS, first found by Prof. Yamanaka of Kyoto University, refers to the specially manipulated somatic cells that are literally 'reprogrammed' to function as differentiable embryonic cells. Enabling such is the transplantation of embryonic genes into the somatic cells through the use of retroviruses, the 'carriers' of the genes. The efficiency of iPCS method is an absolutely unparalleled one, for conventional methods of reprogramming involed an extremely elaborate process by which the genetic material from an adult cell is injected into an egg cell whose DNA has been removed.

2. Though it requires great precision, cloning, in its essence, is an extremely straightforward process. First you remove the nucleus from the fertilized egg, and replace the removed nucleus with a nucleus obtained from a cell of another living organism. Since the DNA information of the egg would then also be replaced with that of the nucleus donor, the offspring generated afterwards would be the exactly identical 'clone' of the donor.

3. The ethical question regarding stem cells is whether we should view the embryo as a seperate, independent living organism. The embryo itself is often destroyed when its pluripotent portion is extracted and seperated. Many Christians (mainly the Catholics) have spearheaded the anti-embryonic stem cell movement for they view an embryo as a basic form of life with spirit, and therefore believe that the destruction of such embryo is equivalent to murder. However, as the innovate iPCS method has rised, many of the ethical controversies about stem cells have generally diminished.
+Egg donor problem; black market? --also solved thanks to iPCS