User:Z3318446

From CellBiology

Attendance List

--Seow Liew 10:46, 10 March 2011 (EST)

--Seow Liew 09:02, 17 March 2011 (EST)

--Seow Liew 09:16, 24 March 2011 (EST)

--Seow Liew 09:33, 31 March 2011 (EST)

--Seow Liew 09:09, 7 April 2011 (EST)

--Seow Liew 10:07, 14 April 2011 (EST)

--Seow Liew 09:02, 21 April 2011 (EST)

--Seow Liew 09:40, 12 May 2011 (EST)

--Seow Liew 09:14, 19 May 2011 (EST)

--Seow Liew 10:12, 26 May 2011 (EST)

Individual Assessment

Lab 1

1. What are the key cell biology journals?

Trends in Cell Biology, Cell ,Journal of Cell Science, BMC Cell Biology and Nature Journals.

2. Which journals allow reuse of their published content?

Public Library of Science, The Journal of Cell Biology and BMC Cell Biology.

Lab 2

1. Which chromosomes contribute to the nucleolus?

Ribosomal ribonucleic acid (rRNA)

--Mark Hill 07:56, 24 March 2011 (EST) This is not the correct answer. The genes for rRNA are located at the nucleolus, but they are located on different chromosomes. I was after the identity of these chromosomes.

Chromosomes 13, 14, 15, 21 and 22 which contain rRNA genes contribute to the nucleolus and its functions in humans.

2. Identify and add a link to your page of a recent cell biology article using confocal microscopy.

http://www.biomedcentral.com/1471-2121/11/92


Here is some bold text

Here is some italic text

teaching my favourite students basic stuff

J of cell biology Homepage

http://www.ncbi.nlm.nih.gov/pubmed/

Pubmed

Lab 3

This is about frog nucleoli shape changes.[1][2]


1. Find the SDS information for chloroform and identify the hazards associated with this chemical.

Chloroform SDS info

Inhalation:

Irritates respiratory tract and causes central nervous system effects, including headache, drowsiness, dizziness.Prolonged exposure may lead to death due to irregular heart beat and kidney and liver disorders.

Ingestion: Causes severe burning in mouth and throat, pain in the chest and vomiting. Skin Contact:

Causes skin irritation resulting in redness and pain.May be absorbed through skin.

Eye Contact:

Vapors causes pain and irritation to eyes.Splashes may cause severe irritation and possible eye damage.

Chronic Exposure:

Prolonged or repeated exposure to vapors may cause damage to the nervous system, the heart and the liver and kidneys.May cause chronic irritation of skin with cracking and drying, and corresponding dermatitis.

Aggravation of Pre-existing Conditions:

Persons with pre-existing skin disorders or eye problems, or impaired liver, kidney or respiratory function may be more susceptible to the effects of the substance.

2. You will need to upload an image and add it to your page, with the reference and copyright information with the image.

1477-7827-9-3-3.jpg

FCS follicles: theca cells.[3]

Reference list

  1. Clifford P Brangwynne, Timothy J Mitchison, Anthony A Hyman Active liquid-like behavior of nucleoli determines their size and shape in Xenopus laevis oocytes. Proc. Natl. Acad. Sci. U.S.A.: 2011, 108(11);4334-9 PubMed 21368180
  2. Duncan Sproul, Colm Nestor, Jayne Culley, Jacqueline H Dickson, J Michael Dixon, David J Harrison, Richard R Meehan, Andrew H Sims, Bernard H Ramsahoye Transcriptionally repressed genes become aberrantly methylated and distinguish tumors of different lineages in breast cancer. Proc. Natl. Acad. Sci. U.S.A.: 2011, 108(11);4364-9 PubMed 21368160
  3. Stefania A Nottola, Sandra Cecconi, Serena Bianchi, Cecilia Motta, Gianna Rossi, Maria A Continenza, Guido Macchiarelli Ultrastructure of isolated mouse ovarian follicles cultured in vitro. Reprod. Biol. Endocrinol.: 2011, 9;3 PubMed 21232101

Lab 4

1.Identify a commercial supplier of an antibody that relates to your group project topic.

LifeSpan BioSciences,that produces Rabbit Anti-Human TJP2 Polyclonal Antibody which is used to against

synthetic peptide corresponding to a region of Human TJP2.[http://www.lsbio.com/Products/Antibodies /AntibodyDetail.aspx?AntibodyID=81165 info]

2.In mitochondria, where is the gene located that encode Cytochrome C and what keeps this protein trapped within the mitochondria?

Lab 5

Completed the KO lab written exercise.

Lab 6

Group 1

Graph.JPG

Phenotype A: "Fan" phenotype

Phenotype B: "Broken fan" phenotype

Phenotype C: "Stumped" phenotype

Phenotype D: "Prolonged" phenotype

Phenotype E: "Stringed" phenotype

Phenotype F: "Pygnotic" phenotype

1. What are the changes in phenotypes that you observe between group A and group B in your graph?

The cells in group B(control) demonstrated phenotypes B ("broken fan") and C ("stumped") as the most seen phenotypes with cells with phenotype B , 22.5% and cells with phenotype C, 25.0% . The over Tm4 (Tropomyosin 4) expressed cells in group A(Tm4 over-expressed cells) demonstrated phenotype D ("prolonged") as the most seen phenotype with total percentage 32.5%,whereas phenotype E ("stringed") as the second most seen phenotype with total percentage 20%.In short,the two most seen phenotypes in group B were phenotypes B and C, with total percentage altogether, 47.5% whereas the two most seen phenotypes in group A were phenotypes D and E with total percentage altogether,52.5%.The most seen cell phenotype shifted from fan like(group B) to elongated (group A) when Tm4 was over expressed in cells.In conclusion,we could say that Tm4 facilitated the growth events of cell elongation to interact with one another,at the same time inhibited phenotypes B and C.

2. What are the changes in phenotypes that you observe between group A and group B in second part of the lab?

Group A

-the diameter of cytoplasm was relatively less as compared to cells in group B.

-elongated processes extensively branched off the cells.

-processes and cytoplasm appeared yellowish

-the cell colony was orientated in network or web like.

Group B

-the diameter of cytoplasm was relatively large as compared to cells in group A.

-relatively short processes branched off the cells.

-processes and cytoplasm appeared reddish.

-the cell colony was orientated in groups.

In conclusion, Tm4 very much involved in giving branching phenotype to the cells to interact with one another by rearranging the cellular cytoskeletons in accordance to specify ability of Tm4.In addition,ass the events of branching going, the diameter of cytoplasm shrunk and decreased.Notably,cytoplasm of cells of group A appeared more yellowish that cells in group B, this might due to tropomyosin 4 was over expressing in the cells.Thus , this group of cells appeared to be brighter.


3. How does Tm4(tropomyosin 4) mediate these changes?

The tropomyosin 4 proteins involve in Tm 4 expression within the cell.Over expression of the gene will flood the cytoplasm with tropomyosin 4, which will then loosen the filamentous structures within the cytoplasm. The filamentous structures no longer be able to maintain the cell shape , consequently, processes branch off in accordance to the ability of Tm4 on the cell.


Lab 9

1.Identify from one of the cell line repositories: a neural cell line and a muscle cell line.

An example of neural cell line supplied by ATCC is , IMR-32 , the neuroblast from the brain.

An example of muscle cell line supplied by ATCC is, L6 ,the myoblast from the skeletal muscle.

2.Identify the species and growth conditions for these cell lines.

The growth conditions for the neuroblast is Eagle's Minimum Essential Medium with temperature, 37.0°C.

The growth conditions for the myoblast is Dulbecco's Modified Eagle's Medium with temperature, 37.0°C. The myoblastic component of this line will be depleted rapidly if the cells are allowed to become confluent.

Peer Assessment

Group 1

  • Introduction:it basically just briefs through the 2 classes of nervous system , and not about the topic which is the synaptic junction. So , it kind of off the topic a little and lacks of intro info for this topic.
  • History: it is alright.
  • What is a tight junction: this is the introduction. This part should be at the top of the page, you guys might want to consider move this part to the introduction, and remove the one currently at the top, as it does not really help with understanding , not to mention the points of it are irrelevant if u think it through .
  • Types of tight junctions: Subheading classification would be more appropriate,just so readers can get started easily.

The text within the diagram key of the first image is too blurry and maybe little as well.

  • Synaptic regulation and modulation: Subheading roles would be more appropriate, the hand drawn image in this part looks blurry and does not show the features clearly.The third image of this part has the same problem as the previous one.
  • Neurotransmitters: A few electron or some other microscopy micrographs would be better.
  • Diseases associated and research: They`re both well done.
  • Glossary: The terms should be in alphabetical order.
  • Overall: there a few typing errors and images are unclear.


Group 2

  • Introduction: It goes too in depth.Details about different groups should go to classification.In this part , you also talk about the details of the molecular constituents of gap junctions , which is kinda off the objective of

introduction.This part should have a brief talk on the roles or importance of gap junctions to organisms ,formation and its location, so that readers can have a broad idea what it is before going further down.

  • History: Too long.
  • Structure and functional roles: They are alright.
  • Location: Details in this part can be put under functional roles, so you wont have 2 duplicated kinda subheadings.
  • Comparing with other junctions: It is a good idea.
  • Disease associated : Details are well organised in disease associated part , and nice images .
  • Research: It is alright .
  • Glossary: It should be in alphabetical order.


Group 4

  • Introduction: Too short and it definitely needs at least a picture.
  • History: A few more images would be better.
  • Structure: Introduction to the structure of desmosomes, you do not need another intro when u already have one at the top. So, this one can be merged with the one at the top.Structures on 2 different levels; good organising.Outer dense plate; you might wanna consider making a brief intro to it , as it kind of so unfamiliar to regular readers.
  • Related diseases and research: They are alright.
  • Overall: the headings are confusing , in particular ,in structural part.


Group 5

  • Introduction: Good introduction , but then a little bit longer would be better.It definitely needs some images.
  • History: Good history, brief and talks mainly on major events.
  • Structural: The text in the second hand drawn image is blurry.
  • Importance and regulation: This part can be put in Function, as they basically talk on how adherens junctions involve in cellular processes.
  • Disease associated and research: They are well done , great effort.
  • Other types of cell junctions: I don’t get what other types of cell junctions have to do with your topic of interest,

but i`m guessing you made it as a comparison.

  • Glossary : It is alright


Group 6

-o wow, awesome screen sized intro image.

-it is so resourceful , details are well presented in an easy understandable way.

-I have no critics for you guys.The page stands out among others ,very great effort and well done !