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Lab Attendance

--Shan Ruan 10:42, 10 March 2011 (EST)

--Shan Ruan 09:48, 17 March 2011 (EST)

--Shan Ruan 09:21, 24 March 2011 (EST)

--Shan Ruan 09:45, 31 March 2011 (EST)

--Shan Ruan 09:21, 7 April 2011 (EST)

--Shan Ruan 09:13, 21 April 2011 (EST)

--Shan Ruan 09:39, 5 May 2011 (EST)

--Shan Ruan 09:38, 12 May 2011 (EST)

Dr. Mark Hill, I was here for the lab on 19th May but I forgot to sign in, you could check my activity on my project page during that time for proof.

--Shan Ruan 09:47, 26 May 2011 (EST)

--Shan Ruan 09:22, 2 June 2011 (EST)

Individual Assessments

LAB 1

1. What are the key cell biology journals?

Cell

The journal of cell biology

BMC cell biology

Nature Cell Biology

Trends in cell biology

2. Which journals allow reuse of their published content?

BMC Cell Biology

Journals published by Public Library of Science (PLoS)

  • PLoS ONE
  • PLoS Mecicine
  • PLoS Biology

The Journal of Cell Biology


LAB 2

1. Which chromosomes contribute to the nucleolus?

chromosomes 13, 14, 15, 21 and 22


--Mark Hill 07:59, 24 March 2011 (EST) Thank you for your suggested topics for the group assignment. The second question you need to answer was "2. Identify and add a link to your page of a recent cell biology article using confocal microscopy."

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

MKS and NPHP modules cooperate to establish basal body/transition zone membrane associations and ciliary gate function during ciliogenesis

Topics of Interest for Group Assignment

The mechanisms of cell apoptosis

The cell cycle

Cell signaling

Facilitated diffusion and membrane channels

Cell culture and media


LAB 3

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

Inhalation: Acts as a relatively potent anesthetic. Irritates respiratory tract and causes central nervous system effects, including headache, drowsiness, dizziness. Exposure to higher concentrations may result in unconsciousness and even death. May cause liver injury and blood disorders. 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. Large quantities may cause symptoms similar to inhalation.

Skin Contact: Causes skin irritation resulting in redness and pain. Removes natural oils. 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. Contact with liquid has defatting effect and may cause chronic irritation of skin with cracking and drying, and corresponding dermatitis. Chloroform is a suspected human carcinogen.

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. + mice.png

Terminal Schwann cells in transplanted adult muscle are derived from the host.[1]

A. Low magnification view of a wild-type MG muscle transplanted 2 months earlier into a transgenic mouse that expresses EGFP (green) under the direction of the S100 promoter. Endplate ACHRs are stained with α−Btx (red). This panel illustrates the general finding that all endplate staining colocalized with EGFP. B. EGFP fluorescence was absent at motor endplates in an MG muscle from an EGFP-expressing transgenic transplanted into a wild-type host (B1) but the same endplates stained positively for S100 (green, B2), demonstrating that terminal Schwann cells were derived from the host. C. To exclude the possible survival of wild-type TSCs after transplantation of wild-type muscle into the ECFP transgenic (C1), muscle sections were first labeled for S100 (C2) but all labeling was found to colocalize with EGFP fluorescence (C3) providing further evidence that wild-type TSCs did not survive transplantation.

Copyright: © 2010 Carrasco et al. This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.


LAB 4

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

Anti-acetylcholine receptor antibodies in Myasthenia gravis. Name of antibody: PYK2 [PY881] Supplier: Invitrogen Australia Pty Limited

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

Cytochrome C is a small heme protein located on the outer surface of the inner mitochondrial membrane. They are trapped inside the mitochondria by the outer membrane of mitochondria. The gene that encode Cytochrome C is located in chromosome 7; MapLocation: 7p15.3


LAB 9

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

Source: Cell line repository - American Type Culture Collection (ATCC)

Neural cell - Cortical Neuron HCN-1A (CRL-10442)

Muscle cell - Muscle Myoblast C2C12 (CRL-1772)

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

Cortical Neuron - Homo sapiens (human)

Growth conditions:

- Growth media: ATCC-formulated Dulbecco's Modified Eagle's Medium (DMEM). Fetal bovine serum to a final concentration of 10% must be added to DMEM to make the complete growth medium.

- Temperature: 37.0°C

- Growth Conditions: The growth medium must be adjusted to pH 7.35 prior to filtration.

Muscle Myoblast - Mus musculus (mouse)

Growth conditions:

- Growth media: ATCC-formulated Dulbecco's Modified Eagle's Medium (DMEM). Fetal bovine serum to a final concentration of 10% must be added to DMEM to make the complete growth medium.

- Temperature: 37.0°C

Project review

Group 1-Synaptic Junction

  • Intro – Add ganglia to glossary? May be a labelled diagram showing the general anatomy of neuron, axon, ganglion, synaptic junction etc would be more illustrative and saves words.
  • History – has there been any discoveries after 1981?
  • What is a synaptic junction-Good use of diagrams and descriptions are clear and concise.
  • Types of synaptic junctions – Great summary at the end put into a table. How they function may be better illustrated by a video.
  • Synaptic Integration and Modulation – Brief description of what synaptic integration and modulation are at the beginning of the section may be helpful in providing the context to later contents. I assume that the content under subtitle “The action potential and summation” describes synaptic integration? “IPSPs or EPSPs” shouldn’t be abbreviated the first time they appear though I can see the full name in Glossary section.
  • Neurotransmitters – this section is greatly done! I like the combination of brief paragraphs, use of table and picture
  • Diseases Associated with Synaptic Junctions Dysfunctions – Medical jargons such as “substantia nigra”, ”lewy bodies” might be difficult for non-medical readers to understand. Add to the glossary in the end or links to external website may be helpful. Overall I think this section is too medical, it’ll be a great section for a med assignment but for cell biology I think there’s a bit too much information.
  • Current and Future Research and Developments – One or two more studies would be great; otherwise this section is well written and presented.

Group 2-Gap Junction

  • Intro – very good introduction as it gives an overview of different type of junctions. The description of the composition and different types of gap junctions is very clear in this section. Good choice of pictures, very easy to interprete.
  • History – this section is very thoroughly done, great work!
  • Structure – Description is logical and easy to follow, however more detailed information regarding connexins and what they are made of may be desirable.
  • Functional role of gap junctions – How does the different types of connexin affect their function and specialization? At the end of the section you mendtioned that it’s due to the different types and properties of connexins and their expressions, would a more detailed decription on that be good?
  • Location – Good descriptions. More pictures on specific strctures (eg intercalated disks instead of a pic of whole heart) would be good.
  • Comparison – don’t think this table of comparison is really necessary.
  • The last two sections are very well written. Glossary part should be expanded by including more words such as oligodendricytes, cochlea etc.

Group 3-Tight Junction

  • The page content is very well structured and descriptions are very logical and accessible. Good use of pictures.
  • Disease – the introduction to this section is well written. However, for the table, specific mechanisms involving tight junction in the disease process relating to a few diseases would be better than a rather long list of diseases.
  • Addition of current and future researches may be necessary.
  • Glossary can be expanded by adding terms such as anastomosing etc

Group 4-Desmosome

  • Intro – needs more general description of desmosomes, its structure and function as well as a line or two on introducing the following content.
  • History – very extensive and no huge gaps in between.
  • Structure – The intro in this part could be simplified and maybe moved to the introduction section?
  • Function – addition of dot points might help to simplify the information and make it easy to read.
  • Related Diseases – one or two more diseases in this section would be good. Brief prevalence and treatment for each disease would be desirable.
  • Glossary – needs expansion by including words like haploinsufficiency etc.
  • Current research – more studies may be added.

Group 5-Adherens Junctions

  • Intro – A picture of adherens junction would be appealing and more illustrative.
  • History – is there more discoveries in between the time periods?
  • Structure and Function – Format some of the information into dot points may be helpful to condense down the key information. Addition of figures in the Function section or videos may be more illustrative. Also subheadings could make the both sections easier to read.
  • Importance and Regulation – subheadings.
  • Abnormalities in Disease – I like the layout of this section. But how does the underlying cellular pathogenesis of UC and CC lead to the clinical manifestation of these two diseases?
  • Current Research – this section is very good.
  • Other types of Cell Junctions – is this section necessary?
  • Glossary – There’s no definition of homophilic binding

Work Area

Shan

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Change internal link's name

J of Cell Biology Homepage

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

PubMed

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

PubMed

Identification and functional analysis of NOL7 nuclear and nucleolar localization signals.

Zhou G, Doçi CL, Lingen MW.

BMC Cell Biol. 2010 Sep 27;11:74.

PMID:20875127

Guolin Zhou, Colleen L Doçi, Mark W Lingen Identification and functional analysis of NOL7 nuclear and nucleolar localization signals. BMC Cell Biol.: 2010, 11;74 PubMed 20875127


This is a sample reference. [2]

reference list

  1. Dario I Carrasco, Edyta K Bichler, Kevin L Seburn, Martin J Pinter Nerve terminal degeneration is independent of muscle fiber genotype in SOD1 mice. PLoS ONE: 2010, 5(3);e9802 PubMed 20339550
  2. Guolin Zhou, Colleen L Doçi, Mark W Lingen Identification and functional analysis of NOL7 nuclear and nucleolar localization signals. BMC Cell Biol.: 2010, 11;74 PubMed 20875127