User:Z5039628

From Embryology
Revision as of 17:34, 17 November 2016 by Z8600021 (talk | contribs) (Lab 11)
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Student Information (expand to read)  
Individual Assessments
Mark Hill.jpg

Please leave this template on top of your student page as I will add your assessment items here.

Beginning your online work - Working Online in this course

  1. Make your own page.
    1. Log-in to the embryology website using your student ID and Zpass.
    2. Click your student number (shown in red at the top right of the screen following log-in)
    3. Create page using the tab at the top of the page, and save.
  2. Add the following to the top of your page exactly as shown - {{ANAT2341Student2016}}
  3. How would you identify your Type in a group and add to your page.
  4. What was the most interesting thing you learnt in the fertilisation lecture?


If you have done the above correctly your ZID should be blue and not red on this page link - ANAT2341 2016 Students.


Here is the example page I made in Lab 1 Student Page. With a few more explanatory notes.

Click here to email Dr Mark Hill

Editing Links: Editing Basics | Images | Tables | Referencing | Journal Searches | Copyright | Font Colours | Virtual Slide Permalink | My Preferences | One Page Wiki Card | Printing | Movies | Language Translation | Student Movies | Using OpenOffice | Internet Browsers | Moodle | Navigation/Contribution | Term Link | Short URLs | 2018 Test Student
Lab 1 Assessment - Researching a Topic
In the lab I showed you how to find the PubMed reference database and search it using a topic word. Lab 1 assessment will be for you to use this to find a research reference on "fertilization" and write a brief summary of the main finding of the paper.
  1. Add a new Sub-heading "Lab 1 Assessment" (without the quotes).
  2. Search the database for a reference on "fertilisation" published in the last 5 years.
    1. It must be a research article not a Review.
    2. The full paper must be available online, not just the abstract.
  3. Add a link to this reference using its PMID using this code <pubmed>XXXXX</pubmed> replacing the Xs with just the PMID number (no text).
  4. Under the reference write a short summary of the papers main findings.
    1. Only 1-2 paragraphs.
    2. Must not be a copy of the paper abstract.
  5. Save and you are done.

PubMed logo.gif

Lab 2 Assessment - Uploading an Image
  1. Upload a research image using the guide information below. The image uploaded for your individual assessment can relate to your project or from fertilisation to week 3 of development (upload only a single image).
  2. Add that image to your own individual page (see Images) including an image title and its reference link.
  3. No two students should upload the same image, check new images before you upload.
  4. No student can delete an image once uploaded, please contact me by email with the image address and I will delete (with no penalty, just glad to help out).


2016 Group Project Topic - Signaling in Development

OK you are now in a group

  1. Go to the blank group page and add a topic that interests you along with your student signature.
  2. No two groups can do the same topic, but at this stage the final topic has not yet been decided (next week).

Initially the topic can be as specific or as broad as you want.


Chicken embryo E-cad and P-cad gastrulation.png

Chicken embryo E-cad and P-cad gastrulation[1]

References

  1. <pubmed>27097030</pubmed>
Lab 4 Assessment - GIT Quiz

ANAT2341 Quiz Example | Category:Quiz | ANAT2341 Student 2015 Quiz Questions |

Design 4 quiz questions based upon gastrointestinal tract. Add the quiz to your own page under Lab 4 assessment and provide a sub-sub-heading on the topic of the quiz.

An example is shown below (open this page in view code or edit mode). Note that it is not just how you ask the question, but also how you explain the correct answer.

Lab 5 Assessment - Course Review
Complete the course review questionnaire and add the fact you have completed to your student page.
Lab 6 Assessment - Cleft Lip and Palate
  1. Identify a known genetic mutation that is associated with cleft lip or palate.
  2. Identify a recent research article on this gene.
  3. How does this mutation affect developmental signalling in normal development.
Lab 7 Assessment - Muscular Dystrophy
  1. What is/are the dystrophin mutation(s)?
  2. What is the function of dystrophin?
  3. What other tissues/organs are affected by this disorder?
  4. What therapies exist for DMD?
  5. What animal models are available for muscular dystrophy?
Lab 8 Assessment - Quiz
A brief quiz was held in the practical class on urogenital development.
Lab 9 Assessment - Peer Assessment
  • This will form part of your individual assessment for the course.
  • Each student should now look at each of the other Group projects in the class.
  • Next prepare a critical assessment (should include both positive and negative issues) of each project using the project group assessment criteria.
  • This assessment should be pasted without signature on the top of the specific project's discussion page. (minimum length 3-5 paragraphs/project)
  • This critical assessment should also be pasted on your own student page.
  • Each student should therefore have 5 separate reports pasted on their own page for this assessment item.
  • Length, quality and accuracy of your reports will be part of the overall mark for this assessment.
    • there will be a greater loading on this than simple question assessments.
Lab 10 Assessment - Stem Cells
As part of the assessment for this course, you will give a 15 minutes journal club presentation in Lab 10. For this you will in your current student group discuss a recent (published after 2011) original research article (not a review!) on stem cell biology or technology.
Lab 10 - Stem Cell Presentations 2016
Group Mark Assessor General Comments

Group 1: 15/20

Group 2: 19/20

Group 3: 20/20

Group 4: 19/20

Group 5: 16/20

Group 6: 16/20

The students put great effort in their presentation and we heard a nice variety of studies in stem cell biology and regenerative medicine today. The interaction after the presentation was great.

As general feedback I would like to advise students to:

  • Never discuss M&M as a separate section in journal clubs. I gave this advice prior to the lab, but still most groups did talk through the M&M section.
  • Do not use your slides as cheat sheets, avoid text on slides, know what messages you need to get across, use images to illustrate these
  • Engage with your slides. Talk through them. Point at panels. Gauge your audience’s understanding by making eye contact with them
  • Avoid using abbreviations. Most people do not readily understand these and will lose track
Lab 11 Assessment - Heart Development
Read the following recent review article on heart repair and from the reference list identify a cited research article and write a brief summary of the paper's main findings. Then describe how the original research result was used in the review article.

<pubmed>26932668</pubmed>Development

ANAT2341Lectures - Textbook chapters  
Lecture (Timetable) Textbook - The Developing Human Textbook - Larsen's Human Embryology
Embryology Introduction Introduction to the Developing Human
Fertilization First Week of Human Development Gametogenesis, Fertilization, and First Week
Week 1 and 2 Second Week of Human Development Second Week: Becoming Bilaminar and Fully Implanting
Week 3 Third Week of Human Development Third Week: Becoming Trilaminar and Establishing Body Axes
Mesoderm Fourth to Eighth Weeks of Human Development Fourth Week: Forming the Embryo
Ectoderm Nervous System Development of the Central Nervous System
Early Vascular Cardiovascular System Development of the Vasculature
Placenta Placenta and Fetal Membranes Development of the Vasculature
Endoderm - GIT Alimentary System Development of the Gastrointestinal Tract
Respiratory Respiratory System Development of the Respiratory System and Body Cavities
Head Pharyngeal Apparatus, Face, and Neck Development of the Pharyngeal Apparatus and Face
Neural Crest Nervous System Development of the Peripheral Nervous System
Musculoskeletal Muscular System Development of the Musculoskeletal System
Limb Development of Limbs Development of the Limbs
Renal Urogenital System Development of the Urinary System
Genital Urogenital System Development of the Urinary System
Stem Cells
Integumentary Integumentary System Development of the Skin and Its Derivatives
Endocrine Covered through various chapters (see also alternate text), read head and neck, neural crest and renal chapters.
Endocrinology Textbook - Chapter Titles  
Nussey S. and Whitehead S. Endocrinology: An Integrated Approach (2001) Oxford: BIOS Scientific Publishers; ISBN-10: 1-85996-252-1.

Full Table of Contents

Heart Cardiovascular System Development of the Heart
Sensory Development of Eyes and Ears Development of the Eyes
Fetal Fetal Period Fetal Development and the Fetus as Patient
Birth and Revision
Additional Textbook Content - The following concepts also form part of the theory material covered throughout the course.
  1. Principles and Mechanisms of Morphogenesis and Dysmorphogenesis
  2. Common Signaling Pathways Used During Development
  3. Human Birth Defect
ANAT2341 Course Timetable  
Week (Mon) Lecture 1 (Mon 1-2pm) Lecture 2 (Tue 3-4pm) Practical (Fri 1-3pm)
Week 2 (1 Aug) Introduction Fertilization Lab 1
Week 3 (8 Aug) Week 1 and 2 Week 3 Lab 2
Week 4 (15 Aug) Mesoderm Ectoderm Lab 3
Week 5 (22 Aug) Early Vascular Placenta Lab 4
Week 6 (29 Aug) Gastrointestinal Respiratory Lab 5
Week 7 (5 Sep) Head Neural Crest Lab 6
Week 8 (12 Sep) Musculoskeletal Limb Development Lab 7
Week 9 (19 Sep) Renal Genital Lab 8
Mid-semester break
Week 10 (3 Oct) Public Holiday Stem Cells Lab 9
Week 11 (10 Oct) Integumentary Endocrine Lab 10
Week 12 (17 Oct) Heart Sensory Lab 11
Week 13 (24 Oct) Fetal Birth and Revision Lab 12

ANAT2341 2016: Moodle page | ECHO360 | Textbooks | Students 2016 | Projects 2016

Assignments

Lab 1

High Serum FSH is Associated with Brown Oocyte Formation and a Lower Pregnacy Rate in Human IVF Parctice

By Hongyi Xu, Kai Deng, Qingbing Luo, Juan Chen, Xin Zhang, Xiaoyan Wang, Honglu Diao, Changjun Zhang

It is been trusted by the research team that the probability of successfully implantation is proportional to the quality of the oocyte that forms embryo, especially in in vitro fertilization since to increase the rate of success. Thus the examination of quality of oocyte is vital for IVF. The quality of embryo could be depended on varied features of the oocyte. However there is no formal and confirmed agreement of the effects of morphological anomalies of oocyte and their potential effects. One of the anomalies, the brown oocyte that show brown or black color in the zona pellucida (ZP) others than the normal oocyte shows pale colors, had been chosen as the independent variable for the research while keeps other features as same conditions. The outcomes, including the physical conditions and hormone level of mother during pregnancy and the rate of fertility, will be compared. The result shows that there is no significant changes about the status of the mother between the normal oocyte and brown oocyte. However it has been found that the high level dosage of FSH serum used in order to accelerate the maturation of the follicle leads to the infertility in certain reasons related to the development of the oocyte.

Mark Hill 18 August 2016 - You have not added the citation correctly, the brief written summary of the article findings is good. I guess I am wondering what a znal pellucid that makes a "Brown Oocyte" actually is?


This is what the citation should look like.

<pubmed>27442586</pubmed>

Assessment 4/5


Referencing

PMID 27442586

Lab2

Photographic examples representing the different scores of blastocysts donated for stem cell derivation.

[1]

Mark Hill 29 August 2016 - All information Reference, Copyright and Student Image template included with the file and referenced on your page here. There are some formatting issues. The file summary box reference subheading should have just <pubmed>21217828</pubmed> to display the reference correctly.

I also asked that the original file name (File:Pone.0015329.g001 z5039628.jpg) be replaced with a more descriptive name, say "scoring of blastocysts donated for stem cell.jpg".

On your page here you need with the figure legend the citation as shown here and FYI, I have added correctly below.

<ref name="PMID21217828"><pubmed>21217828</pubmed></ref>

Assessment 4/5
Photographic examples representing the different scores of blastocysts donated for stem cell derivation.[2]


Lab 3 Assessment

Mark Hill 31 August 2016 - Lab 3 Assessment Quiz - Mesoderm and Ectoderm development.

Question 3 - brain vesicles

Question 4 - brain flexures

Question 5 - maternal diet

Assessment 2.5/5


Lab 4 Assessment

GIT

1

The level of the end of foregut and the begins of midgut is at the level of:

Pharynx
Larynx
Between stomach and duodenum
Between duodenum and jejunum

2

Which of the following statement is WRONG?

The abdominal mesentery separated at birth.
The lumen enlargement of stomach before the positioning of stomach
Rectum and urinary tube had common space at first place then separated.


Placenta

1

Which of the following statement is WRONG ?:

Definition between Primary and Secondary Villi is the presents of mesoderm in the villi
There are limited numbers of villi could be found on the chorion laeve at early stages of the embryo.
The umbilical vein and artery have no any interaction in the whole umbilical cord

2

Which of the following will become part of the placenta?:

Decidua placentalis
Decidua capsularis
Decidua parietalis


Mark Hill 13 October 2016 - There are a few issues with these quiz questions. Question 1 "abdominal mesentery" I don't understand the option or your answer. Question 3 "have no any interaction" is a very confusing term, perhaps "have no physical interaction", needs better definition. Question 4 Decidua placental is a little easy, should have used decidua basalis. Assessment 4/5

Lab 5 Assessment

Z5039628 (talk) 13:33, 9 September 2016 (AEST) Questionnaire completed

Mark Hill 11 October 2016 - Questionnaire on course structure. Assessment 5/5

Lab 6

<pubmed>24590292</pubmed>

Cleft lip is one of the common craniofacial birth defects that the upper lip is failed to fuse. There are many genes are involved of this disease but the pathogenesis of this disease is undergoing researches. The team found that Hhat encodes an acyltransferase that is responsible for modifying hedgehog (HH) proteins through the addition of palmitic acid. Disruption of Hhat diminishes palmitoylation of SHH, which means the production of acyltransferase is decreased and leads the HH protein failed to be modified. On the other hand, this team also found that the mutation of Ptch1 gene causes an enhanced signing of Sonic hedgehog (SHH) and leads cleft lip and palate. The mixing of these two mutation shows normal level of HH signalling but also show the cleft lip and palate.

The team mentioned that during nasal process fusion epithelial cells need to be removed in order to form a mesenchymal bridge which is critical for a rigid connection in the developing lip and primary palate. The individual with mutation of Hhat or Ptch1 gene lack the ability to remove ECAD-positive epithelial cells from the tip of developing processes.

Lab 7

What is/are the dystrophin mutation(s)?

Duchenne muscular dystrophy is the most common muscle disease in new born male because DMD is X-linked recessive disorders that are caused by mutation of the DMD gene located at Xp21 and male only have one X chromosome while another one must be Y chromosome. Due to female have two X chromosome thus this recessive gene has a lower chance to be expressed in female. [3]

The majority of identified mutations of DMD are deletions, about 60%-65% in all cases, follewed by duplications with 5%-15% occurence. The remaining cases may be caused by small mutations such as microdeletions, microinsertions, point mutations, or splicing mutations. [3]

What is the function of dystrophin?

One of the function of dystrophin in the muscle is to protect muscle fibres against the mechanical forces of contraction and stretching, and thus its absence renders muscle fibres susceptible to stretch-induced damage and necrosis, which means the death of muscle cells and lost its functions.[4]

What other tissues/organs are affected by this disorder?

cardiac and respiratory muscle failure lead to hypoxia for most of the body cell [5]


What therapies exist for DMD?

steroid therapy [6] DNA deletion [7]

What animal models are available for muscular dystrophy?

Drosophila melanogaster [5] Mouse [7]

Lab9

These are very brief reviews of the project pages, with a few specific examples. They do not include a balanced critical assessment, given the existing status of some of these pages. 6/10

GP1 peer review

Things are worth to be learnt:

- To do list, clear process that need to be done (but seems only one thing, good beginning.

-Small summary of each article used ( in "WnT-Calcium Ion Pathway" part) .

-Clear point form


Things needed to be improved:

- Do not use real names in the page and should be replaced by Zpass, but you guys showed the work divisions.

- References part is messy, more detail could be found in editing links.

- Add pictures, pictures are easier way to understand the topic.

-Table could be used for "WnT-Calcium Ion Pathway" part.

-Introduction is missing.


Overall, this group had done quite a lot, the three pathways of this signalling, only needs more formatting, also the to do list actually should be in discussion page, but good. Looking forward for the final product.


GP2 peer review

Things are worth to be learnt:

-Formatted reference part.

-Used time line about the history the notch signalling findings.

-Suitable length for each section and informative.


Things needed to be improved:

-Pictures are assists, could be attached more.


Overall group 2 had a good progress of their project, use the history of the notch signalling as part of introduction, clear content. Only needs to fill the gaps in the page and try to add more pictures to help the audience understand the topic, especially for the abnormality of this signalling.


GP4 peer review

This group had found some good animal of their project. Very detailed content in each section but it seems a bit meticulous and even messy, sub-titles should be added to be systematically and clear. Good references formatting. This group have left some area that to be posted such as history, function and glossary, they should be as much as the existed part to be more balanced. We could find the abnormality part under some titles, I think this group group member could add an abnormality part the list out the disease related to this signalling. More picture should be added to help audience to understand the topic, there is the only one in the beginning.

GP3 peer review

Introduction had explained what does this signalling pathway do and importance and page outlining. Followed by history part but seems more would be added. Pictures and table are used to assist explanations. Detailed content but seems need sub-heading or spacing ( formatting). Some gap parts are found. If the abnormality could be linked to the table above would be better. Quiz part is made but needs questions. Some pending glossary are found. Good references formatting.

GP6 peer review

Things are worth to be learnt:

-Good picture used and with explanations, description are found in picture page.


Things needed to be improved:

-Only the introduction and small part of limitation of this signalling pathway could be found

-Messy content and references part


Overall it seems this just is the start of their progress, i think more quantity and formatted references and contents such as history of findings, the sub-division pathways,importance, abnormality, could be found in final submission. In addition, part of the content in the introduction could be moved to other parts.


Lab 10 - Stem Cell Presentations 2016
Group Mark Assessor General Comments

Group 1: 15/20

Group 2: 19/20

Group 3: 20/20

Group 4: 19/20

Group 5: 16/20

Group 6: 16/20

The students put great effort in their presentation and we heard a nice variety of studies in stem cell biology and regenerative medicine today. The interaction after the presentation was great.

As general feedback I would like to advise students to:

  • Never discuss M&M as a separate section in journal clubs. I gave this advice prior to the lab, but still most groups did talk through the M&M section.
  • Do not use your slides as cheat sheets, avoid text on slides, know what messages you need to get across, use images to illustrate these
  • Engage with your slides. Talk through them. Point at panels. Gauge your audience’s understanding by making eye contact with them
  • Avoid using abbreviations. Most people do not readily understand these and will lose track

Lab 11

5/5

Review article: <pubmed>26932668</pubmed>

Research article cited in the review article: <pubmed>20858732 </pubmed>


A brief summary of the research paper's main findings:

The research team found that zebrafish could regenerate the heart from 20% lost of the ventricle. From the observation in an explant culture, the concentration of pdgfrβ, a kind of mural and mesenchymal cell markers, is increased in the regenerating hearts. The team summarized that platelet-derived growth factor (PDGF) signaling is responsible for epicardial cell proliferation. PDGF also tend to loss of cell to cell communication of epicardial cells in explant culture. The inhibition of PDGF signaling caused the sample having impaired in epicardial cell proliferation, expression of mesenchymal and mural cell markers, and coronary blood vessel formation. Without hte expression of mesenchymal and mural cell markers or pdgfrβ, the sample mice shows abnormal clustering of endothelial cells, absence of epicardial-derived smooth muscle cells, and defective coronary artery formation, which determined the important role of PDGF.


Then describe how the original research result was used in the review article:

The review article cited the above research article when introducing the participation of non-muscle cell type in the heart regeneration of injury induced animal models and is listing out the factors required for heart regeneration. The article said that epicardial cell is responsible for cardiac wall formation and the signaling by PDGF could increase the activity of epicardial cell behavior and coronary vessel formation to support the heart regeneration.

TBC

Z5039628 (talk) 23:16, 8 September 2016 (AEST)

PMID 10235264 PMID 18505863 PMID 15066124

https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5025576/

Lab Attendance

Z5039628 (talk) 14:34, 5 August 2016 (AEST)

Z5039628 (talk) 14:49, 12 August 2016 (AEST)

Z5039628 (talk) 13:13, 19 August 2016 (AEST)

Z5039628 (talk) 14:24, 26 August 2016 (AEST)

Z5039628 (talk) 14:11, 2 September 2016 (AEST)

Z5039628 (talk) 14:28, 9 September 2016 (AEST)

Z5039628 (talk) 13:17, 16 September 2016 (AEST)

Z5039628 (talk) 14:17, 7 October 2016 (AEDT)

Z5039628 (talk) 14:31, 14 October 2016 (AEDT)

Z5039628 (talk) 13:28, 21 October 2016 (AEDT)

Z5039628 (talk) 13:23, 28 October 2016 (AEDT)

Demonstrations

  1. Susanne Ström, Kenny Rodriguez-Wallberg, Frida Holm, Rosita Bergström, Linda Eklund, Anne-Marie Strömberg, and Outi Hovatta No Relationship between Embryo Morphology and Successful Derivation of Human Embryonic Stem Cell Lines 2010 Dec 31. doi: 10.1371/journal.pone.0015329
  2. <pubmed>21217828</pubmed>
  3. 3.0 3.1 <pubmed>22379338</pubmed>
  4. <pubmed>26081639</pubmed>
  5. 5.0 5.1 <pubmed>20975992</pubmed>
  6. <pubmed>23352781</pubmed>
  7. 7.0 7.1 <pubmed>16501048 </pubmed>