20.109(F22):Journal article presentation

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20.109(F22): Laboratory Fundamentals of Biological Engineering

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Fall 2022 schedule        FYI        Assignments        Homework        Class data        Communication        Accessibility

       M1: Genomic instability        M2: Drug discovery        M3: Project design       

Overview and logistics

You will complete this assignment individually.

Please review the 20.109 statement on collaboration and integrity as you proceed.

In Module 1, you delivered a Research talk that was focused on your research project. For this assignment, you will present work completed by other scientists that has been peer-reviewed and published. Reading, understanding, and explaining research related to your project are all important skills that will be important as you flex your scientist muscles.

As you prepare your talk be sure to review the resources provided on the Communication tab. In addition, please use the following link to view the full video from Susan McConnell: Designing effective scientific presentations. Lastly, review the Journal club presentation Evaluation rubric (linked here)!

Method of submission

Please submit your completed Journal club slides 1 hr prior to your scheduled laboratory session time to Canvas, with filename Name_LabSection_JC.pptx (for example, ImaStudent_TR_JC.pptx).

Length and format of presentations

You will have 10 minutes to discuss the journal article you select. It may be very difficult, or impossible, to discuss all of the figures within the article adequately in only 10 minutes. Therefore, this assignment is not only to present the work, but also to identify the data that is most important to the conclusions. It is also critical to consider how your presentation 'flows' from one experiment to the next. As when you write your own research, you want to deliver a coherent story during your journal presentation.

Format considerations

The timing provided here is a guideline for a 10-minute presentation. Your presentation may vary depending on the content.

Section Minutes Number of slides DO DON'T
Introduction ~2 2-3
  • Introduce the key concepts that the audience will need to follow your presentation.
  • Briefly state the overall scope and significance of the study -- what is the central question and why is it interesting?
  • Try to summarize background material with a model slide rather than lines of text. If text is needed, bring in the details as you speak using PowerPoint animation.
  • Don't assume you are addressing an expert audience.
  • Don't give more information than is absolutely needed to understand the rest of your talk.
  • Don't put too much information on each slide.
Data ~7 4-6
  • Present the data in a logical sequence, letting each slide build upon the previous ones.
  • Include a title for each slide. The title should be the conclusion and should be unique to the information on the slide.
  • Make every element of your slide visible to the entire room. This means 20-point font or greater.
  • Interpret each slide thoroughly and carefully.
  • Point out strengths and weaknesses of the data along the way.
  • Don't read your talk. Similarly, do not read lists from slides.
  • Don't put much information on each slide. Each slide should make only one point.
  • Never say, "I know you can't read this, but...". Everything on each slide should be legible.
  • Don't be afraid to remind the audience how the data fits into the overall question
Summary ~1 1
  • Review each of your main messages.
  • Clearly state what the study contributed to the field.
  • Don't repeat experimental details.
Question & Answer ? 0
  • Answer the question being asked. If you are unclear about the question, ask for clarification.
  • Respect every question and questioner.
  • Don't take too long with one question. If the discussion is involved, suggest meeting after the talk to discuss it more.

Helpful hints

  • A 10-minute talk is NOT a 30-minute talk given while racing through slides and speaking very quickly.
  • Consider ways to transition from one slide to the next to ensure the information is tied together.
  • Practice your presentation in front of people rather than in a room by yourself and practice several times!
  • Familiarize yourself with using a laser pointer and/or slide changer if you will use one during the actual presentation.
  • If you do choose to use a pointer, use it to direct attention to specific elements on the screen, rather than constantly gesturing in the general vicinity of your slide; otherwise, the audience will not know what's important. When you later make your own slides and figures, the apparent need for a pointer may actually mean you need to make a clearer slide.

Article selection

You may choose to select a journal article from those provided by the teaching faculty or you can select an article that is related to your Module 2 research from any peer-reviewed journal.

  • If you choose an article from below, please "reserve" it by putting your (initials/lab section/team color) next to the listing here.
    • For visibility, please use the following format to sign up if possible, substituting in your own initials and team color: <font color = purple><b>[IS/WF/Purple]</b></font color>, which will look like [IS/WF/Purple]. Thanks!
  • If you would like to discuss a paper not on the list below, please email it (as .pdf) to the teaching faculty (Noreen, Leslie, and Becky) with a brief description of the work.
    • The list of papers below is provided as a guideline for the types of papers that might be relevant for your presentation. You are not limited to the primary research articles on this list. The list is provided simply to give you an idea of the kinds of subjects that could make suitable presentations for the class. Feel free to search PubMed yourself to find articles of interest to you.

Please review the articles before making your final selection to ensure it is a paper that you find interesting and that you are comfortable presenting!

Biology of P. falciparum

  1. Abshire, J., et. al. " Quantification of labile heme in live malaria parasites using a genetically encoded biosensor." (2017) PNAS. E2068-E2076.[SS/WF/Green]
  2. Carrique, L., et. al. "Structure and catalytic regulation of Plasmodium falciparum IMP specific nucleotidase." (2020) Nat Commun. 11:3228.
  3. Garten, M., et. al. "EXP2 is a nutrient-permeable channel in the vacuolar membrane of Plasmodium and is essential for protein export via PTEX." (2018) Nat Microbiol. 3:1090-1098.
  4. Green, J., et. al. "Ubiquitin activation is esential for schizont maturation in Plasmodium falciparum blood-stage development." (2020) PLoS Pathog 16:e1008640.
  5. Hitz, E., et. al. "PfMAP-2 is essential for male gametogenesis in the malaria parasite Plasmodium falciparum." (2020) Sci Rep. 10:11930.
  6. Jain, R., et. al. "Molecular dynamics simulation and biochemical characterization of Pf14-3-3 and PfCDPK1 interaction towards its role in growth of human malaria parasite." (2020) Biochem J. 477:2153-2177. [BG/TR/Pink]
  7. Liu, H., et. al. "Actin-related protein Arp4 regulates euchromatic gene expression and development through H2A.Z deposition in blood-stage Plasmodium falciparum." (2020) Parasites Vectors. 13:314.
  8. Llora-Batlle, O., et. al. "Conditional expression of PfAP2-G for controlled massive sexual conversion in Plasmodium falciparum." (2020) Sci Adv. 6:eaaz5057.[MH/WF/Blue]
  9. Siddiqui, A., et. al. "Rab7 of Plasmodium falciparum is involved in its retromer complex assembly near the digestive vacuole." (2020) Biochem Biophys Acta Gen Subj. 1864:129656.
  10. Walszak, M., et. al. "ATG8 is essential specifically for an autophagy-independent function in apicoplast biogenesis in blood-stage malaria parasites." (2018) mBio. 9:e02021-17.

Druggable targets and drug discovery

  1. Cheviet, T., et. al. " β-Hydroxy- and β-aminophosphonate acyclonucleosides as potent inhibitors of Plasmodium falciparum growth." (2020) J Med Chem. Online ahead of print.
  2. Colon-Lorenzo, E., et. al. "Structure-based screening of Plasmodium berghei glutathione S-transferase identified CB-27 as a novel antiplasmodial compound." (2020) Front Pharm. 11:246.
  3. Harmsen, C., et. al. "Immunization with virus-like particles conjugated to CIDRα1 domain of Plasmodium facliparum erythrocyte membrane protein 1 induces inhibitory antibodies." (2020) Malaria J. 19:132. [EF/TR/Green] [AE/WF/Yellow]
  4. Istvan, E., et. al. "Plasmodium Niemann-Pick type C1-related protein is a druggable target reguired for parasite membrane homeostasis." (2019) eLife. 8:e40529. [UH/TR/Purple] [NO/WF/Blue]
  5. Jain, R., et. al. "Development of novel anti-malarial from structurally diverse library of molecules, targeting plant-like CDPK1, a multistage growth regulator of P. falciparum. (2020) Biochem J. 477:1951-1970. [DL/WF/Pink]
  6. LaMonte, G., et. al. "Pan-active imidazolopiperazine antimalarials target the Plasmodium falciparum intracellular secretory pathway." (2020) Nat Commun. 11:1780.
  7. Nasamu, A., et. al. "Plasmepsins IX and X are essential and druggable mediators of malaria parasite egress adn invasion." (2017) Science. 358:518-522. [AL/TR/Green]
  8. Polino, A., et. al. "Assessment of biological role and insight into druggability of the Plasmodium falciparum protease plasmepsin V." (2020) ACS Infect Dis. 6:738-746.
  9. Sternberg, A., and Paul Roepe. "Heterologous expression, purification, and functional analysis of the Plasmodium falciparum phosphatidylinositol 4-kinase IIIβ." (2020) Biochem. 59:2494-2506.[GY/WF/Green]
  10. Vanaerschot, M., et. al. " Inhibition of resistance-refractory P. falciparum kinase PKG delivers prophylactic, blood stage, and transmission-blocking antiplasmodial activity." (2020) Cell Chem Biol. 27:806-816. [CM/WF/Yellow]

Epidemiology of malaria

  1. Chaves, L., et. al. "Global consumption and international trade in deforestation-associated commodities could influence malaria risk." (2020) Nat Commun. 11:1258. [IW/TR/Pink]
  2. Hancock, P., et. al. "Mapping trends in insecticide resistance phenotypes in African malaria vectors." (2020) PLoS Biol. 18:e3000633. [KC/TR/Purple]
  3. Ibrahim, A., et. al. "Selective whole genome amplification of Plasmodium malariae DNA from clinical samples reveals insights into population structure. (2020) Sci Rep. 10:10832.
  4. Kigozi, S., et. al. "Rapid shifts in the age-specific burden of malaria following successful control interventions in four regions of Uganda." (2020) Malaria J. 19:128. [JZ/WF/Pink] [CB/TR/Yellow]
  5. Lemma, Wossenseged. " Impact of high malaria incidence in seasonal migrant and permanent adult male laborers in mechanized agricultural farms in Metema - Humera lowlands on malaria elimination program in Ethiopia." (2020) BMC Pub Health. 20:320.
  6. Maraka, M., et. al. "A seven-year surveillance of epidemiology of malaria reveals travel and gender are the key drivers of dispersion of drug resistant genotypes in Kenya." (2020) Peer J. 8:e8082.
  7. Obeng-Adjei, N., et. al. "Longitudinal analysis of naturally acquired PfEMP1 CIDR domain variant antibodies identified associations with malaria protection." (2020) JCI Insight. 5:e137262. [AD/TR/Blue]
  8. Verity, R., et. al. "The impact of antimalarial resistance on the genetic structure of Plasmodium falciparum in the DRC." (2020) Nat Commun. 11:2107. [SA/TR/Blue]