F23 BIOL 102 PSET 1-revised

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University of California, Berkeley *

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102

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Biology

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Dec 6, 2023

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pdf

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S23 BIOL 102 PSET 1—revised 10/25 Instructions: This homework is due on Monday October 30th @ 11:00 AM . 1. Submit either a Word document or PDF of your assignment. 2. Name your document as “BIOL102.lastname.PSET1.” 3. If your PSET is not submitted as a Word or PDF file or if a blank or corrupt file is submitted, your submission will be considered LATE. It is your responsible to double-check your submission after uploading to ensure that it is the correct version, format, and not distorted. For every hour beyond the deadline, 1% of the total score will be deducted as a late penalty, unless you have a Dean’s Extension. If you experience technical difficulties, you must email your homework no later than 11:05 AM directly to Prof. Benavides. 4. If you collaborate with your classmates, be sure to write your own answers and disclose the name(s) of collaborator(s) next to your name in the homework document. Question 1. (4 points total). All of the images below are of a worm called C. elegans . Identify the type of microscopy ( fluorescence microscopy, transmission electron microscopy, scanning electron microscopy, light microscopy ) that was used to generate each image (A-D). The images provided in A, B and D are of an adult C. elegans . In C, an image is provided of a cross-section taken from a developing C. elegans embryo. In D, DAPI was used to stain the nuclei of the C. elegans. A B C D

S23 BIOL 102 PSET 1—revised 10/25 Question 2. (4 points) Given what you know about the differences between prokaryotic cells and eukaryotic cells, rate the following biological processes as “suitable” or “unsuitable” for study using E. coli as the model organism. Provide a short explanation (one sentence at most) for each answer. 1. formation of the endoplasmic reticulum 2. DNA replication 3. how cells decode their genetic instructions to make proteins 4. how mitochondria get distributed to cells during cell division Question 3. (5 points, 1 point each) Indicate which of the following microscopy approaches is most appropriate for each of the following experiments. There is one best answer for each such that each of the microscopy approaches will be matched only once to a proposed experiment. Experiments: [a] Measuring the rate of protein localization to the plasma membrane in kidney cells in cell culture [b] Determining if a lipase and its substrate both localize to lysosomes [c] Determining the 3D structure of a large (tens of nanometers) protein complex such as the nuclear pore complex or new type of virus [d] Measuring the rate of cell motility towards an attractant [e] Analyzing a patient biopsy stained with chemical dyes for irregular cells Microscopy Approaches At Your Disposal: i. light microscopy with contrast (e.g. phase contrast), ii. light microscopy without contrast (e.g., brightfield), iii. imaging fixed cells stained with fluorescent antibodies, iv. imaging a protein fused to GFP (green fluorescent protein), v. electron microscopy

S23 BIOL 102 PSET 1—revised 10/25 Question 4. (4 points total, 1 point each) Select the experimental procedure (1-5) that will successfully accomplish each below experimental aim (a-d). Each experimental procedure (1-5) can be used multiple times, so identify ALL experimental procedures that would successfully accomplish the below experimental aims. No explanation is required. [a] determine the level of protein between two different fixed or dead cell types [b] determine if the translation of a protein in a live cell changes over time [c] determine the subcellular localization of a protein in a fixed or dead cell [d] the movement of proteins destined to be secreted through the biosynthetic/secretory pathway i. antibodies to detect protein and analyzed by western blot without differential centrifugation ii. differential centrifugation for cellular fractionation, antibodies to detect protein, analyzed by western blot iii. antibodies to detect protein in addition to markers for relevant cellular compartments, analyzed by fluorescence microscopy iv. GFP reporter fused to protein of interest, expressed in cells and analyzed by fluorescence microscopy

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