• May 5th, 2015

Diet Rapidly and Reproducibly alters the human gut Microbiome

Paper, Order, or Assignment Requirements



Please write a 3 page essay (single) on the research paper provided. The essay should address the questions in the second file I provided. Also, please follow the instructions in this file. PLEASE IGNORE THE IPS CELL PAPER AND GENOME SEQUENCE PAPER.
THE RESEARCH IS ON ABOUT NATURE PAPER ABOUT “Diet rapidly and reproducibly alters the human gut microbiome”

Please make sure that the technical details of the paper are conserved in this paper (explaining techniques/figures) in the paper. The technical details are important and what actually matters. This is a PhD paper.


Instructions for your Commentary on the Final Paper



You are being provided with seven research papers relevant to the class.


Please choose ONE and address the following points in an essay that is no longer than 3single-spaced typed pages, with a one inch margin, and a font size no smaller than

Times 12.


  1. What is the central question(s) guiding the study and what is the overall aim(s)?


  1. Why is this study important? That is, provide a brief background that highlights

where the field was before the study and why the questions addressed are important to

achieve the next level of understanding in the field.


  1. Describe the basic findings/conclusions in the paper and mention one basic

technique that was central to achieving each finding.


  1. Are the results credible and accurately reproduced? Do flaws exist in the

experimental design? Are the results credible?


  1. How have the findings advanced the field?


  1. What are the unsolved questions and hence important future directions?


List of Papers for Final Project


David, L. A. et al. Diet rapidly and reproducibly alters the human gut microbiome. Nature505, 559–563 (2014).


Xue, Y. et al. Mountain gorilla genomes reveal the impact of long-term population decline and inbreeding. Science348, 242–245 (2015).


Gao, Z., Waggoner, D., Stephens, M., Ober, C. &Przeworski, M.An estimate of the average number of recessive lethal mutations carried by humans.Genetics199, 1243–1254 (2015).

Keller, A., et. al. New insights into the Tyrolean Iceman’s origin and phenotype as inferred by whole-genome sequencing. Nature Communications3, 109 (2012)

Fu, Q, et al. Genome sequence of a 45,000-year-old modern human from western Siberia. Nature514, 445-450 (2014) ­­­

Wang, T., Wei, J. J., Sabatini, D. M., Lander, E. S. Genetic screens in human cells using the CRISPR-Cas9 system.Science343, 80-84 (2014).

Hanna, J. et al. Treatment of sickle cell anemia mouse model with iPS Cells generated from Autologous skin. Science318, 1920-1923.


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