Publications and Preprints

For the most up-to-date listing, check out my Google Scholar profile.

(Note: I currently publish under JA Lopez and previously published under JG Lopez)

1) Javdan B*, Lopez JG*, Chankhamjon P, Lee YCJ, Hull R, Wu Q, Wang X, Chatterjee S and Donia MS Personalized mapping of drug metabolism by the human gut microbiome. Cell. 2020 Jun 25;181(7):1661-79.

2) Erez A*, Lopez JG*, Weiner BG, Meir Y, Wingreen NS Nutrient levels and trade-offs control diversity in a serial dilution ecosystem. eLife. 2020 Sep 11;9:e57790.

3) Lopez JG, Donia MS, Wingreen NS Modeling the ecology of parasitic plasmids. The ISME Journal. 2021 Apr 8:1-0.

4) Erez A*, Lopez JG*, Meir Y, Wingreen NS Enzyme regulation and mutation in a model serial dilution ecosystem. Physical Review E. 2021 Oct;104(4):044412

5) Lopez JG, Wingreen NS Noisy metabolism can promote microbial cross-feeding. eLife. 2022 Apr 5;11:e70694.

6) Zeng X, Xing X, Gupta M, Keber FC, Lopez JG, Lee YC, Roichman A, Wang L, Neinast MD, Donia MS, Wühr M, Jang C, Rabinowitz JD. Gut bacterial nutrient preferences quantified in vivo. Cell. 2022 Sep 1;185(18):3441-56.

7) Acosta EM, Little KA, Bratton BP, Lopez JG, Mao X, Payne AS, Donia M, Devenport D, Gitai Z. Bacterial DNA on the skin surface overrepresents the viable skin microbiome. Elife. 2023 Jun 30;12:RP87192.

8) Goldman DA, Xue KS, Parrott AB, Jeeda RR, Franzese LR, Lopez JG, Vila JC, Petrov DA, Good BH, Relman DA, Huang KC. Competition for shared resources increases dependence on initial population size during coalescence of gut microbial communities. bioRxiv. 2023 Dec 11.

9) Lopez JG, Hein Y, Erez A. Grow now, pay later: when should a bacterium go into debt?. Proceedings of the National Academy of Sciences. 2024 Apr 16;121(16):e2314900121.

10) Lopez JA, McKeithen-Mead S, Shi H, Nguyen TH, Huang KC, Good BH. Abundance measurements reveal the balance between lysis and lysogeny in the human gut microbiome. bioRxiv. 2024 Sep 27.

* Connotes equal contribution by authors