Bay Paul Publications

Recent Publications

Walter S. R. S., Wood L. J., Yoshimura K. M., Gonski S. F., Cai W.-J., Huber J. A., Trembath-Reichert E., Girguis P. R. (2025). Drivers of inorganic and organic carbon removal in aged oceanic crust. Geochimica Et Cosmochimica Acta. doi:

Sow S. L. S., van de Poll W. H., Eveleth R., Rich J. J., Ducklow H. W., Rozema P. D., Luria C. M., Bolhuis H., Meredith M. P., Amaral-Zettler L. A., Engelmann J. C. (2025). Spatial and temporal variation of Antarctic microbial interactions: a study around the west Antarctic Peninsula. Environmental Microbiome. 20:21. doi:

Hernandez C. M., van Daalen S. F., Liguori A., Neubert M. G., Caswell H., Gribble K. E. (2025). Maternal effect senescence and caloric restriction interact to affect fitness through changes in life history timing. Journal Of Animal Ecology. 94:99-111. doi:

Handa S., Biswas T., Chakraborty J., Ghosh G., Paul B. G., Ghosh P. (2025). RNA control of reverse transcription in a diversity-generating retroelement. Nature. doi:

Hinkle J. E., Chanton J. P., Moynihan M. A., Ruff S. E., Teske A. (2025). Complex bacterial diversity of Guaymas Basin hydrothermal sediments revealed by synthetic long-read sequencing (LoopSeq). Frontiers In Microbiology. 15:1491488. doi:

Thiruppathy M., Teubner L., Roberts R. R., Lasser M., Moscatello A., Chen Y.-W., Hochstim C., Ruffins S., Sarkar A., Tassey J., Evseenko D., Lozito T. P., Willsey H. R., Gillis J. A., Crump J. G. (2025). Repurposing of a gill gene regulatory program for outer ear evolution. Nature. doi:

Zhao Y., Zhou R., Xie B., Liu C. Y., Kalski M., Cham C. M., Jiang Z., Koval J., Weber C. R., Rubin D. T., Sogin M., Crosson S., Chen M., Huang J., Fiebig A., Dalal S., Chang E. B., Basu A., Pott S. (2025). Multiomic analysis reveals cellular, transcriptomic and epigenetic changes in intestinal pouches of ulcerative colitis patients. Nature Communications. 16:904. doi:

Arrington E. C., Tarn J., Kivenson V., Nunn B. L., Liu R. M., Paul B. G., Valentine D. L. (2024). Hydrocarbon metabolism and petroleum seepage as ecological and evolutionary drivers for Cycloclasticus. The Isme Journal: Multidisciplinary Journal Of Microbial Ecology. doi:

Majumder S., Coull B. A., Welch J. L. M., La Riviere P. J., Dewhirst F. E., Starr J. R., Lee K. H. (2024). Multivariate Cluster Point Process to Quantify and Explore Multi‐Entity Configurations: Application to Biofilm Image Data. Statistics In Medicine. 43:5446-5460. doi:

Elkassas S. M., Serres M. H., Navarro M., Patterson A., Zhivkova T., Petersen M., Weeks K., Lang S., Seewald J., Wheat G., Trembath-Reichert E., Huber J. A. (2024). Draft genome sequences of six high pH adapted Marinobacter shengliensis strains isolated from Mariana forearc serpentinite mud volcanoes.. Microbiology Resource Announcements. doi:

Kim J., Buffenstein R., Bronikowski A. M., Vanegas N.-D.P., Rosas L., Agudelo-Garcia P., Mora A. L., Rojas M., Englund D. A., LeBrasseur N. K., Nunes A., Robbins P. D., Kohut M. L., Kothadiya S., Bardhan R., Camell C. D., Sturmlechner I., Goronzy J. J., Yeh C.-Y., Lamming D. W., Huang S., Leiser S. F., Escorcia W., Gill M. S., Taylor J. R., Helfand S. L., Korm S., Gribble K. E., Pehar M., Blaszkiewicz M., Townsend K. L., McGregor E. R., Anderson R. M., Stilgenbauer L., Sadagurski M., Taylor A., McNeill E., Stoeger T., Bai H. (2024). The Fourth Annual Symposium of the Midwest Aging Consortium. The Journals Of Gerontology Series A. 79:glae236. doi:

Eren A. M., Delmont T. O. (2024). Bioprospecting marine microbial genomes to improve biotechnology. Nature. 633:287-288. doi:

Chimileski S., Borisy G. G., Dewhirst F. E., Welch J. L. M. (2024). Tip extension and simultaneous multiple fission in a filamentous bacterium. Proceedings Of The National Academy Of Sciences Of The United States Of America. 121:e2408654121. doi:

Kennedy S. J., Risser D. D., Paul B. G. Diel expression dynamics in filamentous cyanobacteria. doi:

Tucker S. J., Freel K. C., Eren A. M., Rappé M. S. Habitat-specificity in SAR11 is associated with a handful of genes under high selection. doi:

Freel K. C., Tucker S. J., Freel E. B., Giovannoni S. J., Eren A. M., Rappé M. S. New isolate genomes and global marine metagenomes resolve ecologically relevant units of SAR11. doi:

Schechter M. S., Trigodet F., Veseli I. A., Miller S. E., Klein M. L., Sever M., Maignien L., Delmont T. O., Light S. H., Eren A. M. Ribosomal protein phylogeography offers quantitative insights into the efficacy of genome-resolved surveys of microbial communities. doi:

Simon S. A., Soares A. R., Bornemann T. L. V., Lange A., Griesdorn L., Fuentes A., Dieckmann M., Krok B. A., Ruff S. E., Hügler M., Moraru C., Probst A. J. Inferring replication states of bacteria and viruses in enrichment cultures via long-read sequencing. doi: