Bay Paul Publications

Recent Publications

Arkhipova I. R., Burns K. H., Lesage P. (2024). Controlling and controlled elements: highlights of the year in mobile DNA research. Mobile Dna. 15:27. doi: 10.1186/s13100-024-00340-x

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: 10.1093/ismejo/wrae247

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: 10.1002/sim.10261

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: 10.1128/mra.01045-24

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: 10.1093/gerona/glae236

Eren A. M., Delmont T. O. (2024). Bioprospecting marine microbial genomes to improve biotechnology. Nature. 633:287-288. doi: 10.1038/d41586-024-02661-6

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: 10.1073/pnas.2408654121

Matrishin C. B., Haase E. M., Dewhirst F. E., Welch J. L. M., Miranda‑Sanchez F., Chen T., MacFarland D. C., Kauffman K. M. (2024). Correction: Phages are unrecognized players in the ecology of the oral pathogen Porphyromonas gingivalis. Microbiome. 12:144. doi: 10.1186/s40168-024-01880-3

Attenborough T., Rawlinson K. A., Diaz Soria C. L., Ambridge K., Sankaranarayanan G., Graham J., Cotton J. A., Doyle S. R., Rinaldi G., Berriman M. (2024). A single-cell atlas of the miracidium larva of Schistosoma mansoni reveals cell types, developmental pathways, and tissue architecture. Elife. 13. doi: 10.7554/elife.95628.3

Kennedy S. J., Risser D. D., Paul B. G. Diel expression dynamics in filamentous cyanobacteria. doi: 10.1101/2024.09.03.611090

Tucker S. J., Freel K. C., Eren A. M., Rappe M. S. Habitat-specificity in SAR11 is associated with a handful of genes under high selection. doi: 10.1101/2024.12.23.630198

Kananen K., Veseli I., Quiles Pérez C. J., Miller S., Eren A. M., Bradley P. H. Adaptive adjustment of significance thresholds produces large gains in microbial gene annotations and metabolic insights. doi: 10.1101/2024.07.03.601779

Arrington E. C., Tarn J., Kivenson V., Nunn B. L., Liu R. M., Paul B. G., Valentine D. L. Hydrocarbon Metabolism and Petroleum Seepage as Ecological and Evolutionary Drivers for Cycloclasticus. doi: 10.1101/2024.08.08.607087

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: 10.1101/2024.08.14.607915