A Multiscale Model of Collective Decision-Making in Hybrid Aspen Tree Tissues Describes Bud-Dormancy Break Dromiack, H., Khanapurkar, S., Phillips, R., de Souza Moraes, T., Davis, G., Pandey, S., Aryal, B., Nair, A., Bassel, G., Bayer, E. E., ... biorxiv.org/content/10.648…

Scalable probe-based single-cell transcriptional profiling for virtual cell perturbation mapping and synthetic biology phenotyping Swinderman, J. T., Tung, P.-Y., Winters, A., Goudy, L., Wilson, C. M., Bounds, L. R., Teyssier, N., Agrawal, A., ... biorxiv.org/content/10.648…

Using a GPT-5-driven autonomous lab to optimize the cost and titer of cell-free protein synthesis Smith, A. A., Wong, E. L., Donovan, R. C., Chapman, B. A., Harry, R., Tirandazi, P., Kanigowska, P., Gendreau, E. A., Dahl, R. H., Jastrzebski, M., ... biorxiv.org/content/10.648…

Engineering auronidin production in Marchantia polymorpha enables a new class of plant-derived textile pigments Lormet, A., Haseloff, J., Romani, F. biorxiv.org/content/10.648…

AI-driven discovery and engineering of human endogenous nanocage proteins for mRNA delivery Xun, D., Li, L., Liu, Y., Yang, Z., Zou, J., Liang, Q., Li, K., Zhu, Z., Zhang, J., Lang, L., Liu, K., Wang, X., Tian, M., Chen, G., An, B., Heng, P.-A., Zhong, C. biorxiv.org/content/10.648…

Outpacing E. coli: Development of Vibrio natriegens as a Next-Generation Cloning Host Wei, E., Louie, M., Dessimoz, E., Orona, C., Smith, N., Holste, N., Slind, M., Nguyen, H., Anandhan, S., Kallivalappil, S. T., Weinstock, M. T. biorxiv.org/content/10.648…

Programmable RNA detection generates DNA barcodes for multiplexed phage-host interaction screening Han, J., Shipman, S. biorxiv.org/content/10.648…

Spatial pattern formation as a consequence of Protease Competition Chakraborty, P., Dey, S., Kundu, R., Banerjee, M., Ghosh, S. biorxiv.org/content/10.648…

EnzFinder: a sustainable alternative to chemical synthesis Jain, A., Pandey, N., Roy, A. biorxiv.org/content/10.648…

A toolkit for programmable transcriptional engineering across eukaryotic kingdoms Ornelas, I. J., Owens, L. A., Alamos, S., Hummel, N. F., Hernandez Zamora, M. G., Phan, N. T., Pattali, R. K., Shih, P. M., Nunez, J. K. biorxiv.org/content/10.648…

Artificial Recombination of Nonribosomal Peptide Synthetases Rapidly Evolves Natural Products Zhong, L., Wang, X., Shi, X., Bai, X., Liu, Y., Chen, H., Seenivasan, B., Ji, X., Yang, Q., Li, S., Mueller, R., Tu, Q., Zhang, Y.-M., Bian, X. biorxiv.org/content/10.648…

A Scalable Design for Proximity-Inducing Molecules Karaj, E., Venkatarangan, V., Sindi, S. H., Siriwongsup, S., Lee, C., Pergu, R., Vedagopuram, S., Kailass, K., Tran, K., Singh, P., Singh, S., Kawai, J., Fung, J. E., Tefera, M., Dhaliwal, R., ... biorxiv.org/content/10.648…

High avidity phase-separated RNA-protein sialogranules sense lectins and inhibit influenza infection Willinger, O., Granik, N., Salomon, T., Goldberg, S., Amit, R. biorxiv.org/content/10.648…

Boosted cell-free gene expression for robust signal readout from a single-copy DNA template in microdroplets Furubayashi, T., Terasaka, N., Tajima, K., Noji, H. biorxiv.org/content/10.648…

Metabolic engineering of Escherichia coli strains for the in vivo synthesis of GP-mediated oligosaccharides Tedesco, P., Durand, J., Tarquis, L., Potocki-Veronese, G., Letisse, F. biorxiv.org/content/10.648…

Efficient cell-free evolution of RNA polymerases by droplet microfluidics Terasaka, N., Furubayashi, T., Tajima, K., Noji, H. biorxiv.org/content/10.648…

Nucleotide-level chemical reaction network modeling enables quantitative prediction of reconstituted cell-free expression system Jurado, Z., Pandey, A., Murray, R. M. biorxiv.org/content/10.648…

Heterologous Rieske non-heme iron monooxygenases enable efficient microbial conversion of lignin guaiacol to adipic acid Steele, J., Wackwitz, C., Walker, G., Selvy, K. T., Wallace, S. biorxiv.org/content/10.648…

Programmable nanobody circuits for cell selection Wang, N. B., Blanch-Asensio, A., Cevasco, H., Ploessl, D. S., Gumustop, D. R., Ehmann, M. E., Castellanos, M. F., Sanchez-Rivera, F. J., O'Shea, T. M., Galloway, K. E. biorxiv.org/content/10.648…

TargetMITO: A rule-based model for generating highly functional synthetic mitochondrial targeting sequence in yeast Gombeau, K., Wan, R., James, J. S., Tribouillard-Tanvier, D., Cai, Y. biorxiv.org/content/10.648…