Select publications
Cyriaque V, Ibarra-Chávez R, Kuchina A, Seelig G, Nesme J, Madsen JS. Single-cell RNA sequencing reveals plasmid constrains bacterial population heterogeneity and identifies a non-conjugating subpopulation. Nat Commun. 2024 Jul 12;15(1):5853. doi: 10.1038/s41467-024-49793-x. PMID: 38997267; PMCID: PMC11245611.
Gaisser KD*, Skloss SN*, Brettner LM, Paleologu L, Roco CM, Rosenberg AB, Hirano M, DePaolo RW, Seelig G, Kuchina A. High-throughput single-cell transcriptomics of bacteria using combinatorial barcoding. Nat Protoc. 2024 Jun 17. doi: 10.1038/s41596-024-01007-w. Epub ahead of print. PMID: 38886529.
Kuchina A*, Brettner LM*, Paleologu L, Roco CM, Rosenberg AB, Carignano A, Kibler R, Hirano M, DePaolo RW, Seelig G. Microbial single-cell RNA sequencing by split-pool barcoding. Science 17 Dec 2020: 10.1126/science.aba5257
Rosenberg AB*, Roco CM*, Muscat RA, Kuchina A, Sample P, Yao Z, Graybuck LT, Peeler DJ, Mukherjee S, Chen W, Pun SH, Sellers DL, Tasic B, Seelig G. Single-cell profiling of the developing mouse brain and spinal cord with split-pool barcoding. Science 2018 Apr 13;360(6385):176-182. doi: 10.1126/science.aam8999. Epub 2018 Mar 15.
Cuperus JT*, Groves B*, Kuchina A*, Rosenberg AB*, Jojic N, Fields S, Seelig G. Deep learning of the regulatory grammar of yeast 5′ untranslated regions from 500,000 random sequences. Genome Res. 2017 Dec;27(12):2015-2024. doi: 10.1101/gr.224964.117
Narula J*, Kuchina A*, Zhang F, Fujita M, Süel GM, Igoshin OA. Slowdown of growth controls cellular differentiation. Mol Syst Biol.12(5):871. doi: 10.15252/msb.20156691.
Narula J*, Kuchina A*, Lee DY, Fujita M, Süel GM, Igoshin OA. Chromosomal arrangement of phosphorelay genes couples sporulation and DNA replication. Cell.162(2):328-37. doi: 10.1016/j.cell.2015.06.012.
Kuchina A, Espinar L, Çağatay T, Balbin AO, Zhang F, Alvarado A, Garcia-Ojalvo J, Süel GM. Temporal competition between differentiation programs determines cell fate choice. Mol Syst Biol 7(557) doi:10.1038/msb.2011.88.
Kuchina A*, Espinar L*, Garcia-Ojalvo J, Süel GM. Reversible and noisy progression towards a commitment point enables adaptable and reliable cellular decision-making. PLoS Comput Biol 7(11): e1002273. doi:10.1371/journal.pcbi.1002273
