Publications

Genome-resolved metagenomics reveals a phylogenetically cohesive Acetilactobacillus-like species complex dominating stingless bee pot honey. Xolalpa-Aroche, A., Contreras-Peruyero, H., Delgado-Suárez, E.J., Hernández-Mena, D.I., Moguel-Chin, W.I., Rivero-Cruz, J.F., Velarde, R.A., Ortiz-Vázquez, E., Rivero-Cruz, B.E., Lovaco Flores, J.A., Rodríguez Orduña, L., Licona Cassani, C., Barona-Gómez, F., and Sélem-Mojica, N. ISME Communications, 2026;, ycag063, https://doi.org/10.1093/ismeco/ycag063.

MicroAgroBiome: A toolkit for exploring specialized metabolism and ecological interactions in rhizosphere microbiomes of cultivated crops. Aguilar, C., Fontove-Herrera, F., Pashkov, A., García-Estrada, D.A., Contreras-Peruyero, H., Guerrero-Flores, S., Ramírez-Sánchez, O., Sélem-Mojica. Nucleic Acids Research, Volume 54, Issue D1, 6 January 2026, Pages D1743–D1752, https://doi.org/10.1093/nar/gkaf1083

Fractal dimensions of complex networks: advocating for a topological approach. Andreeva, R., Contreras-Peruyero, H., Krishnagopal, S., Otter, N., Pascali, M.A. and Thompson, E. Accepted May 2025. To apper at the AWM-IMA Springer volume “Research in Computational Topology”. https://arxiv.org/abs/2506.15236

Linear bounds for the lengths of geodesics on manifolds with curvature bounded below. Beach, I., Contreras-Peruyero, H., Rotman, R., and Searle, C. (2025). The Journal of Geometric Analysis, 35(8), 1-22. https://doi.org/10.1007/s12220-025-02003-6. arXiv.

Topological data analysis captures Horizontal Gene Transfer in Antimicrobial Resistance gene families among clinically relevant bacteria. Guerrero-Flores, S., Contreras-Peruyero, H., Ibarra-Rodríguez, J. M., Lovaco-Flores, J. A., Nieto-de la Rosa, F. S., Fontove-Herrera, F., and Sélem-Mojica, Front. Microbiol. 16:1461293. https://doi.org/10.3389/fmicb.2025.1461293

Asymptotic dimension and geometric decompositions in dimensions 3 and 4 Conteras Peruyero, H. and Suárez-Serrato, P. Journal of the Australian Mathematical Society, Published online 2025:1-26. https://doi.org/10.1017/S1446788725000072, arXiv

CAMDA 2023: Finding patterns in urban microbiomes Contreras-Peruyero H, Nuñez I, Vazquez-Rosas-Landa M, Santana-Quinteros D, Pashkov A, Carranza-Barragán ME, Perez-Estrada R, Guerrero-Flores S, Balanzario E, Muñiz Sánchez V, Nakamura M, Ramírez-Ramírez LL and Sélem-Mojica N. Front. Genet. (2024) 15:1449461. https://doi.org/10.3389/fgene.2024.1449461

Meeting the challenge of genomic analysis: a collaboratively developed workshop for pangenomics and topological data analysis H. Contreras Peruyero, S. Guerrero-Flores, C. Zirión-Martínez, P. M. Mejía-Ponce, Marisol Navarro-Miranda, J. Abel Lovaco-Flores, J.M. Ibarra-Rodríguez, A. Pashkov, C. Licona-Cassani and N. Sélem-Mojica. Bioinformatics Advances (2024), Volume 4, Issue 1, 2024, vbae139, https://doi.org/10.1093/bioadv/vbae139.

Physicochemical Properties of Two Mexican Stingless Bee Honeys to Strengthen Their Biocultural Value A. Xolalpa-Aroche, D. Hernández-Mena, W. Moguel-Chin, H. Contreras Peruyero, J. F. Rivero-Cruz, B. E. Rivero-Cruz, E. Ortiz-Vázquez, E. Delgado-Suárez. Rev. Bras. Farmacogn. (2024). https://doi.org/10.1007/s43450-024-00566-z

Actinomycetota bioprospecting from ore-forming environmentsC. Aguilar, A. Alwali, M. Mair, L. Rodriguez-Orduña, H. Contreras-Peruyero, R. Modi, N. Sélem-Mojica, C. Licona-Cassani, E. Parkinson. Microbial Genomics Vol 10 Issue 5. May 2024.

Collapsing and group growth as obstructions to Einstein metrics on some smooth 4-manifolds, with Pablo Suárez-Serrato, New York Journal of Mathematics 28 (2022), 659–671.