Santiago Castillo Ramírez

Genómica Evolutiva Investigador
Unidad de Análisis Bioinformáticos Investigador

Inv. Tit. B T.C. Definitivo

Semblanza

Santiago es licenciado en Biología (mención honorífica) por la Universidad de Guadalajara, maestro y doctor en Ciencias Bioquímicas por la UNAM. En su doctorado el trabajó filogenómica de bacterias y realizó un par de estancias de investigación en el laboratorio del Profesor Scott V. Edwards (Universidad de Harvard). En 2009 ganó la Medalla Alfonso Caso al graduado más distinguido del Programa de Doctorado en Ciencias Bioquímicas UNAM. Santiago hizo dos estancias posdoctorales con el Profesor Edward J Feil (Universidad de Bath) en Inglaterra. Durante ese tiempo, el utilizó datos genómicos para estudiar la micro evolución y filogeografía de diversos patógenos bacterianos.

Santiago ha sido pionero en la genómica poblacional y evolutiva de patógenos bacterianos en el país. El estudia la distribución de poblaciones bacterianas a lo largo del tiempo y el espacio, y los mecanismos que generan variación genómica en el patógeno nosocomial Acinetobacter baumannii. Sus proyectos están financiados por CONACyT-SEP Ciencia Básica y UNAM-PAPIIT. A la fecha ha publicado 72 artículos; algunos en prestigiosas revistas como Emerging Infectious Diseases, Genome Biology, mBio, o The Lancet Microbe. Actualmente, Santiago es Investigador Titular B definitivo (PRIDE D) y forma parte del Sistema Nacional de Investigadores (nivel 2). Sus trabajos han recibido más de 2830 citas y cuenta con un índice H de 29 y un índice i10 de 49.

Santiago es editor asociado de las revistas Microbial Genomics y Plos Neglected Tropical Diseases. También es miembro del comité editorial de Applied Environmental Microbiology, Antimicrobial Agents and Chemotheraphy y Journal of Clinical Microbiology; las tres revistas son parte de la American Society for Microbiology. Además, ha fungido como revisor para más de 35 revistas internacionales, algunas de ellas reconocidas revistas en las áreas de genómica (Genome Research, PNAS), microbiología (Microbiome, mBio), evolución (Molecular Biology and Evolution) y enfermedades infecciosas (Lancet Infectious Diseases, Clinical Infectious Diseases). Adicionalmente, ha evaluado proyectos en las convocatorias de Ciencia Básica del Consejo Nacional de Ciencia y Tecnología, y del Programa de Apoyo a Proyectos de Investigación e Innovación Tecnológica UNAM (en México); pero también en el extranjero para el NSERC Discovery grants (Canadá), John R. Evans Leaders Fund 2021 (Canada Foundation for Innovation), y el Medical Research Council Fellowships scheme (Reino Unido). El ha supervisado dos posdocs, graduado dos estudiantes de doctorado, uno de maestría, y tres de licenciatura. Actualmente, el dirige dos estudiantes de doctorado y supervisa un posdoc.

Además, Santiago ha sido el editor leader de un par de número especiales en las revistas Environmental Microbiology y Frontiers in Microbioogy:

Número especial sobre “One Health & Antimicrobial Drug Resistance”
https://sfamjournals.onlinelibrary.wiley.com/toc/14622920/2021/23/12

Número especial sobre “Genomic Basis of Antibiotic Resistance and Virulence in Acinetobacter”
https://www.frontiersin.org/research-topics/12244/

Santiago ha impartido más de 30 conferencias en México y el extranjero (Reino Unido, USA, Canadá, Portugal, Francia y España). En el 2023 fue conferencista del VII Congreso de Bioquímica y Biología Molecular de Bacterias de la Sociedad Mexicana de Bioquímica. En el 2022 co-organizó SMBE Everywhere GS5: Evoutionary Genomics of Host-Pathogen Interaction and Antimicrobial Drug Resistance” para la Society of Molecular Biology and Evolution.

Santiago colabora con varios investigadores en el extranjero. Con Ben Evans (University of East Anglia, Reino Unido) estamos analizando la genómica poblacional de diversas clonas de A. baumannii. En colaboración con Ayush Kumar (University of Manitoba) estudiamos poblaciones no humanas de A. baumannii y otras especies del género Acinetobacter. Mientras que con Andrés Opazo y Gerardo Rocha (Universidad de Concepción, Chile), estamos llevando a cabo un análisis de epidemiológica genómica de un linaje de Pseudomonas aeruginosa en Chile.

Ligas

ResearchGate
Google Scholar
Thomson Reuters ResearcherID
OrcID
Scopus

Publicaciones selectas

1: Castillo-Ramírez S. Genomic epidemiology of Acinetobacter baumannii goes global. mBio. 2023 Nov 1;14(6):e0252023. doi: 10.1128/mbio.02520-23. PMID: 37909743; PMCID: PMC10746248.

2: Castillo-Ramírez S. Zoonotic Acinetobacter baumannii: the need for genomic epidemiology in a One Health context. Lancet Microbe. 2022 Dec;3(12):e895-e896. doi: 10.1016/S2666-5247(22)00255-5.

3: Mateo-Estrada V, et al, Castillo-Ramírez S. Accessory Genomic Epidemiology of Cocirculating Acinetobacter baumannii Clones. mSystems. 2021 Aug 31;6(4):e0062621. doi: 10.1128/mSystems.00626-21.

4: Hernández-González IL, Castillo-Ramírez S. Antibiotic-resistant Acinetobacter baumannii is a One Health problem. The Lancet Microbe. Volume 1, Issue 7, November 2020. doi:https://doi.org/10.1016/S2666-5247(20)30167-1.

5: Castillo-Ramírez S, Graña-Miraglia L. Inaccurate Multilocus Sequence Typing of Acinetobacter baumannii. Emerg Infect Dis. 2019 Jan;25(1):186-187. doi: 10.3201/eid2501.180374.
 

Teléfono: (777) 3133881
Correo: [email protected]

 
 

Publicaciones

AñoPublicaciónPMID
2024Castillo-Ramírez S. (2024). "On the road to genomically defining bacterial intra-species units.". mSystems. 9(7):-. [doi:10.1128/msystems.00584-24]38940600
2024Sykes, E.M.E., Mateo-Estrada, V., Engelberg, R., Muzaleva, A., Zhanel, G., Dettman, J., Chapados, J., Gerdis, S., Akineden, Ö., Khan, I.U.H., Castillo-Ramírez, S., Kumar, A.. (2024). "Phylogenomic and phenotypic analyses highlight the diversity of antibiotic resistance and virulence in both human and non-human Acinetobacter baumannii .". mSphere. 9(3):-. [doi:10.1128/msphere.00741-23]38440986
2024Aguilar-Vera, A., Bello-López, E., Pantoja-Nuñez, G.I., Rodríguez-López, G.M., Morales-Erasto, V., Castillo-Ramírez, S.. (2024). "Acinetobacter junii : an emerging One Health pathogen.". mSphere. 9(5):-. [doi:10.1128/msphere.00162-24]38606973
2023Mendez-Cruz, Carlos-Francisco, Joel Rodríguez-Herrera, Alfredo Varela-Vega, Valeria Mateo-Estrada, Castillo Ramírez, Santiago. (2023). "Unsupervised Learning and Natural Language Processing Point Out Bias in Research Trends of a Superbug". Social Science Research Network. ():-. [doi:10.2139/ssrn.4503262]
2023Castillo-Ramírez S. (2023). "Genomic epidemiology of Acinetobacter baumannii goes global.". Mbio. 14(6):-. [doi:10.1128/mbio.02520-23]37909743
2023Castillo-Ramírez, S.. (2023). "The importance of Acinetobacter baumannii from non-human sources.". LANCET MICROBE. 4(10):761-762. [doi:10.1016/S2666-5247(23)00246-X]37625430
2023Moreno-Manjón, J., Castillo-Ramírez, S., Jolley, K.A., Maiden, M.C.J., Gayosso-Vázquez, C., Fernández-Vázquez, J.L., Mateo-Estrada, V., Giono-Cerezo, S., Alcántar-Curiel, M.D.. (2023). "Acinetobacter baumannii IC2 and IC5 Isolates with Co-Existing bla OXA-143-like and bla OXA-72 and Exhibiting Strong Biofilm Formation in a Mexican Hospital.". Microorganisms. 11(9):-. [doi:10.3390/microorganisms11092316]37764160
2023Mateo-Estrada, V., Tyrrell, C., Evans, B.A., Aguiiar-Vera, A., Drissner, D., Castillo-Ramirez, S., Walsh, F.. (2023). "Acinetobacter baumannii from grass: novel but non-resistant clones.". Microbial genomics. 9(7):-. [doi:10.1099/mgen.0.001054]37439781
2023Sykes EME, Mateo-Estrada V, Zhanel G, Dettman J, Chapados J, Gerdis S, Akineden Ö, Khan IIU, Castillo-Ramírez S, Kumar A. (2023). "Emergence of ADC-5 Cephalosporinase in environmental Acinetobacter baumannii from a German tank milk with a novel Sequence Type.". Access Microbiology. 5(6):-. [doi:10.1099/acmi.0.000485.v3]37424542
2023Nodari, C.S., Opazo-Capurro, A., Castillo-Ramirez, S., Mattioni Marchetti, V.. (2023). "Editorial: Mobile genetic elements as dissemination drivers of multidrug-resistant Gram-negative bacteria.". FRONTIERS IN CELLULAR AND INFECTION MICROBIOLOGY. 13():-. [doi:10.3389/fcimb.2023.1180510]37009500
2023Fernández-Vázquez, J.L., Hernández-González, I.L., Castillo-Ramírez, S., Jarillo-Quijada, M.D., Gayosso-Vázquez, C., Mateo-Estrada, V.E., Morfín-Otero, R., Rodríguez-Noriega, E., Santos-Preciado, J.I., Alcántar-Curiel, M.D.. (2023). "Pandrug-resistant Acinetobacter baumannii from different clones and regions in Mexico have a similar plasmid carrying the bla OXA-72 gene.". FRONTIERS IN CELLULAR AND INFECTION MICROBIOLOGY. 13():-. [doi:10.3389/fcimb.2023.1278819]38192399
2023Karah, N., Mateo-Estrada, V., Castillo-Ramírez, S., Higgins, P.G., Havenga, B., Khan, W., Domingues, S., Da Silva, G.J., Poirel, L., Nordmann, P., Ambrosi, C., Ma, C., McClean, S., Quiroga, M.P., Alvarez, V.E., Centron, D., Zarrilli, R., Kenyon, J.J., Russo, T.A., Evans, B.A., Opazo-Capurro, A., Rafei, R., Hamze, M., Daoud, Z., Ahmad, I., Rather, P.N., Hall, R.M., Wilharm, G., Uhlin, B.E.. (2023). "The Acinetobacter baumannii website (Ab-web): a multidisciplinary knowledge hub, communication platform, and workspace.". Fems Microbes. 4():-. [doi:10.1093/femsmc/xtad009]37333444
2022Castillo-Ramirez, Santiago. (2022). "Beyond microbial core genomic epidemiology: towards pan genomic epidemiology". LANCET MICROBE. 3(4):244-245. [doi:10.1016/S2666-5247(22)00058-1]35544058
2022Hernández-González, I.L., Mateo-Estrada, V., Castillo-Ramirez, S.. (2022). "The promiscuous and highly mobile resistome of Acinetobacter baumannii .". Microbial genomics. 8(1):-. [doi:10.1099/mgen.0.000762]35075990
2022Mateo-Estrada, Valeria, Vali, Leila, Hamouda, Ahmed, Evans, Benjamin A., Castillo-Ramirez, Santiago. (2022). "Acinetobacter baumannii Sampled from Cattle and Pigs Represent Novel Clones.". Microbiology spectrum. 10(4):-. [doi:10.1128/spectrum.01289-22]35766493
2022Castillo-Ramírez, S.. (2022). "Zoonotic Acinetobacter baumannii: the need for genomic epidemiology in a One Health context.". LANCET MICROBE. 3(12):895-896. [doi:10.1016/S2666-5247(22)00255-5]36150399
2022Lopez-Leal, Gamaliel, Carolina Camelo-Valera, Laura, Manuel Hurtado-Ramirez, Juan, Verleyen, Jerome, Castillo-Ramirez, Santiago, Reyes-Munoz, Alejandro. (2022). "Mining of Thousands of Prokaryotic Genomes Reveals High Abundance of Prophages with a Strictly Narrow Host Range.". mSystems. 7(4):-. [doi:10.1128/msystems.00326-22]35880895
2021Castillo-Ramírez, S., Ghaly, T., Gillings, M.. (2021). "Non-clinical settings - the understudied facet of antimicrobial drug resistance.". Environmental Microbiology. 23(12):7271-7274. [doi:10.1111/1462-2920.15841]34773441
2021de Luna-Valdez, L., Chenge-Espinosa, M., Hernández-Muñoz, A., Cordoba, E., López-Leal, G., Castillo-Ramírez, S., León, P.. (2021). "Reassessing the evolution of the 1-deoxy-D-xylulose 5-phosphate synthase family suggests a possible novel function for the DXS class 3 proteins.". Plant Science. 310():-. [doi:10.1016/j.plantsci.2021.110960]34315585
2021Mateo-Estrada, V., Fernández-Vázquez, J.L., Moreno-Manjón, J., Hernández-González, I.L., Rodríguez-Noriega, E., Morfín-Otero, R., Alcántar-Curiel, M.D., Castillo-Ramírez, S.. (2021). "Accessory Genomic Epidemiology of Cocirculating Acinetobacter baumannii Clones.". mSystems. 6(4):-. [doi:10.1128/mSystems.00626-21]34282943
2021Norte, A.C., Boyer, P.H., Castillo-Ramirez, S., Chvostác, M., Brahami, M.O., Rollins, R.E., Woudenberg, T., Didyk, Y.M., Derdakova, M., Núncio, M.S., de Carvalho, I.L., Margos, G., Fingerle, V.. (2021). "The Population Structure of Borrelia lusitaniae Is Reflected by a Population Division of Its Ixodes Vector.". Microorganisms. 9(5):-. [doi:10.3390/microorganisms9050933]33925391
2021López-Leal, G., Reyes-Muñoz, A., Santamaria, R.I., Cevallos, M.A., Pérez-Monter, C., Castillo-Ramírez, S.. (2021). "A novel vieuvirus from multidrug-resistant Acinetobacter baumannii.". ARCHIVES OF VIROLOGY. 166(5):1401-1408. [doi:10.1007/s00705-021-05010-4]33635432
2021Evans, B.A., Kumar, A., Castillo-Ramírez, S.. (2021). "Editorial: Genomic Basis of Antibiotic Resistance and Virulence in Acinetobacter .". Frontiers in Microbiology. 12():-. [doi:10.3389/fmicb.2021.670975]33859632
2020Salgado-Camargo, A.D., Castro-Jaimes, S., Gutierrez-Rios, R.M., Lozano, L.F., Altamirano-Pacheco, L., Silva-Sanchez, J., Pérez-Oseguera, Á., Volkow, P., Castillo-Ramírez, S., Cevallos, M.A.. (2020). "Structure and Evolution of Acinetobacter baumannii Plasmids". Frontiers in Microbiology. 11():-. [doi:10.3389/fmicb.2020.01283]32625185
2020Graña-Miraglia, L., Evans, B.A., López-Jácome, L.E., Hernández-Durán, M., Colín-Castro, C.A., Volkow-Fernández, P., Cevallos, M.A., Franco-Cendejas, R., Castillo-Ramírez, S.. (2020). "Origin of OXA-23 variant OXA-239 from a recently emerged lineage of Acinetobacter baumannii international clone V". mSphere. 5(1):-. [doi:10.1128/mSphere.0801-19]31915222
2020Margos, G., Castillo-Ramirez, S., Cutler, S., Dessau, R.B., Eikeland, R., Estrada-Peña, A., Gofton, A., Graña-Miraglia, L., Hunfeld, K.P., Krause, A., Lienhard, R., Lindgren, P.E., Oskam, C., Rudolf, I., Schwartz, I., Sing, A., Stevenson, B., Wormser, G.P., Fingerle, V.. (2020). "Rejection of the name Borreliella and all proposed species comb. nov. placed therein". International Journal Of Systematic And Evolutionary Microbiology. 70(5):3577-3581. [doi:10.1099/ijsem.0.004149]32320380
2020Castro-Jaimes, S., Bello-López, E., Velázquez-Acosta, C., Volkow-Fernández, P., Lozano-Zarain, P., Castillo-Ramírez, S., Cevallos, M.A.. (2020). "Chromosome Architecture and Gene Content of the Emergent Pathogen Acinetobacter haemolyticus .". Frontiers in Microbiology. 11():-. [doi:10.3389/fmicb.2020.00926]32670207
2020Singh, Manu, De Silva, P. Malaka, Al-Saadi, Yasser, Switala, Jacek, Loewen, Peter C., Hausner, Georg, Chen, Wangxue, Hernandez, Ismael, Castillo-Ramirez, Santiago, Kumar, Ayush. (2020). "Characterization of extremely drug-resistant and hypervirulent Acinetobacter baumannii ab030". ANTIBIOTICS-BASEL. 9(6):1-16. [doi:10.3390/antibiotics9060328]32560407
2020Mayoral-Terán, C., Flores-Moreno, K., Cevallos, M.A., Volkow-Fernández, P., Castillo-Ramírez, S., Graña-Miraglia, L., López-Vidal, Y.. (2020). "High Phenotypic and Genotypic Diversity of Enterococcus faecium from Clinical and Commensal Isolates in Third Level Hospital.". MICROBIAL DRUG RESISTANCE. 26(3):227-237. [doi:10.1089/mdr.2019.0039]31545121
2020Castillo-Ramírez, S., Mateo-Estrada, V., Gonzalez-Rocha, G., Opazo-Capurro, A.. (2020). "Phylogeographical Analyses and Antibiotic Resistance Genes of Acinetobacter johnsonii Highlight Its Clinical Relevance". mSphere. 5(4):-. [doi:10.1128/mSphere.00581-20]32611704
2020López-Leal, G., Santamaria, R.I., Cevallos, M.Á., Gonzalez, V., Castillo-Ramírez, S.. (2020). "Letter to the Editor: Prophages Encode Antibiotic Resistance Genes in Acinetobacter baumannii .". MICROBIAL DRUG RESISTANCE. 26(10):1275-1277. [doi:10.1089/mdr.2019.0362]32109174
2020Hernández-González, I.L., Castillo-Ramírez, S.. (2020). "Antibiotic-resistant Acinetobacter baumannii is a One Health problem". LANCET MICROBE. 1(7):279-279. [doi:10.1016/S2666-5247(20)30167-1]35544213
2020Graña-Miraglia, L., Sikutova, S., Vancová, M., Bílý, T., Fingerle, V., Sing, A., Castillo-Ramírez, S., Margos, G., Rudolf, I.. (2020). "Spirochetes isolated from arthropods constitute a novel genus Entomospira genus novum within the order Spirochaetales". SCIENTIFIC REPORTS. 10(1):-. [doi:10.1038/s41598-020-74033-9]33051478
2020De la Rosa, C., Lozano, L., Castillo-Ramírez, S., Covarrubias, A.A., Reyes, J.L.. (2020). "Origin and Evolutionary Dynamics of the miR2119 and ADH1 Regulatory Module in Legumes.". Genome Biology And Evolution. 12(12):2355-2369. [doi:10.1093/gbe/evaa205]33045056
2020Cornejo-Juárez, P., Cevallos, M.A., Castro-Jaimes, S., Castillo-Ramìrez, S., Velázquez-Acosta, C., Martìnez-Oliva, D., Pérez-Oseguera, A., Rivera-Buendìa, F., Volkow-Fernández, P.. (2020). "High mortality in an outbreak of multidrug resistant Acinetobacter baumannii infection introduced to an oncological hospital by a patient transferred from a general hospital.". Plos One. 15(7):-. [doi:10.1371/journal.pone.0234684]32702006
2019Mateo-Estrada, Valeria, Grana-Miraglia, Lucia, Lopez-Leal, Gamaliel, Castillo-Ramirez, Santiago. (2019). "Phylogenomics Reveals Clear Cases of Misclassification and Genus-Wide Phylogenetic Markers for Acinetobacter.". Genome Biology And Evolution. 11(9):2531-2541. [doi:10.1093/gbe/evz178]31406982
2019Lopez-Leal, Gamaliel, Cesar Zuniga-Moya, Julio, Castro-Jaimes, Semiramis, Grana-Miraglia, Lucia, Perez-Oseguera, Angeles, Sarahi Reyes-Garcia, Hilda, David Gough-Coto, Simmons, Pavon-Madrid, Rene, Aurora Bejarano, Suyapa, Ferrera, Annabelle, Castillo-Ramirez, Santiago, Cevallos, Miguel A.. (2019). "Unexplored Genetic Diversity of Multidrug- and Extremely Drug-Resistant Acinetobacter baumannii Isolates from Tertiary Hospitals in Honduras". MICROBIAL DRUG RESISTANCE. 25(5):690-695. [doi:10.1089/mdr.2018.0311]30614762
2018Frisch MB, Castillo-Ramirez S, Petit RA 3rd, Farley MM, Ray SM, Albrecht VS, Limbago BM, Hernandez J, See I, Satola SW, Read TD. (2018). "Invasive methicillin-resistant Staphylococcus aureus USA500 strains from the U.S. Emerging Infections Program constitute three geographically distinct lineages". mSphere. 3(3):-. [doi:10.1128/mSphere.00571-17]29720528
2018Graña-Miraglia, L., Arreguín-Pérez, C., López-Leal, G., Muñoz, A., Pérez-Oseguera, A., Miranda-Miranda, E., Cossío-Bayúgar, R., Castillo-Ramírez, S.. (2018). "Phylogenomics picks out the par excellence markers for species phylogeny in the genus Staphylococcus". Peerj. 2018(10):-. [doi:10.7717/peerj.5839]30386709
2018Challagundla, Lavanya, Reyes, Jinnethe, Rafiqullah, Iftekhar, Sordelli, Daniel O., Echaniz-Aviles, Gabriela, Velazquez-Meza, Maria E., Castillo-Ramirez, Santiago, Fittipaldi, Nahuel, Feldgarden, Michael, Chapman, Sinead B., Calderwood, Michael S., Carvajal, Lina P., Rincon, Sandra, Hanson, Blake, Planet, Paul J., Arias, Cesar A., Diaz, Lorena, Robinson, D. Ashley. (2018). "Phylogenomic classification and the evolution of Clonal complex 5 methicillin-resistant Staphylococcus aureus in the Western Hemisphere". Frontiers in Microbiology. 9():-. [doi:10.3389/fmicb.2018.01901]30186248
2017Graña-Miraglia L, Lozano LF, Velázquez C, Volkow-Fernández P, Pérez-Oseguera Á, Cevallos MA, Castillo-Ramírez S. (2017). "Rapid gene turnover as a significant source of genetic variation in a recently seeded population of a healthcare-associated pathogen". Frontiers in Microbiology. 8(SEP):1817-1817. [doi:10.3389/fmicb.2017.01817]28979253
2017Pérez-Oseguera Á, Castro-Jaimes S, Salgado-Camargo AD, Silva-Sanchez J, Garza-González E, Castillo-Ramírez S, Cevallos MÁ. (2017). "Complete genome sequence of a blaOXA-58-producing Acinetobacter baumannii strain isolated from a Mexican hospital". Microbiology Resource Announcements. 5(36):-. [doi:10.1128/genomeA.00949-17]28883144
2017Angel Vences-Guzman, Miguel, Goetting-Minesky, M. Paula, Guan, Ziqiang, Castillo-Ramirez, Santiago, America Cordoba-Castro, Luz, Lopez-Lara, Isabel M., Geiger, Otto, Sohlenkamp, Christian, Fenno, J. Christopher. (2017). "1,2-Diacylglycerol choline phosphotransferase catalyzes the final step in the unique Treponema denticola phosphatidylcholine biosynthesis pathway". Molecular Microbiology. 103(5):896-912. [doi:10.1111/mmi.13596]28009086
2016Castro-Jaimes S., Salgado-Camargo A.D., Gra�a-Miraglia L., Lozano L., Bocanegra-Ibarias P., Volkow-Fern�ndez P., Silva-Sanchez J., Castillo-Ram�rez S., Cevallos M.A.. (2016). "Complete genome sequence of a multidrug-resistant Acinetobacter baumannii isolate obtained from a Mexican hospital (sequence type 422)". Microbiology Resource Announcements. 4(3):-. [doi:10.1128/genomeA.00583-16]27340065
2016Graña-Miraglia L., Lozano L., Castro-Jaimes S., Cevallos M.A., Volkow P., Castillo-Ramírez S.. (2016). "First genome sequence of a mexican multidrug-resistant Acinetobacter baumannii isolate". Microbiology Resource Announcements. 4(2):-. [doi:10.1128/genomeA.00156-16]27013043
2016López-Leal G, Cevallos MA, Castillo-Ramírez S. (2016). "Evolution of a sigma factor: An All-In-One of Gene Duplication, Horizontal Gene Transfer, Purifying Selection, and Promoter Differentiation". Frontiers in Microbiology. 7(APR):581-581. [doi:10.3389/fmicb.2016.00581]27199915
2016Castillo-Ramirez, S., Fingerle, V., Jungnick, S., Straubinger, R. K., Krebs, S., Blum, H., Meinel, D. M., Hofmann, H., Guertler, P., Sing, A., Margos, G.. (2016). "Trans-Atlantic exchanges have shaped the population structure of the Lyme disease agent Borrelia burgdorferi sensu stricto". SCIENTIFIC REPORTS. 6():22794-22794. [doi:10.1038/srep22794]26955886
2016Bolanos, Luis M., Rosenblueth, Monica, Castillo-Ramirez, Santiago, Figuier-Huttin, Gilles, Martinez-Romero, Esperanza. (2016). "Species-specific diversity of novel bacterial lineages and differential abundance of predicted pathways for toxic compound degradation in scorpion gut microbiota". Environmental Microbiology. 18(5):1364-1378. [doi:10.1111/1462-2920.12939]26058415
2016Aanensen, David M., Feil, Edward J., Holden, Matthew T. G., Dordel, Janina, Yeats, Corin A., Fedosejev, Artemij, Goater, Richard, Castillo-Ramirez, Santiago, Corander, Jukka, Colijn, Caroline, Chlebowicz, Monika A., Schouls, Leo, Heck, Max, Pluister, Gerlinde, Ruimy, Raymond, Kahlmeter, Gunnar, Ahman, Jenny, Matuschek, Erika, Friedrich, Alexander W., Parkhill, Julian, Bentley, Stephen D., Spratt, Brian G., Grundmann, Hajo, ESCMID Study Grp Mol Epidemiologic, European Staphylococcal Ref Lab Wo. (2016). "Whole-genome sequencing for routine pathogen surveillance in public health: A population snapshot of invasive Staphylococcus aureus in Europe". Mbio. 7(3):-. [doi:10.1128/mBio.00444-16]27150362
2016Becker, Noemie S., Margos, Gabriele, Blum, Helmut, Krebs, Stefan, Graf, Alexander, Lane, Robert S., Castillo-Ramirez, Santiago, Sing, Andreas, Fingerle, Volker. (2016). "Recurrent evolution of host and vector association in bacteria of the Borrelia burgdorferi sensu lato species complex". Bmc Genomics. 17(1):734-734. [doi:10.1186/s12864-016-3016-4]27632983
2016Joseph, Sandeep J., Cox, Daniel, Wolff, Bernard, Morrison, Shatavia S., Kozak-Muiznieks, Natalia A., Frace, Michael, Didelot, Xavier, Castillo-Ramirez, Santiago, Winchell, Jonas, Read, Timothy D., Dean, Deborah. (2016). "Dynamics of genome change among Legionella species". SCIENTIFIC REPORTS. 6():33442-33442. [doi:10.1038/srep33442]27633769
2015Joseph, S.J., Marti, H., Didelot, X., Castillo-Ramirez, S., Read, T.D., Dean, D.. (2015). "Chlamydiaceae genomics reveals interspecies admixture and the recent evolution of Chlamydia Abortus infecting lower mammalian species and humans". Genome Biology And Evolution. 7(11):3070-3084. [doi:10.1093/gbe/evv201]26507799
2015Ezewudo, Matthew N., Joseph, Sandeep J., Castillo-Ramirez, Santiago, Dean, Deborah, del Rio, Carlos, Didelot, Xavier, Dillon, Jo-Anne, Selden, Richard F., Shafer, William M., Turingan, Rosemary S., Unemo, Magnus, Read, Timothy D.. (2015). "Population structure of Neisseria Gonorrhoeae based on whole genome data and its relationship with antibiotic resistance". Peerj. 2015(3):-. [doi:10.7717/peerj.806]25780762
2014Lopez-Leal, Gamaliel, Luisa Tabche, Maria, Castillo-Ramirez, Santiago, Mendoza-Vargas, Alfredo, Ramirez-Romero, Miguel A., Davila, Guillermo. (2014). "RNA-Seq analysis of the multipartite genome of Rhizobium etli CE3 shows different replicon contributions under heat and saline shock". Bmc Genomics. 15(1):770-770. [doi:10.1186/1471-2164-15-770]25201548
2014Castillo-Ramirez, S., Feil, E.J.. (2014). "Towards a Synthesis of Population Genomics and Epidemiology: Next-Generation Sequencing of Bacterial Pathogens". Molecular Medical Microbiology: Second Edition. 1-3():337-345. [doi:10.1016/B978-0-12-397169-2.00018-4]
2013Castillo-Ramírez, S., Feil, E.J.. (2013). "Population genetics". The Prokaryotes: Prokaryotic Biology And Symbiotic Associations. ():255-266. [doi:10.1007/978-3-642-30194-0_83]
2011Guerra-Crespo, M., Perez-Monter, C., Janga, S.C., Castillo, S., Gutierrez-Ríos, R.M., Joseph-Bravo, P., Perez-Martinez, L., Charli, J.L.. (2011). "Transcriptional profiling of fetal hypothalamic TRH neurons". Bmc Genomics. 12():222-222. [doi:10.1186/1471-2164-12-222]21569245
2010Castillo-Ramírez, S., L. Liu, D. Pearl, S. V. Edwards. (2010). "Bayesian estimation of species trees: a practical guide to optimal sampling and analysis.". Estimating Species Trees: Practical and Theoretical Aspects. ():15-33.
2009Castillo-Ramirez, Santiago, Vazquez-Castellanos, Jorge F., Gonzalez, Victor, Cevallos, Miguel A.. (2009). "Horizontal gene transfer and diverse functional constrains within a common replication-partitioning system in Alphaproteobacteria: The repABC operon". Bmc Genomics. 10():536-536. [doi:10.1186/1471-2164-10-536]19919719
2009Martinez-Salazar, Jaime M., Sandoval-Calderon, Mario, Guo, Xianwu, Castillo-Ramirez, Santiago, Reyes, Alma, Loza, Maria G., Rivera, Javier, Alvarado-Affantranger, Xochitl, Sanchez, Federico, Gonzalez, Victor, Davila, Guillermo, Ramirez-Romero, Miguel A.. (2009). "The Rhizobium etli RpoH1 and RpoH2 sigma factors are involved in different stress responses". MICROBIOLOGY-SGM. 155(2):386-397. [doi:10.1099/mic.0.021428-0]19202087
2008Castillo-Ramirez, Santiago, Gonzalez, Victor. (2008). "Factors affecting the concordance between orthologous gene trees and species tree in bacteria". Bmc Evolutionary Biology. 8(1):300-300. [doi:10.1186/1471-2148-8-300]18973688
2008Crossman, Lisa C., Castillo-Ramirez, Santiago, McAnnula, Craig, Lozano, Luis, Vernikos, Georgios S., Acosta, Jose L., Ghazoui, Zara F., Hernandez-Gonzalez, Ismael, Meakin, Georgina, Walker, Alan W., Hynes, Michael F., Young, J. Peter W., Downie, J. Allan, Romero, David, Johnston, Andrew W. B., Davila, Guillermo, Parkhill, Julian, Gonzalez, Victor. (2008). "A common genomic framework for a diverse assembly of plasmids in the symbiotic nitrogen fixing bacteria". Plos One. 3(7):-. [doi:10.1371/journal.pone.0002567]18596979
2008González Zúñiga, Víctor Manuel, Luis Lozano, Santiago Castillo-Ramírez, Hernández González, Ismael Luis, Bustos Arcos, Virginia Patricia, Santamaria Gutiérrez, Rosa Isela, Fernandez Vázquez, José Luis, Centro de Ciencias Genómicas CCG, Dávila Ramos, José Guillermo. (2008). "Evolutionary Genomics of the Nitrogen Fixing Symbiotic Bacteria". Molecular Mechanisms of Plant-Microbe Coexistance Soil Biology Series. 15(0):183-198.
2007Guo, Xianwu, Castillo-Ramirez, Santiago, Gonzalez, Victor, Bustos, Patricia, Fernandez-Vazquez, Jose Luis, Santamaria, Rosa Isela, Arellano, Jesus, Cevallos, Miguel A., Davila, Guillermo. (2007). "Rapid evolutionary change of common bean (Phaseolus vulgaris L) plastome, and the genomic diversification of legume chloroplasts". Bmc Genomics. 8():228-228. [doi:10.1186/1471-2164-8-228]17623083
2006González, V., Santamaría, R.I., Bustos, P., Acosta, J.L., Fernández, J.L., Hernández-González, I., Lozano, L., Castillo, S., Dávila, G.. (2006). "Genomic diversity of Rhizobium etli: The Complete Genome and its -intraspecific-variation". Revista Latinoamericana De Microbiologia. 48(2):132-134.