Evolutionary Genomics Program


# Año Ficha Ligas
1 2016 Castillo-Ramírez, S., Fingerle, V., Jungnick, S., Straubinger, R.K., Krebs, S., Blum, H., Meinel, D.M., Hofmann, H., Guertler, P., Sing, A. and Margos, G. (2016). "Trans-atlantic Exchanges Have Shaped the Population Structure of the Lyme Disease Agent Borrelia burgdorferi Sensu Stricto". Sci Rep. 6   PUBMED: #26955886
2 2016 Tamayo-Legorreta, E., Turrubiartes-Martínez, E., Garza-Ramos, U., Nino-Moreno, P., Barrios, H., Sánchez-Pérez, A., Reyna-Flores, F., Tovar-Oviedo, J., Magana-Aquino, M., Cevallos, M.A. and Silva-Sánchez, J. (2016). "Outbreak Caused By Bla(oxa-72)-producing Acinetobacter Baumannii St417 Detected in Clinical and Environmental Isolates". Microb. Drug Resist.. 22(2):129-133   PUBMED: #26954369
3 2015 Alvarez-Vasquez, F.J., Freyre-González, J.A., Balderas-Martinez, Y.I., Delgado-Carrillo, M.I. and Collado-Vides, J. (2015). "Mathematical Modeling Of the apo and holo Transcriptional Regulation in Escherichia coli". Molecular Biosystems. 11(4):994-1003   PUBMED: #25683745
4 2015 Ezewudo, M.N., Joseph, S.J., Castillo-Ramírez, S., Dean, D., del Rio, C., Didelot, X., Dillon, J.A., Selden, R.F., Shafer, W.M., Turingan, R.S., Unemo, M. and Read, T.D. (2015). "Population Structure Of Neisseria Gonorrhoeae Based On Whole Genome Data and Its Relationship with Antibiotic Resistance". Peerj. 3:-e806   PUBMED: #25780762
5 2015 González-Duarte, R.J., Cazares-Ordonez, V., Romero-Cordoba, S., Ortíz, V., Freyre-González, J.A., Hidalgo-Miranda, A., Larrea, F. and Ávila, E. (2015). "Calcitriol Increases Dicer Expression And Modifies the microRNAs Signature in SiHa Cervical Cancer Cells". Biochemistry and Cell Biology-biochimie et Biologie Cellulaire. 93(4):376-384   PUBMED: #26111345
6 2015 Joseph, S.J., Marti, H., Didelot, X., Castillo-Ramírez, S., Read, T.D. and Dean, D. (2015). "Chlamydiaceae Genomics Reveals Interspecies Admixture and The Recent Evolution Of Chlamydia Abortus Infecting Lower Mammalian Species and Humans". Genome Biol. Evol.. 7(11):3070-3084   PUBMED: #26507799
7 2015 Ormeño-Orrillo, E., Servín-Garcidueñas, L.E., Rogel, M.A., González, V., Peralta, H., Mora, J., Martínez, J. and Martínez-Romero, E. (2015). "Taxonomy of Rhizobia and Agrobacteria from the Rhizobiaceae Family in Light of Genomics". Syst Appl Microbiol. 38(4):287-291   PUBMED: #25660942
8 2015 Rivera-Urbalejo, A., Pérez-Oseguera, A., Carreón-Rodíguez, O.E. and Cevallos, M.A. (2015). "Mutations in an Antisense RNA, Involved in the Replication Control of a repABC Plasmid, that Disrupt Plasmid Incompatibility and Mediate Plasmid Speciation". Plasmid. 78:48-58   PUBMED: #25644116
9 2014 Althabegoiti, M.J., Ormeño-Orrillo, E., Lozano, L., Tejerizo, G.T., Rogel, M.A., Mora, J. and Martínez-Romero, E. (2014). "Characterization Of Rhizobium Grahamii Extrachromosomal Replicons And Their Transfer Among Rhizobia". BMC Microbiol. 14:6   PUBMED: #24397311
10 2014 Batista-García, R.A., Sánchez-Reyes, A., Millán-Pacheco, C., González, V., Juárez, S., Folch-Mallol, J.L. and Pastor, N. (2014). "A Novel TctA Citrate Transporter from an Activated Sludge Metagenome: Structural and Mechanistic Predictions for the TTT Family". Proteins. 82(9):1756-1764   PUBMED: #24493659
11 2014 García-Angulo, V.A., Kalita, A., Kalita, M., Lozano, L. and Torres, A.G. (2014). "Comparative Genomics And Immunoinformatics Approach for the Identification of Vaccine Candidates for Enterohemorrhagic Escherichia coli O157:H7". Infect. Immun.. 82(5):2016-2026   PUBMED: #24595137
12 2014 López Leal, G., Tabche, M.L., Castillo-Ramírez, S., Mendoza-Vargas, A., Ramírez-Romero, M.A. and Dávila, G. (2014). "RNA-Seq Analysis of the Multipartite Genome of Rhizobium etli CE3 Shows Different Replicon Contributions under Heat and Saline Shock". BMC Genomics. 15   PUBMED: #25201548
13 2014 Rogel, M.A., Santamaria, R.I., González, V., Romero, D., Cevallos, M.A., Lozano, L., Castro-Mondragón, J., Martínez, J., Ormeño-Orrillo, E. and Martínez-Romero, E. (2014). "Genomic Basis Of Symbiovar Mimosae in Rhizobium etli". BMC Genomics. 15   PUBMED: #25005495
14 2014 Santamaria, R.I., Bustos, P., Lozano, L., Rodríguez, C., Fernández, J.L., Juárez, S., Kameyama, L., Guarneros, G., Dávila, G. and González, V. (2014). "Narrow-host-range Bacteriophages That Infect Rhizobium etli Associate with Distinct Genomic Types". Appl Environ Microbiol. 80(2):446-454   PUBMED: #24185856
15 2013 Freyre-González, J.A., Manjarrez-Casas, A.M., Merino. E., Martínez-Nuñez, M., Pérez-Rueda, E. and Gutiérrez-Ríos, R.M. (2013). "Lessons From the Modular Organization of the Transcriptional Regulatory Network of Bacillus Subtilis". Bmc Syst Biol. 7:127   PUBMED: #24237659
16 2013 Pérez-Oseguera, A. and Cevallos, M.A. (2013). "Repa and RepB Exert Plasmid Incompatibility Repressing the Transcription of the repABC Operon". Plasmid. 70(3):362-376   PUBMED: #24016735
17 2013 Pérez-Segura, G., Pérez-Oseguera, A. and Cevallos, M.A. (2013). "The Repac Replication System of the Rhizobium leguminosarum pRL7 Plasmid is Functional: Implications regarding the Origin and Evolution of repABC Plasmids". Plasmid. 69(1):49-57   PUBMED: #22975386
18 2013 Treviño, L.G., Freyre-González, J.A. and Martínez-Flores, I. (2013). "Anti-sigma Factors In e-coli: Common Regulatory Mechanisms Controlling Sigma Factors Availability". Curr. Genomics. 14(6):378-387   PUBMED: #24396271
19 2013 Tsai, I.J., Zarowiecki, M., Holroyd, N., Garciarrubio, A., Sánchez-Flores, A., Brooks, K.L., Tracey, A., Bobes, R.J., Fragoso, G., Sciutto, E., Aslett, M., Beasley, H., Bennett, H.M., Cai, J., Camicia, F., Clark, R., Cucher, M., De Silva, N., Day, T.A., Deplazes, P., Estrada, K., Fernández, C., Holland, P.W., Hou, J., Hu, S., Huckvale, T., Hung, S.S., Kamenetzky, L., Keane, J.A., Kiss, F., Koziol, U., Lambert, O., Liu, K., Luo, X., Luo, Y., Macchiaroli, N., Nichol, S., Paps, J., Parkinson, J., Pouchkina-Stantcheva, N., Riddiford, N., Rosenzvit, M., Salinas, G., Wasmuth, J.D., Zamanian, M., Zheng, Y., Garciarrubio, A., Bobes, R.J., Fragoso, G., Sánchez-Flores, A., Estrada, K., Cevallos, M.A., Morett, E., González, V., Portillo, T., Ochoa-Leyva, A., José, M.V., Sciutto, E., Landa, A., Jiménez, L., Valdés, V., Carrero, J.C., Larralde, C., Morales-Montor, J., Limón-Lason, J., Soberón, X., Laclette, J.P., Cai, X., Soberón, X., Olson, P.D., Laclette, J.P., Brehm, K. and Berriman, M. (2013). "The Genomes of Four Tapeworm Species Reveal Adaptations to Parasitism". Nature. 496(7443):57-63   PUBMED: #23485966
20 2013 Wiesner, M., Fernández-Mora, M., Cevallos, M.A., Zavala-Alvarado, C., Zaidi, M.B., Calva, E. and Silva, C. (2013). "Conjugative Transfer Of an IncA/c Plasmid-borne blaCMY-2 Gene through Genetic Re-arrangements with an IncX1 Plasmid". BMC Microbiol. 13(1):264   PUBMED: #24262067
21 2012 Althabegoiti, M.J., Lozano, L., Torres-Tejerizo, G., Ormeño-Orrillo, E., Rogel, M.A., González, V. and Martínez-Romero, E. (2012). "Genome Sequence Of Rhizobium Grahamii CCGE502, A Broad-host-range Symbiont With Low Nodulation Competitiveness In Phaseolus vulgaris". J Bacteriol. 194(23):6651-6652   PUBMED: #23144400
22 2012 Cancino-Rodezno, A., Lozano, L., Oppert, C., Castro, J.I., Lanz-Mendoza, H., Encarnación, S., Evans, A.E., Gill, S.S., Soberon, M., Jurat-Fuentes, J.L. and Bravo, A. (2012). "Comparative Proteomic Analysis Of Aedes Aegypti Larval Midgut After Intoxication With Cry11Aa Toxin from Bacillus thuringiensis". Plos One. 7(5):e37034   PUBMED: #22615881
23 2012 de la Rosa, J.J.P., Ureostegui, P.V., Martínez, J.A.A., Martínez, C.R., González, V. and Millan, J.V.F. (2012). "Babesia Bigemina: Initial Gene Identification by Expressed Sequence Tags (est) Analysis of the Intraerythrocytic Stage". Rev Mex Cienc Pecu. 3:61-87    
24 2012 Fernández-Sandoval, M.T., Huerta-Beristain, G., Trujillo-Martínez, B., Bustos, P., González, V., Bolivar, F., Gosset, G. and Martínez, A. (2012). "Laboratory Metabolic Evolution Improves Acetate Tolerance And Growth on Acetate of Ethanologenic Escherichia coli under Non-aerated Conditions in Glucose-mineral Medium". Appl Microbiol Biotechnol. 96(5):1291-1300   PUBMED: #22669633
25 2012 Freyre-González, J.A., Treviño-Quintanilla, L.G., Valtierra-Gutiérrez, I.A., Gutiérrez-Ríos, R.M. and Alonso-Pavón, J.A. (2012). "Prokaryotic Regulatory Systems Biology: Common Principles Governing the Functional Architectures Of Bacillus Subtilis and Escherichia coli Unveiled by the Natural Decomposition Approach". Journal of Biotechnology. 161(3):278-286   PUBMED: #22728391
26 2012 Garza-Ramos, U., Barrios, H., Hernández-Vargas, M.J., Rojas-Moreno, T., Reyna-Flores, F., Tinoco, P., Othon, V., Poirel, L., Nordmann, P., Cattoir, V., Ruíz-Palacios, G., Fernández, J.L., Santamaria, R.I., Bustos, P., Castro, N. and Silva-Sánchez, J. (2012). "Transfer of Quinolone Resistance Gene qnrA1 to Escherichia coli through a 50 Kb Conjugative Plasmid Resulting from the Splitting of a 300 Kb Plasmid". J Antimicrob Chemoth. 67(7):1627-1634   PUBMED: #22514263
27 2012 López-Guerrero, M., Ormeño-Orrillo, E., Velázquez, E., Rogel, M.A., Acosta, J.L., González, V., Martínez, J. and Martínez-Romero, E. (2012). "Rhizobium etli Taxonomy Revised With Novel Genomic Data and Analyses". Syst Appl Microbiol. 35(6):353-358   PUBMED: #22858268
28 2012 López-Guerrero, M., Ormeño-Orrillo, E., Acosta, J.L., Mendoza-Vargas, A., Rogel, M.A., Ramírez-Romero, M.Á., Rosenblueth, M., Martínez, J. and Martínez-Romero, E. (2012). "Rhizobial Extrachromosomal Replicon Variability, Stability and Expression in Natural Niches". Plasmid. 68(3):149-158   PUBMED: #22813963
29 2012 Mavingui, P., Van, T.V., Wisniewski-Dye, F., Raquin, V., Minard, G., Tran, F.H., Voronin, D., Rouy, Z., Bustos, P., Lozano, L., Barbe, V. and González, V. (2012). "Whole-genome Sequence of Wolbachia Strain wAlbB, an Endosymbiont of Tiger Mosquito Vector Aedes Albopictus". J Bacteriol. 194(7):1840-1840   PUBMED: #22408242
30 2012 Tejerizo, G.T., Lozano, L., González, V., Bustos, P., Romero, D. and Brom, S. (2012). "Draft Genome Sequence Of the Bean-nodulating Sinorhizobium fredii Strain GR64". J Bacteriol. 194(24):6978-6978   PUBMED: #23209231
31 2012 Wisniewski-Dyé, F., Lozano, L., Acosta-Cruz, E., Borland, S., Drogue, B., Prigent-Combaret, C., Rouy, Z., Barbe, V., Herrera, A.M., González, V. and Mavingui, P. (2012). "Genome Sequence Of Azospirillum brasilense CBG497 and Comparative Analyses Of Azospirillum Core and Accessory Genomes Provide Insight into Niche Adaptation". Gene. 3(4):576-602   PUBMED: #24705077
32 2011 Acosta, J.L., Eguiarte, L.E., Santamaria, R.I., Bustos, P., Vinuesa, P., Martínez-Romero, E., Dávila, G. and González, V. (2011). "Genomic Lineages of Rhizobium etli Revealed by the Extent of Nucleotide Polymorphisms and Low Recombination". BMC Evol Biol. 11   PUBMED: #22004448
33 2011 Cervantes, L., Bustos, P., Girard, L., Santamaria, R.I., Dávila, G., Vinuesa, P., Romero, D. and Brom, S. (2011). "The Conjugative Plasmid of a Bean-nodulating Sinorhizobium fredii Strain is Assembled from Sequences of Two Rhizobium Plasmids and the Chromosome of a Sinorhizobium Strain". BMC Microbiol. 11(1):149   PUBMED: #21702991
34 2011 Cervantes-Rivera, R., Pedraza-López, F., Pérez-Segura, G. and Cevallos, M.A. (2011). "The Replication Origin of a repABC Plasmid". BMC Microbiol. 11   PUBMED: #21718544
35 2011 Guerra-Crespo, M., Perez-Monter, C., Janga, S.C., Castillo-Ramírez, S., Gutierrez-Ríos, R.M., Joseph-Bravo, P., Perez-Martinez, L. and Charli, J.L. (2011). "Transcriptional Profiling of Fetal Hypothalamic TRH Neurons". BMC Genomics. 12   PUBMED: #21569245
36 2011 Landeta, C., Dávalos, A., Cevallos, M.A., Geiger, O., Brom, S. and Romero, D. (2011). "Plasmids With a Chromosome-like Role in Rhizobia". J Bacteriol. 193(6):1317-1326   PUBMED: #21217003
37 2011 Orduña, P., Cevallos, M.A., De León, S.P., Arvizu, A., Hernández-González, I., Mendoza-Hernández, G. and López-Vidal, Y. (2011). "Genomic And Proteomic Analyses Of Mycobacterium Bovis BCG Mexico 1931 Reveal a Diverse Immunogenic Repertoire against Tuberculosis Infection". BMC Genomics. 12   PUBMED: #21981907
38 2011 Reyes, J., Gómez-Romero, L., Ibarra-Soria, X., Palacios-Flores, K., Arriola, L.R., Wences, A., García-Alonso, D., Boege, M., Dávila, G., Flores, M. and Palacios, R. (2011). "Context-dependent Individualization of Nucleotides and Virtual Genomic Hybridization Allow the Precise Location of Human SNPs". P Nat Acad Sci USA. 108(37):15294-15299   PUBMED: #21876154
39 2011 Villaseñor-Toledo, T., Dávalos, A., Lozano, L., Romero, D. and García-de los Santos, A. (2011). "Housekeeping Genes Essential For Pantothenate Biosynthesis Are Plasmid-encoded In Rhizobium etli and Rhizobium leguminosarum". BMC Microbiol. 11   PUBMED: #21463532
40 2011 Wiesner, M., Calva, E., Fernandez-Mora, M., Cevallos, M.A., Campos, F., Zaidi, M.B. and silva, C. (2011). "Salmonella Typhimurium St213 is Associated with Two Types of IncA/c Plasmids Carrying Multiple Resistance Determinants". BMC Microbiol. 11   PUBMED: #21223599
41 2011 Wisniewski-Dye, F., Borziak, K., Khalsa-Moyers, G., Alexandre, G., Sukharnikov, L.O., Wuichet, K., Hurst, G.B., McDonald, W.H., Robertson, J.S., Barbe, V., Calteau, A., Rouy, Z., Mangenot, S., Prigent-Combaret, C., Normand, P., Boyer, M., Siguier, P., Dessaux, Y., Elmerich, C., Condemine, G., Krishnen, G., Kennedy, I., Paterson, A.H., González, V., Mavingui, P. and Zhulin, I.B. (2011). "Azospirillum Genomes Reveal Transition Of Bacteria from Aquatic to Terrestrial Environments". Plos Genet. 7(12)   PUBMED: #22216014
42 2010 Cervantes-Rivera, R., Romero-López, C., Berzal-Herranz, A. and Cevallos, M.A. (2010). "Analysis of the Mechanism of Action of the Antisense RNA that Controls the Replication of the repABC Plasmid p42d". J Bacteriol. 192(13):3268-3278   PUBMED: #20435728
43 2010 González, V., Acosta, J.L., Santamaria, R.I., Bustos, P., Fernández, J.L., Hernández-González, I., Díaz-Mendez, R., Flores, M., Palacios, R., Mora, J. and Dávila, G. (2010). "Conserved Symbiotic Plasmid Dna Sequences in the Multireplicon Pangenomic Structure of Rhizobium etli". Appl Environ Microbiol. 76(5):1604-1614   PUBMED: #20048063
44 2010 Lozano, L., Hernández-González, I., Bustos, P., Santamaria, R.I., Souza, V., Young, J.P.W, Dávila, G. and González, V. (2010). "Evolutionary Dynamics of Insertion Sequences in Relation to the Evolutionary Histories of the Chromosome and Symbiotic Plasmid Genes of Rhizobium etli Populations". Appl Environ Microbiol. 76(19):6504-6513   PUBMED: #20675442
45 2009 Castillo-Ramírez, S., Vázquez-Castellanos, J.F., González, V. and Cevallos, M.A. (2009). "Horizontal Gene Transfer And Diverse Functional Constrains within A Common Replication-partitioning System In Alphaproteobacteria: the repABC Operon". BMC Genomics. 10   PUBMED: #19919719
46 2009 Garza-Ramos, U., Dávila, G., González, V., Alpuche-Aranda, C., López-Collada, V.R., Alcantar-Curiel, D., Newton, O. and Silva-Sánchez, J. (2009). "The blaSHV-5 Gene Is Encoded in a Compound Transposon Duplicated in Tandem in Enterobacter Cloacae". Clin Microbiol Infec. 15(9):878-880   PUBMED: #19519856
47 2009 Martínez-Salazar, J.M., Sandoval-Calderón, M., Guo, X.W., Castillo-Ramírez, S., Reyes-González, A., Loza-Correa, M., Rivera, J., Alvarado-Affantranger, X., Sánchez, F, González, V., Dávila, G. and Ramírez-Romero, M.Á. (2009). "The Rhizobium etli RpoH1 and RpoH2 Sigma Factors are Involved in Different Stress Responses". Microbiology-sgm. 155:386-397   PUBMED: #19202087
48 2009 Martínez-Salazar, J.M., Salazar, E., Encarnación, S., Ramírez-Romero, M.Á. and Rivera, J. (2009). "Role Of the Extracytoplasmic Function Sigma Factor RpoE4 in Oxidative and Osmotic Stress Responses in Rhizobium etli". J Bacteriol. 191(13):4122-4132   PUBMED: #19376852
49 2008 Boyer, M., Haurat, J., Samain, S., Segurens, B., Gavory, F., González, V., Mavingui, P., Rohr, R., Bally, R. and Wisniewski-Dye, F. (2008). "Bacteriophage Prevalence In the Genus Azospirillum and Analysis of the First Genome Sequence of an Azospirillum brasilense Integrative Phage". Appl Environ Microbiol. 74(3):861-874   PUBMED: #18065619
50 2008 Castillo-Ramírez, S. and González, V. (2008). "Factors Affecting The Concordance between Orthologous Gene Trees and Species Tree in Bacteria". BMC Evol Biol. 8:300   PUBMED: #18973688
51 2008 Cevallos, M.A., Cervantes-Rivera, R. and Gutierrez-Rios, R.M. (2008). "The repABC Plasmid Family". Plasmid. 60(1):19-37   PUBMED: #18433868
52 2008 Crossman, LC., Castillo-Ramírez, S., McAnnula, C., Lozano, L., Vernikos, GS., Acosta, JL., Ghazoui, ZF., Hernández-González, I., Meakin, G., Walker, AW., Hynes, MF., Young, JP., Downie, JA., Romero, D., Johnston, AW., Dávila, G., Parkhill, J. and González, V. (2008). "A Common Genomic Framework for a Diverse Assembly of Plasmids in the Symbiotic Nitrogen Fixing Bacteria". Plos One. 3(7):e2567   PUBMED: #18596979
53 2008 Sepúlveda, E., Perez-Mendoza, D., Ramírez-Romero, M.Á., Soto, M.J., López-Lara, I.M., Geiger, O., Sanjuan, J., Brom, S. and Romero, D. (2008). "Transcriptional Interference And Repression Modulate the Conjugative Ability of the Symbiotic Plasmid of Rhizobium etli". J Bacteriol. 190(12):4189-4197   PUBMED: #18424522
54 2008 Suárez, R., Wong-Villarreal, A., Ramirez, M., Barraza, A., Orozco, M.D., Cevallos, M.A., Lara-Flores, M., Hernández, G. and Iturriaga, G. (2008). "Improvement Of Drought Tolerance and Grain Yield in Common Bean by Overexpressing Trehalose-6-phosphate Synthase in Rhizobia". Mol Plant Microbe Interactions. 21(7):958-966   PUBMED: #18533836
55 2007 Flores, M., Morales, L., Gonzaga-Jáuregui, C., Domínguez-Vidaña, R., Zepeda-Mendoza, C.J., Yáñez, O., Gutierrez-Arcelus, M., Lemus, T., Valle-García, D., Ávila, M.C., Blanco, D., Medina-Ruiz, S., Meza-Sosa, K.F., Ayala, E., García-Alonso, D., Bustos, P., González, V., Girard, L., Tusie-Luna, T., Dávila, G. and Palacios, R. (2007). "Recurrent DNA Inversion Rearrangements in the Human Genome". P Nat Acad Sci USA. 104(15):6099-6106   PUBMED: #17389356
56 2007 Granados-Baeza, M.J., Gómez-Hernández, N., Mora, Y., Delgado, M.J., Romero, D. and Girard, L. (2007). "Novel Reiterated Fnr-type Proteins Control the Production of the Symbiotic Terminal Oxidase Cbb(3) in Rhizobium etli CFN42". Mol Plant Microbe Interactions. 20(10):1241-1249   PUBMED: #17918626
57 2007 Guo, X.W., Castillo-Ramírez, S., González, V., Bustos, P., Fernández, J.L., Santamaria, R.I., Arellano, J., Cevallos, M.A. and Dávila, G. (2007). "Rapid Evolutionary Change of Common Bean (Phaseolus vulgaris L) Plastome, and the Genomic Diversification of Legume Chloroplasts". BMC Genomics. 8   PUBMED: #17623083
58 2007 Guo, X.W., Flores, M., Morales, L., García-Alonso, D., Bustos, P., González, V., Palacios, R. and Dávila, G. (2007). "Dna Diversification in Two Sinorhizobium Species". J Bacteriol. 189(17):6474-6476   PUBMED: #17601787
59 2007 Pinero, S., Rivera, J., Romero, D., Cevallos, M.A., Martínez, A., Bolivar, F. and Gosset, G. (2007). "Tyrosinase From Rhizobium etli is Involved in Nodulation Efficiency and Symbiosis-associated Stress Resistance". J Mol Microbiol Biotechnol. 13(1-3):35-44   PUBMED: #17693711
60 2006 Aguilar-Diaz, H., Bobes, R.J., Carrero, J.C., Camacho-Carranza, R., Cervantes, C., Cevallos, M.A., Dávila, G., Rodriguez-Dorantes, M., Escobedo, G., Fernández, J.L., Fragoso, G., Gaytan, P., Garciarubio, A., González, V., Gonzalez, L., Jose, M.V., Jimenez, L., Laclette, J.P., Landa, A., Larralde, C., Morales-Montor, J., Morett, E., Ostoa-Saloma, P., Sciutto, E., Santamaria, R.I., Soberon, X., de la Torre, P., Valdes, V. and Yañez, J. (2006). "The Genome Project of Taenia solium". Parasitol Int. 55:S127-S130   PUBMED: #16337432
61 2006 Alvarez, R.G., de Mendoza, A.R., Escobedo, D.E., Felix, G.C., Sanchez, I.R., González, V., Dávila, G., Cao, Q., de Jong, P., Fu, Y.X. and Saldana, H.A.B. (2006). "Growth Hormone Locus Expands and Diverges after the Separation of New and Old World Monkeys". Gene. 380(1):38-45   PUBMED: #16872758
62 2006 González, V., Santamaria, R.I., Bustos, P., Hernández-González, I., Medrano-Soto, A., Moreno-Hagelsieb, G., Janga, S.C., Ramírez-Romero, M.Á., Jiménez-Jacinto, V., Collado-Vides, J. and Dávila, G. (2006). "The Partitioned Rhizobium etli Genome: Genetic and Metabolic Redundancy in Seven Interacting Replicons". P Nat Acad Sci USA. 103(10):3834-3839   PUBMED: #16505379
63 2006 Hernández-Lucas, I., Ramírez-Trujillo, J.A., Gaitan, M.A., Guo, X.W., Flores, M., Martínez-Romero, E., Perez-Rueda, E. and Mavingui, P. (2006). "Isolation And Characterization of Functional Insertion Sequences of Rhizobia". FEMS Microbiol Lett. 261(1):25-31   PUBMED: #16842354
64 2006 Ramírez-Romero, M.Á., Masulis, I., Cevallos, M.A., González, V. and Dávila, G. (2006). "The Rhizobium etli Sigma(70) (sigA) Factor Recognizes a Lax Consensus Promoter". Nucl Acid Res. 34(5):1470-1480   PUBMED: #16528104
65 2006 Velasco-Garcia, R., Villalobos-López, M.A., Ramírez-Romero, M.Á., Mujica-Jimenez, C., Iturriaga, G. and Munoz-Clares, R.A. (2006). "Betaine Aldehyde Dehydrogenase From Pseudomonas Aeruginosa: Cloning, Over-expression in Escherichia coli, and Regulation by Choline and Salt". Arch Microbiol. 185(1):14-22   PUBMED: #16315011
66 2006 Wang, E.T., Tan, Z.Y., Guo, X.W., Rodriguez-Duran, R., Boll, G. and Martínez-Romero, E. (2006). "Diverse Endophytic Bacteria Isolated From a Leguminous Tree Conzattia multiflora Grown in Mexico". Arch Microbiol. 186(4):251-259   PUBMED: #16862424
67 2005 Dávila, S., Pinero, D., Bustos, P., Cevallos, M.A. and Dávila, G. (2005). "The Mitochondrial Genome Sequence of the Scorpion Centruroides limpidus (karsch 1879) (chelicerata Arachnida)". Gene. 360(2):92-102   PUBMED: #16183216
68 2005 Flores, M., Morales, L., Ávila, A., González, V., Bustos, P., García-Alonso, D., Mora, Y., Guo, X.W., Collado-Vides, J., Pinero, D., Dávila, G., Mora, J. and Palacios, R. (2005). "Diversification of DNA Sequences in the Symbiotic Genome of Rhizobium etli". J Bacteriol. 187(21):7185-7192   PUBMED: #16237002
69 2005 Izquierdo, J., Venkova-Canova, T., Ramírez-Romero, M.Á., Téllez-Sosa, J., Hernández-Lucas, I., Sanjuan, J. and Cevallos, M.A. (2005). "An Antisense RNA Plays a Central Role in the Replication Control of a RepC Plasmid". Plasmid. 54(3):259-277   PUBMED: #16005966
70 2004 Brom, S., Girard, L., Tun-Garrido, C., García-de los Santos, A., Bustos, P., González, V. and Romero, D. (2004). "Transfer of The Symbiotic Plasmid of Rhizobium etli CFN42 Requires Cointegration with p42a, Which may be Mediated by Site-Specific Recombination". J Bacteriol. 186(22):7538-7548   PUBMED: #15516565
71 2004 Soberón, N., Venkova-Canova, T., Ramírez-Romero, M.Á., Téllez-Sosa, J. and Cevallos, M.A. (2004). "Incompatibility And the Partitioning Site of the repABC Basic Replicon of the Symbiotic Plasmid from Rhizobium etli". Plasmid. 51(3):203-216   PUBMED: #15109827
72 2004 Venkova-Canova, T., Soberón, N., Ramírez-Romero, M.Á. and Cevallos, M.A. (2004). "Two Discrete Elements Are Required for the Replication of a repABC Plasmid: an Antisense RNA and a Stem-loop Structure". Mol Microbiol. 54(5):1431-1444   PUBMED: #15554980
73 2003 Desnoues, N., Lin, M., Guo, X.W., Ma, L.Y., Carreno-Lopez, R. and Elmerich, C. (2003). "Nitrogen Fixation Genetics And Regulation in a Pseudomonas Stutzeri Strain Associated with Rice". Microbiology-sgm. 149:2251-2262   PUBMED: #12904565
74 2003 González, V., Bustos, P., Ramírez-Romero, M.Á., Medrano-Soto, A., Salgado, H., Hernández-González, I., Hernandez-Celis, J.C., Quintero, V., Moreno-Hagelsieb, G., Girard, L., Rodríguez, O., Flores, M., Cevallos, M.A., Collado-Vides, J., Romero, D. and Dávila, G. (2003). "The Mosaic Structure of the Symbiotic Plasmid of Rhizobium etli CFN42 and Its Relation to other Symbiotic Genome Compartments". Genome Biol. 4(6)   PUBMED: #12801410
75 2003 Guo, X.W., Flores, M., Mavingui, P., Fuentes, S.I., Hernández, G., Dávila, G. and Palacios, R. (2003). "Natural Genomic Design In Sinorhizobium meliloti Novel Genomic Architectures". Genome Res. 13(8):1810-1817   PUBMED: #12902376
76 2003 Jahn, O.J., Dávila, G., Romero, D. and Noel, K.D. (2003). "Bacs: an Abundant Bacteroid Protein in Rhizobium etli Whose Expression Ex Planta Requires nifA". Mol Plant Microbe Interactions. 16(1):65-73   PUBMED: #12580283
77 2003 Tun-Garrido, C., Bustos, P., González, V. and Brom, S. (2003). "Conjugative Transfer of p42a from Rhizobium etli CFN42, Which is Required for Mobilization of the Symbiotic Plasmid, is Regulated by Quorum Sensing". J Bacteriol. 185(5):1681-1692   PUBMED: #12591886
78 2002 Cevallos, M.A., Porta, H., Izquierdo, J., Tun-Garrido, C., García-de los Santos, A., Dávila, G. and Brom, S. (2002). "Rhizobium etli Cfn42 Contains At Least Three Plasmids of the repABC Family: a Structural and Evolutionary Analysis". Plasmid. 48(2):104-116   PUBMED: #12383728
79 2002 Mavingui, P., Flores, M., Guo, X.W., Dávila, G., Perret, X., Broughton, W.J. and Palacios, R. (2002). "Dynamics Of Genome Architecture In Rhizobium sp. Strain NGR234". J Bacteriol. 184(1):171-176   PUBMED: #11741857
80 2002 Quintero, V., Cevallos, M.A. and Dávila, G. (2002). "A Site-Specific Recombinase (rinq) Is Required to Exert Incompatibility towards the Symbiotic Plasmid of Rhizobium etli". Mol Microbiol. 46(4):1023-1032   PUBMED: #12421308
81 2002 Téllez-Sosa, J., Soberón, N., Vega-Segura, A., Torres-Marquez, M.E. and Cevallos, M.A. (2002). "The Rhizobium etli cyaC Product: Characterization of a Novel Adenylate Cyclase Class". J Bacteriol. 184(13):3560-3568   PUBMED: #12057950
82 2001 Ramírez-Romero, M.Á., Téllez-Sosa, J., Barrios, H., Pérez-Oseguera, A., Rosas, V. and Cevallos, M.A. (2001). "Repa Negatively Autoregulates the Transcription of the repABC Operon of the Rhizobium etli Symbiotic Plasmid Basic Replicon". Mol Microbiol. 42(1):195-204   PUBMED: #11679078
83 2000 Flores, M., Mavingui, P., Perret, X., Broughton, W.J., Romero, D., Hernández, G., Dávila, G. and Palacios, R. (2000). "Prediction, Identification, And Artificial Selection Of DNA Rearrangements in Rhizobium: toward a Natural Genomic Design". P Nat Acad Sci USA. 97(16):9138-9143   PUBMED: #10922070
84 2000 Ramírez-Romero, M.Á., Soberón, N., Pérez-Oseguera, A., Téllez-Sosa, J. and Cevallos, M.A. (2000). "Structural Elements Required For Replication and Incompatibility of the Rhizobium etli Symbiotic Plasmid". J Bacteriol. 182(11):3117-3124   PUBMED: #10809690
85 1999 Wang, E.T., Rogel, M.A., García-de los Santos, A., Martínez, J., Cevallos, M.A. and Martínez-Romero, E. (1999). "Rhizobium etli Bv. Mimosae, A Novel Biovar Isolated from Mimosa affinis". Int J Syst Bact. 49:1479-1491   PUBMED: #10555329
86 1998 Flores, M., Mavingui, P., Girard, L., Perret, X., Broughton, W.J., Martínez-Romero, E., Dávila, G. and Palacios, R. (1998). "Three Replicons Of Rhizobium Sp. Strain NGR234 Harbor Symbiotic Gene Sequences". J Bacteriol. 180(22):6052-6053   PUBMED: #9811668
87 1998 Mandon, K., Michel-Reydellet, N., Encarnación, S., Kaminski, P.A., Leija, A., Cevallos, M.A., Elmerich, C. and Mora, J. (1998). "Poly-beta-hydroxybutyrate Turnover In Azorhizobium caulinodans is Required for Growth and Affects nifA Expression". J Bacteriol. 180(19):5070-5076   PUBMED: #9748438
88 1997 AguilarGaytan, R., Cerbon, M.A., Cevallos, M.A., Lizano, M. and Huberman, A. (1997). "Sequence Of a cDNA Encoding the Molt-inhibiting Hormone from the Mexican Crayfish Procambarus bouvieri (crustacea, Decapoda)". Asia-pac J Mol Biol Biotech. 5(1):51-55    
89 1997 Barrera, L.L., Trujillo, M.E., Goodfellow, M., García, F.J., Hernández-Lucas, I., Dávila, G., vanBerkum, P. and Martínez-Romero, E. (1997). "Biodiversity Of Bradyrhizobia Nodulating Lupinus spp.". Int J Syst Bact. 47(4):1086-1091   PUBMED: #9336911
90 1997 Calderón, J., Olvera, L., Martínez, L.M. and Dávila, G. (1997). "A Neurospora crassa Mutant Altered in the Regulation of L-amino Acid Oxidase". Microbiology-uk. 143:1969-1974   PUBMED: #9202472
91 1997 Dunn, M.F., Araíza, G., Cevallos, M.A. and Mora, J. (1997). "Regulation Of Pyruvate Carboxylase in Rhizobium etli". FEMS Microbiol Lett. 157(2):301-306   PUBMED: #9435112
92 1997 Ramírez-Romero, M.Á., Bustos, P., Girard, L., Rodríguez, O., Cevallos, M.A. and Dávila, G. (1997). "Sequence, Localization And Characteristics of the Replicator Region of the Symbiotic Plasmid of Rhizobium etli". Microbiology-uk. 143:2825-2831   PUBMED: #9274036
93 1996 Cevallos, M.A., Encarnación, S., Leija, A., Mora, Y. and Mora, J. (1996). "Genetic And Physiological Characterization of a Rhizobium etli Mutant Strain Unable to Synthesize Poly-beta-hydroxybutyrate". J Bacteriol. 178(6):1646-1654   PUBMED: #8626293
94 1996 De La Vega, F.M., Galindo, J.M., Old, L.G. and Guarneros, G. (1996). "Microbial Genes Homologous To the Peptidyl-tRNA Hydrolase-encoding Gene of Escherichia coli". Gene. 169(1):97-100   PUBMED: #8635758
95 1996 Girard, L., Valderrama, B., Palacios, R., Romero, D. and Dávila, G. (1996). "Transcriptional Activity of the Symbiotic Plasmid of Rhizobium etli is Affected by Different Environmental Conditions". Microbiology-uk. 142:2847-2856    
96 1995 Romero, D., Martínez-Salazar, J.M., Girard, L., Brom, S., Dávila, G., Palacios, R., Flores, M. and Rodríguez, C. (1995). "Discrete Amplifiable Regions (Amplicons) In The Symbiotic Plasmid of Rhizobium etli CFN42". J Bacteriol. 177(4):973-980   PUBMED: #7860608
97 1993 Flores, M., Brom, S., Stepkowsky, T., Girard, L., Dávila, G., Romero, D. and Palacios, R. (1993). "Gene Amplification In Rhizobium Identification And in vivo Cloning Of Discrete Amplifiable Dna Regions (Amplicons) From Rhizobium leguminosarum Biovar phaseoli". P Nat Acad Sci USA. 90(11):4932-4936   PUBMED: #8506337
98 1992 Brom, S., García-de los Santos, A., Stepkowsky, T., Flores, M., Dávila, G., Romero, D. and Palacios, R. (1992). "Different Plasmids Of Rhizobium leguminosarum Bv phaseoli Are Required for Optimal Symbiotic Performance". J Bacteriol. 174(16):5183-5189   PUBMED: #1644746
99 1991 Brom, S., García-de los Santos, A., Girard, L., Dávila, G., Palacios, R. and Romero, D. (1991). "High-frequency Rearrangements In Rhizobium leguminosarum Bv. phaseoli Plasmids". J Bacteriol. 173(3):1344-1346   PUBMED: #1991727
100 1991 Girard, L., Flores, M., Brom, S., Romero, D., Palacios, R. and Dávila, G. (1991). "Structural Complexity Of The Symbiotic Plasmid Of Rhizobium leguminosarum bv phaseoli". J Bacteriol. 173(8):2411-2419   PUBMED: #2013564
101 1991 Martínez-Salazar, J.M., Romero, D., Girard, L. and Dávila, G. (1991). "Molecular Cloning and Characterization of the recA Gene of Rhizobium phaseoli and Construction of recA Mutants". J Bacteriol. 173(10):3035-3040   PUBMED: #2022610
102 1991 Romero, D., Brom, S., Martínez-Salazar, J.M., Girard, L., Palacios, R. and Dávila, G. (1991). "Amplification And Deletion of A nod-nif Region in the Symbiotic Plasmid of Rhizobium phaseoli". J Bacteriol. 173(8):2435-2441   PUBMED: #2013567
103 1990 Lara-Ochoa, F. and Bustos, P. (1990). "A Model for Aggregation-dispersion Dynamics of a Population". Biosystems. 24(3):215-222   PUBMED: #2127375
104 1990 Lara-Ochoa, F. and Bustos, P. (1990). "Density Dependent Diffusional Model of an Infective Population". Biosystems. 24(3):223-238   PUBMED: #2073542
105 1989 Cevallos, M.A., Vázquez, M., Dávalos, A., Espín Ocampo, E.G., Sepúlveda, J. and Quinto, C. (1989). "Characterization Of Rhizobium phaseoli Sym Plasmid Regions Involved In Nodule Morphogenesis and Host-range Specificity". Mol Microbiol. 3(7):879-889   PUBMED: #2552255
106 1988 Brom, S., Martínez-Romero, E., Dávila, G. and Palacios, R. (1988). "Narrow-and Broad-host-range Symbiotic Plasmids Of Rhizobium spp. Strains that Nodulate Phaseolus vulgaris". Appl Environ Microbiol. 54(5):1280-1283   PUBMED: #16347637
107 1988 Flores, M., González, V., Pardo, M.A., Leija, A., Martínez-Romero, E., Romero, D., Piñero, D., Dávila, G. and Palacios, R. (1988). "Genomic Instability In Rhizobium phaseoli". J Bacteriol. 170(3):1191-1196   PUBMED: #3343217
108 1988 Martínez-Romero, E., Flores, M., Brom, S., Romero, D., Dávila, G. and Palacios, R. (1988). "Rhizobium phaseoli: A Molecular Genetics View". Plant Soil. 108(1):179-184    
109 1988 Romero, D., Singleton, P., Segovia, L., Morett, E., Bohlool, B.B., Palacios, R. and Dávila, G. (1988). "Effect Of Naturally Occurring Nif Reiterations on Symbiotic Effectiveness in Rhizobium phaseoli". Appl Environ Microbiol. 54(3):848-850   PUBMED: #16347593
110 1987 Flores, M., González, V., Brom, S., Martínez-Romero, E., Piñero, D., Romero, D., Dávila, G. and Palacios, R. (1987). "Reiterated Dna Sequences In Rhizobium and Agrobacterium spp.". J Bacteriol. 169(12):5782-5788   PUBMED: #3450286
111 1986 Romero, D. and Dávila, G. (1986). "Genetic And Biochemical Identification of the Glutamate Synthase Structural Gene in Neurospora crassa". J Bacteriol. 167(3):1043-1047   PUBMED: #2943726
112 1985 González, A., Dávila, G. and Calva, E. (1985). "Cloning Of A DNA Sequence that Complements Glutamine Auxotrophy in saccharomyces cerevisiae". Gene. 36(1-2):123-129   PUBMED: #2866146
113 1985 Martínez-Romero, E., Pardo, M.A., Cevallos, M.A. and Palacios, R. (1985). "Reiteration of Nitrogen Fixation Gene Sequences and Specificity of Rhizobium in Nodulation and Nitrogen Fixation in Phaseolus vulgaris". J. Gen. Microbiol.. 131(JUL):1779-1786    
114 1985 Quinto, C., de la Vega, H., Flores, M., Leemans, J., Cevallos, M.A., Pardo, M.A., Azpiroz, R., Girard, L., Calva, E. and Palacios, R. (1985). "Nitrogenase Reductase: A Functional Multigene Family In Rhizobium phaseoli". P Nat Acad Sci USA. 82(4):1170-1174   PUBMED: #16593543
115 1984 Noel, K.D., Sánchez, A., Fernández, L., Leemans, J. and Cevallos, M.A. (1984). "Rhizobium phaseoli Symbiotic Mutants With Transposon Tn5 Insertions". J Bacteriol. 158(1):148-155   PUBMED: #6325385
116 1983 Dávila, G., Brom, S., Mora, Y., Palacios, R. and Mora, J. (1983). "Genetic and Biochemical Characterization of Glutamine Synthetase from Neurospora crassa Glutamine Auxotrophs and their Revertants". J Bacteriol. 156(3):993-1000   PUBMED: #6139363

Programa de Genómica Evolutiva


En el Programa de Genómica Evolutiva estamos interesados en estudiar los mecanismos de evolución de las bacterias desde los puntos de vista de la biología molecular, de la biología de sistemas, y de la genómica. Estamos especialmente interesados en bacterias que pueden establecer interacciones simbióticas y patogénicas con otros organismos. Nuestro Programa se compone de cuatro grupos de investigación dirigidos por el Dr. Santiago Castillo, el Dr. Julio Freyre, el Dr. Víctor González y el Dr. Miguel Ángel Cevallos. Una de las labores más importantes de nuestro Programa es la formación de recursos humanos especialmente de doctores, dentro del programa de Ciencias Biomédicas de la UNAM. Sin embargo, apoyamos a todos los estudiantes de licenciatura que deseen realizar su tesis bajo la dirección de alguno de nosotros.

Functional characterization of regulatory networks in Rhizobium etli.

The general goal of this research line is to contribute to the understanding of the regulatory networks that control genetic expression in R. etli in response to different external signals during free life and symbiosis. An integrative global regulatory model requires the identification of target genes for a certain transcriptional factor and the characterization of the molecular mechanisms that participate in its expression. Focused in new ORFs identified in the R. etli complete genome sequence, the objectives of my research include:

Evolution of Cell Organelles Genomes

In eucaryotic cells there are two important organelles, mitochondria and plastids, which produce the energy and synthesize substances for cell metabolism respectively. These organelles are compartmentalized by two layers of membrane, have multiple copies of its genome, and are inherited in non-Mendelian fashion. It is now accepted that these organelles were originated from ancient endosymbionts of eukaryotic cell. Therefore, the genetic information from organelle genomes can provide an independent view of the phylogeny of their host organisms.

Microevolutionary Genomics of Rhizobium etli .

Earlier genetic population studies pointed out that R. etli has high diversity levels as measured by multilocus enzyme electrophoresis. There are also differences in plasmid number and size. Recently, we obtain the complete genome sequence of R. etli CFN42. This strain contains six large plasmids and a circular chromosome that together account for 6, 530, 234 bp. In this context, we want to evaluate the levels of molecular variation among strains of R. etli, to answer the following questions:

Dr. Miguel Ángel Ramírez - Rhizobium etli y sus Sigmulones: ¿Un circo de 23 pistas?

12 Nov 2007 - 12:00
12 Nov 2007 - 14:00
Titulo del Seminario / Conferencia: 

Rhizobium etli y sus Sigmulones: ¿Un circo de 23 pistas?


Auditorio "Dr. Guillermo Soberón", Centro de Ciencias Genómicas, UNAM


Centro de Ciencias Genómicas, UNAM

"Dr. Guillermo Dávila - Preguntas e ideas sobre la evolución molecular del genoma de Rhizobium"

25 Jun 2007 - 12:00
Titulo del Seminario / Conferencia: 

"Preguntas e ideas sobre la evolución molecular del genoma de Rhizobium"

Dr. Miguel A. Cevallos - "Aventuras y desventuras con los plásmidos repABC"

24 Sep 2007 - 12:00
24 Sep 2007 - 13:00
Titulo del Seminario / Conferencia: 

"Aventuras y desventuras con los plásmidos repABC"