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  1. Ramírez-Delgadillo R., Cupul-Magaña F., Hernández-Hurtado H., Fonseca-Madrigal J., Rodríguez-Zaragoza F.A. y Gómez-Graciano S. (2000). Florística de las Islas Marietas, municipio de Bahía de Banderas, Nayarit. Ciencia y Mar, 4(12):23-28.
  1. Carriquiry, J.D., Cupul-Magaña, A.L.,  Rodríguez-Zaragoza, F. y Medina Rosas, P. (2001). Coral bleaching and mortality in the Mexican Pacific during the 1997-98 El Niño and prediction from remote sensing approach. Bulletin of Marine Science, 69(1):237-249.
  1. Rodríguez-Zaragoza, F.A. y Arias-González, J.E. (2008). Additive partitioning of reef fish diversity across multiple spatial scales. Caribbean Journal of Science, 44(1):90-101. DOI: 10.18475/cjos.v44i1.a10
  1. Arias-González,  J.E., Legendre, P. y Rodríguez-Zaragoza, F.A. (2008). Scaling up beta diversity on Caribbean coral reefs. Journal of Experimental Marine Biology and Ecology, 366(1-2):28-36. DOI: 10.1016/j.jembe.2008.07.035
  1. Arias-González, J.E., Abarca, L.G., Alcocer-Durán J., Cabrera, J.L., Calderón-Aguilera, L.E., Chiappa-Carrara, X., Christensen, V., Cupul-Magaña, A.L., Franco-López, J., Pérez-España, H., Morales-Zárate, V., Rodríguez-Zaragoza, F.A., Sansores, C. y Schmbitter-Soto, J.J. (2009). Relationship between biodiversity and ecosystem functioning in Mexican aquatic systems. Fisheries Centre Research Reports, 17(3):76-78. DOI: 10.14288/1.0074741
  1. Galván-Villa C.M., Arreola-Robles J.L., Ríos-Jara E. y Rodríguez Zaragoza F.A. (2010). Composición y abundancia de peces arrecifales de Isla Isabel, Nayarit, México. Revista de Biología Marina y Oceanografía, 45(2):311-324. DOI: 10.4067/S0718-19572010000200013
  1. Arias-González, J.E., Núñez-Lara, E., Rodríguez Zaragoza F.A. y Legendre P. (2011). Reefscape proxies for Caribbean coral reef biodiversity. Ciencias Marinas, 37(1): 87-96. DOI: 10.7773/cm.v37i1.1746
  1. Rodríguez-Zaragoza, F.A.,  Cupul-Magaña A.L., Galván-Villa C.M., Ríos-Jara E., Robles-Jarero E.G., López-Uriarte E. y González-Arias E. (2011). Additive partitioning of reef fish diversity variation: a promising marine biodiversity management tool. Biodiversity and Conservation, 20: 1655–1675. DOI 10.1007/s10531-011-0053-9
  1. Rodríguez-Zaragoza F.A., Pérez-de Silva C.V., Ruíz-Zarate M.A., Cupul-Magaña A.L., Medina A., Rico P. y Hernández-Flores A. (2012). Hermatypic coral assemblage spatial variation at Cayos Cochinos, Honduras. Latin American Journal of Aquatic Research 44(4):992-1004. DOI: 10.3856/vol40-issue4-fulltext-15
  1. Ortiz M., Levins R., Campos L., Berrios F., Campos F., Jordan F., Hermosillo B., González J., Rodríguez F. (2013). Identifying keystone trophic groups in benthic ecosystems: implications for fisheries management. Ecological Indicators 25: 133-140.
  1. Ortiz M., Campos L., Berrios F., Rodríguez F., Hermosillo B., González J. (2013). Network properties and keystoness assessment in different intertidal communities dominated by two ecosystem engineer species (SE Pacific coast): a comparative analysis. Ecological Modelling, DOI 10.1007/s00267-013-0047-3.
  1. Ríos-Jara E., Galván-Villa C.M., Rodríguez-Zaragoza F.A., López-Uriarte E., Bastida-Izaguirre D. Solís-Marín F. (2013). Echinoderms (Echinodermata) from Bahia Chamela, Jalisco, México: distribution, new records, range distribution extensions and a comparative analysis with other localities of the Mexican Pacific. Revista Mexicana de Biodiversidad 84:263-279. DOI: 10.7550/rmb.30461
  1. Ríos-Jara E., Galván-Villa C., Rodríguez-Zaragoza F., López-Uriarte E., Muñoz-Fernández V. (2013). Carrying Capacity of Submarine Trails in the Marine Park Isabel Island, Mexico. Journal of Environmental Management 52: 335-347. doi: 10.1007/s00267-013-0047-3
  1. Acosta-González G., Rodríguez-Zaragoza F.A., Hernández-Landa R.C., Arias-González J.E. (2013). Spatiotemporal additive partitioning of fish diversity in a Caribbean coral reef undergoing shift transition. PLOSONE 8(6):e65665.
  1. Esqueda-González M.C., Ríos-Jara E., Galván-Villa C.M., Rodríguez-Zaragoza F.A. (2014). Species composition, richness, and distribution of marine bivalve molluscs in Bahía de Mazatlán, México. ZooKeys, 399:43-69. ISSN : 1313-2989, DOI: 10.3897/ZOOKEYS.399.6526
  1. Granja-Fernández R., Herrero-Pérezrul M.D., López-Pérez R.A., Hernández L., Rodríguez-Zaragoza F.A., Wallace Jones R., Pineda-López R. (2014). Ophiuroidea (echinodermata) from coral reefs in the mexican Pacific. ZooKeys, 406:101-145. ISSN: 1313-2989, DOI: 10.3897/ZOOKEYS.406.6306
  1. Fourriére M., Reyes-Bonilla H., Rodríguez-Zaragoza F.A., Crane N. (2014). Fishes of Clipperton atoll, Eastern Pacific: checklist, endemism and analysis of completeness of the inventory. Pacific Science, 68(3): 375-395. ISSN: 0030-8870, DOI: 10.3897/zookeys.406.6306
  1. Santiago-Pérez A.L., Ayón-Escobedo A., Rosas-Espinoza V.C., Rodríguez-Zaragoza F.A., Toledo-González S.L. (2014). Structure of the gallery forest in Sierra de Quila, Jalisco. Revista Mexicana de Ciencias Forestales, 5(24):142-159.
  1. Hermosillo-Núñez B.B., Rodríguez-Zaragoza F.A., Ortiz O., Galván-Villa C.M., Cupul-Magaña A.L., Ríos-Jara E. (2015). Effect of habitat structure on the most frequent echinoderm species inhabiting coral reef communities at Isla Isabel National Park (México). Community Ecology, 16(1): 125-134. DOI:ComEc-D-14-00016R1
  1. Ortiz M., Berrios F., Campos L., Uribe R., Ramírez A. Hermosillo-Núñez B., González J., Rodríguez-Zaragoza F.A. (2015). Mass balanced trophic models and short-term dynamical simulations for benthic ecological systems of Mejillones and Antofagasta bays (SE Pacific): Comparative network structure and assessment of human impacts. Ecological Modelling 309-310 (2015) 153–162. DOI: 10.1016/j.ecolmodel.2015.04.006
  1. Ortiz M., Rodríguez-Zaragoza F.A., Hermosillo-Nuñez B., Jordán F. (2015). Control Strategy Scenarios for the Alien Lionfish Pterois volitans in Chinchorro Bank (Mexican Caribbean): Based on Semi-Quantitative Loop Analysis. Plos One 26-jun-2015. DOI: 10.1371/journal.pone.0130261
  1. Rodríguez-Zaragoza F.A., Arias-González J.E. (2015). Coral biodiversity and bio-construction in the northern sector of the mesoamerican reef system. Frontiers in Marine Science, 2: 13. 03 March 2015. DOI: 10.3389/fmars.2015.00013
  1. Barranco L.M., Carriquiry J.D., Rodríguez-Zaragoza F.A., Cupul-Magaña A.L., Villaescusa J.A., Calderón-Aguilera L.E. (2016). Spatiotemporal variations of live coral cover in the northern Mesoamerican Reef System, Yucatan Peninsula, Mexico. Scientia Marina 80(2):143-150. DOI:  10.3989/scimar.04294.23A
  1. Cáceres I., Ortiz M., Cupul-Magaña A.L., Rodríguez-Zaragoza F.A. (2016). Trophic models and short-term simulations for the coral reefs of Cayos Cochinos and Media Luna (Honduras): a comparative network analysis, ecosystem development, resilience, and fishery. Hydrobiologia, 770:209–224. DOI: 10.1007/s10750-015-2592-7
  1. Díaz-Pérez L., Rodríguez-Zaragoza F.A., Ortiz M., Cupul-Magaña A.L., Carriquiry J.D., Ríos-Jara E., Rodríguez-Troncoso A.P., García-Rivas M.C. (2016). Coral Reef Health Indices versus the Biological, Ecological and Functional Diversity of Fish and Coral Assemblages in the Caribbean Sea. PLoS ONE 11(8): e0161812. DOI: 10.1371/journal.pone.0161812
  1. González J. Ortiz M., Rodríguez-Zaragoza F., Ulanowicz R.E. (2016). Assessment of long-term changes of ecosystem indexes in Tongoy Bay (SE Pacific coast): Based on trophic network analysis. Ecological Indicators 69: 390–399. DOI: 10.1016/j.ecolind.2016.04.019
  1. Hernández-Zulueta J., Araya R., Vargas-Ponce O., Díaz-Pérez L., Rodríguez-Troncoso A.P., Ceh J., Ríos-Jara E., Rodríguez-Zaragoza F.A. (2016). First deep screening of bacterial assemblages associated with corals of the Tropical Eastern Pacific. FEMS Microbiology Ecology, 92, 2016, fiw196.  DOI: 10.1093/femsec/fiw196
  1. Hermosillo-Núñez B.B., Rodríguez-Zaragoza F.A., Ortiz M., Calderón-Aguilera L.E., Cupul-Magaña A.L. (2016). Influence of the coral reef assemblages on the spatial distribution of echinoderms in a gradient of human impacts along the tropical Mexican Pacific. Biodiversity and Conservation 25:2137–2152. DOI: 10.1007/s10531-016-1182-y
  1. Ortiz M., Berrios F., González J., Rodríguez-Zaragoza F., Gómez I. (2016). Macroscopic network properties and short-term dynamic simulations in coastal ecological systems at Fildes Bay (King George Island, Antarctica). Ecological Complexity 28: 145–157. DOI: 10.1016/j.ecocom.2016.06.003
  1. Ricart A.M., Rodríguez-Zaragoza F.A., González-Salas C., Ortiz M., Cupul-Magaña A.L., Adjeroud M. (2016). Coral reef fish assemblages at Clipperton Atoll (Eastern Tropical Pacific) and their relationship with coral cover. Scientia Marina 80(4): 479-486. DOI: 10.3989/scimar.04301.12B
  1. Ríos-Jara E., Galván-Villa C.M., Ayón-Parente M., Rodríguez-Zaragoza F.A., Díaz-Pérez D. (2016). Incidental Catch of Mollusks Associated with Shrimp Fishery in the Gulf of Tehuantepec, Southern Mexican Pacific. Annals of Aquaculture and Research 3(1): 1016.
  1. Rodríguez-Zaragoza F.A., Ortiz M., Berrios F., Campos L., de Jesús-Navarrete A., Castro-Pérez J., Hernández-Flores A., García-Rivas M., Fonseca-Peralta F., Gallegos-Aguilar E. (2016). Trophic models and short-term dynamic simulations for benthic-pelagic communities at Banco Chinchorro Biosphere Reserve (Mexican Caribbean): a conservation case. Community Ecology 17(1): 48–60. DOI: 10.1556/168.2016.17.1.7
  1. Valdivia-Maresa L.E., Rodríguez-Zaragoza F.A., Sánchez González J.J., Vargas-Ponce O. (2016). Phenology, agronomic and nutritional potential of three wild husk tomato species (Physalis, Solanaceae) from Mexico. Scientia Horticulturae 200: 83–94. DOI: 10.1016/j.scienta.2016.01.005
  1. Sotelo-Casas R.C., Cupul-Magaña A.L., Rodríguez-Zaragoza F.A., Solís-Marín F.A., Rodríguez-Troncoso A.P. (2016). Structural and environmental effects on an assemblage of echinoderms associated with a coral community. Marine Biodiversity. DOI: 10.1007/s12526-016-0622-y
  1. Hernández-Zulueta J., Rodríguez-Zaragoza F.A., Araya R., Vargas-Ponce O., Rodríguez-Troncoso A.P., Cupul-Magaña A.L., Díaz-Pérez L., Ríos-Jara E., Ortiz M. (2017). Multi-scale analysis of hermatypic coral assemblages at Mexican Central Pacific. Scientia Marina 81(1) March 2017. DOI: 10.3989/scimar.04371.12A
  1. Esqueda-González M.C., Ríos-Jara E., Galván-Villa C.M., Rodríguez-Zaragoza F.A. (2017).  Spatial analysis of bivalve mollusks diversity in Mazatlan Bay, Mexico. Marine Biodiversity DOI 10.1007/s12526-017-0703-6
  1. Ibarra-García E.C., Ortiz M., Ríos-Jara E., Cupul-Magaña A.L., Hernández-Flores Á., Rodríguez-Zaragoza F.A. (2017). The functional trophic role of whale shark (Rhincodon typus) in the northern Mexican Caribbean: network analysis and ecosystem development. Hydrobiologia 792: 121-135. DOI: 10.1007/s10750-016-3049-3
  1. Hernández-Zulueta J., Díaz-Pérez L., Araya R., Vargas-Ponce O., Rodríguez-Troncoso AP. Ríos-Jara E., Ortiz M., Rodríguez-Zaragoza F.A. (2017). Bacterial assemblages associated with coral species of the Mexican Central Pacific. Revista de Biología Marina y Oceanografía 52(2): 201-218. DOI 10.4067/S0718-19572017000200002
  1. Ortiz M., Hermosillo-Nuñez B., González J., Rodríguez-Zaragoza F., Gómez I., Jordán F. (2017). Quantifying keystone species complexes: Ecosystem-based conservation management in the King George Island (Antarctic Peninsula). Ecological Indicators 81: 453-460. DOI 10.1016/j.ecolind.2017.06.016
  1. Sánchez-Hernández A.S.,  Rosas-Espinoza V.C., Rodríguez-Zaragoza F.A. (2017). Canibalismo en Ctenosaura pectinata (Squamata: Iguanidae) en el Parque Nacional Isla Isabel, Nayarit, México. Acta Zoológica Mexicana 33(2): 385-387.
  1. Barrientos-Lujan N.A., López-Pérez A., Ríos-Jara E., Ahumada-Sempoal M.A., Ortiz M., Rodríguez-Zaragoza F.A. (2017). Ecological and functional diversity of gastropods associated with hermatypic corals of the Mexican tropical Pacific. Marine Biodiversity. DOI 10.1007/s12526-017-0780-6