Publicaciones

F. Vásquez-Ponce, S. Higuera-Llantén, J. Parás-Silva, N. Gamboa-Acuña, J. Cortés, A. Opazo-Capurro, J.A. Ugalde, M. Alcalde-Rico, J. Olivares-Pacheco (2022). Genetic characterization of clinically relevant class 1 integrons carried by multidrug resistant bacteria (MDRB) isolated from the gut microbiota of highly antibiotic treated Salmo salar. Journal of Global Antimicrobial Resistance.

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C.S. Toro, J.C. Salazar, D.A. Montero, J.A. Ugalde, J. Díaz, L.A. Cádiz, T. Henríquez, C. García, P. Díaz, R. Camponovo, G. Hermosilla, M.T. Ulloa (2022). Antimicrobial Resistance Dynamics in Chilean Shigella sonnei Strains Within Two Decades: Role of Shigella Resistance Locus Pathogenicity Island and Class 1 and Class 2 Integrons. Frontiers in Microbiology.

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F. Encinas, K. Soto-Liebe, C. Aguirre-Nuñez, B. González, W. Bustamante, A. Schueftan, J. Ugalde, C. Blondel, R. Truffello, P. Araya, C. Freed (2021). Covid-19 and city: Towards an integrated model of housing, microbiology, environment and urbanism [COVID-19 y ciudad: Hacia un modelo integrado de vivienda, microbiología, ambiente y urbanismo]. Architecture, City and Environment.

M. Moreno-Pino, J.A. Ugalde, J.H. Valdés, S. Rodríguez-Marconi, G. Parada-Pozo, N. Trefault (2021). Bacteria Isolated From the Antarctic Sponge Iophon sp. Reveals Mechanisms of Symbiosis in Sporosarcina, Cellulophaga, and Nesterenkonia. Frontiers in Microbiology.

R. Valencia, V. González, A. Undabarrena, L. Zamora-Leiva, J.A. Ugalde, B. Cámara (2021). An integrative bioinformatic analysis for keratinase detection in marine-derived streptomyces. Marine Drugs.

D. Danko, D. Bezdan, E.E. Afshin, S. Ahsanuddin, C. Bhattacharya, D.J. Butler, K.R. Chng, D. Donnellan, J. Hecht, K. Jackson, K. Kuchin, M. Karasikov, A. Lyons, L. Mak, D. Meleshko, H. Mustafa, B. Mutai, R.Y. Neches, A. Ng, O. Nikolayeva, T. Nikolayeva, E. Png, K.A. Ryon, J.L. Sanchez, H. Shaaban, M.A. Sierra, D. Thomas, B. Young, O.O. Abudayyeh, J. Alicea, M. Bhattacharyya, R. Blekhman, E. Castro-Nallar, A.M. Cañas, A.D. Chatziefthimiou, R.W. Crawford, F. De Filippis, Y. Deng, C. Desnues, E. Dias-Neto, M. Dybwad, E. Elhaik, D. Ercolini, A. Frolova, D. Gankin, J.S. Gootenberg, A.B. Graf, D.C. Green, I. Hajirasouliha, J.J.A. Hastings, M. Hernandez, G. Iraola, S. Jang, A. Kahles, F.J. Kelly, K. Knights, N.C. Kyrpides, P.P. Łabaj, P.K.H. Lee, M.H.Y. Leung, P.O. Ljungdahl, G. Mason-Buck, K. McGrath, C. Meydan, E.F. Mongodin, M.O. Moraes, N. Nagarajan, M. Nieto-Caballero, H. Noushmehr, M. Oliveira, S. Ossowski, O.O. Osuolale, O. Özcan, D. Paez-Espino, N. Rascovan, H. Richard, G. Rätsch, L.M. Schriml, T. Semmler, O.U. Sezerman, L. Shi, T. Shi, R. Siam, L.H. Song, H. Suzuki, D.S. Court, S.W. Tighe, X. Tong, K.I. Udekwu, J.A. Ugalde, B. Valentine, D.I. Vassilev, E.M. Vayndorf, T.P. Velavan, J. Wu, M.M. Zambrano, J. Zhu, S. Zhu, C.E. Mason, N. Abdullah, M. Abraao, A.-H. Adel, M. Afaq, F.S. Al-Quaddoomi, I. Alam, G.E. Albuquerque, A. Alexiev, K. Ali, S. Aly, J. Amachee, M.G. Amorim, M. Ampadu, M.A.-F. Amran, N. An, W. Andrew, H. Andrianjakarivony, M. Angelov, V. Antelo, C. Aquino, Á. Aranguren, L.F. Araujo, H.F. Vasquez Arevalo, J. Arevalo, C. Arnan, L.E. Alvarado Arnez, F. Arredondo, M. Arthur, F. Asenjo, T.S. Aung, J. Auvinet, N. Aventin, S. Ayaz, S. Baburyan, A.-M. Bakere, K. Bakhl, T.F. Bartelli, E. Batdelger, F. Baudon, K. Becher, C. Bello, M. Benchouaia, H. Benisty, A.-S. Benoiston, J. Benson, D. Benítez, J. Bernardes, D. Bertrand, S. Beurmann, T. Bitard-Feildel, L. Bittner, C. Black, G. Blanc, B. Blyther, T. Bode, J. Boeri, B. Boldgiv, K. Bolzli, A. Bordigoni, C. Borrelli, S. Bouchard, J.-P. Bouly, A. Boyd, G.P. Branco, A. Breschi, B. Brindefalk, C. Brion, A. Briones, P. Buczansla, C.M. Burke, A. Burrell, A. Butova, I. Buttar, J. Bynoe, S. Bönigk, K.O. Bøifot, H. Caballero, X.W. Cai, D. Calderon, A. Cantillo, M. Carbajo, A. Carbone, A. Cardenas, K. Carrillo, L. Casalot, S. Castro, A.V. Castro, A. Castro, A.V.B. Castro, S. Cawthorne, J. Cedillo, S. Chaker, J. Chalangal, A. Chan, A.I. Chasapi, S. Chatziefthimiou, S.R. Chaudhuri, A.K. Chavan, F. Chavez, G. Chem, X. Chen, M. Chen, J.-W. Chen, A. Chernomoretz, A. Chettouh, D. Cheung, D. Chicas, S. Chiu, H. Choudhry, C. Chrispin, K. Ciaramella, E. Cifuentes, J. Cohen, D.A. Coil, S. Collin, C. Conger, R. Conte, F. Corsi, C.N. Cossio, A.F. Costa, D. Cuebas, B. D'Alessandro, K.E. Dahlhausen, A.E. Darling, P. Das, L.B. Davenport, L. David, N.R. Davidson, G. Dayama, S. Delmas, C.K. Deng, C. Dequeker, A. Desert, M. Devi, F.S. Dezem, C.N. Dias, T.R. Donahoe, S. Dorado, L. Dorsey, V. Dotsenko, S. Du, A. Dutan, N. Eady, J.A. Eisen, M. Elaskandrany, L. Epping, J.P. Escalera-Antezana, C.L. Ettinger, I. Faiz, L. Fan, N. Farhat, E. Faure, F. Fauzi, C. Feigin, S. Felice, L.P. Ferreira, G. Figueroa, A. Fleiss, D. Flores, J.L. Velasco Flores, M.A.S. Fonseca, J. Foox, J.C. Forero, A. Francis, K. French, P. Fresia, J. Friedman, J.J. Fuentes, J. Galipon, M. Garcia, L. Garcia, C. García, A. Geiger, S.M. Gerner, S.L. Ghose, D.P. Giang, M. Giménez, D. Giovannelli, D. Githae, S. Gkotzis, L. Godoy, S. Goldman, G.H. Gonnet, J. Gonzalez, A. Gonzalez, C. Gonzalez-Poblete, A. Gray, T. Gregory, C. Greselle, S. Guasco, J. Guerra, N. Gurianova, W. Haehr, S. Halary, F. Hartkopf, A. Hawkins-Zafarnia, N.H. Hazrin-Chong, E. Helfrich, E. Hell, T. Henry, S. Hernandez, P.L. Hernandez, D. Hess-Homeier, L.E. Hittle, N.X. Hoan, A. Holik, C. Homma, I. Hoxie, M. Huber, E. Humphries, S. Hyland, A. Hässig, R. Häusler, N. Hüsser, R.A. Petit, B. Iderzorig, M. Igarashi, S.B. Iqbal, S. Ishikawa, S. Ishizuka, S. Islam, R. Islam, K. Ito, S. Ito, T. Ito, T. Ivankovic, T. Iwashiro, S. Jackson, J. Jacobs, M. James, M. Jaubert, M.-L. Jerier, E. Jiminez, A. Jinfessa, Y. De Jong, H.W. Joo, G. Jospin, T. Kajita, A.S. Ahmad Kassim, N. Kato, A. Kaur, I. Kaur, F. de Souza Gomes Kehdy, V.S. Khadka, S. Khan, M. Khavari, M. Ki, G. Kim, H.J. Kim, S. Kim, R.J. King, G. KoLoMonaco, E. Koag, N. Kobko-Litskevitch, M. Korshevniuk, M. Kozhar, J. Krebs, N. Kubota, A. Kuklin, S.S. Kumar, R. Kwong, L. Kwong, I. Lafontaine, J. Lago, T.Y. Lai, E. Laine, M. Laiola, O. Lakhneko, I. Lamba, G. de Lamotte, R. Lannes, E. De Lazzari, M. Leahy, H. Lee, Y. Lee, L. Lee, V. Lemaire, E. Leong, D. Lewandowska, C. Li, W. Liang, M. Lin, P. Lisboa, A. Litskevitch, E.M. Liu, T. Liu, M.A. Livia, Y.H. Lo, S. Losim, M. Loubens, J. Lu, O. Lykhenko, S. Lysakova, S. Mahmoud, S.A. Majid, N. Makogon, D. Maldonado, K. Mallari, T.M. Malta, M. Mamun, D. Manoir, G. Marchandon, N. Marciniak, S. Marinovic, B. Marques, N. Mathews, Y. Matsuzaki, V. Matthys, M. May, E. McComb, A. Meagher, A. Melamed, W. Menary, K.N. Mendez, A. Mendez, I.M. Mendy, I. Meng, A. Menon, M. Menor, R. Meoded, N. Merino, K. Miah, M. Mignotte, T. Miketic, W. Miranda, A. Mitsios, R. Miura, K. Miyake, M.D. Moccia, N. Mohan, M. Mohsin, K. Moitra, M. Moldes, L. Molina, J. Molinet, O.-E. Molomjamts, E. Moniruzzaman, S. Moon, I. de Oliveira Moraes, M. Moreno, M.S. Mosella, J.W. Moser, C. Mozsary, A.L. Muehlbauer, O. Muner, M. Munia, N. Munim, M. Muscat, T. Mustac, C. Muñoz, F. Nadalin, A. Naeem, D. Nagy-Szakal, M. Nakagawa, A. Narce, M. Nasu, I.G. Navarrete, H. Naveed, B. Nazario, N.R. Nedunuri, T. Neff, A. Nesimi, W.C. Ng, S. Ng, G. Nguyen, E. Ngwa, A. Nicolas, P. Nicolas, A. Nika, H. Noorzi, A. Nosrati, D.N. Nunes, K. O'Brien, N.B. O'Hara, G. Oken, R.A. Olawoyin, J.Q. Oliete, K. Olmeda, T. Oluwadare, I.A. Oluwadare, N. Ordioni, J. Orpilla, J. Orrego, M. Ortega, P. Osma, I.O. Osuolale, O.M. Osuolale, M. Ota, F. Oteri, Y. Oto, R. Ounit, C.A. Ouzounis, S. Pakrashi, R. Paras, C. Pardo-Este, Y.-J. Park, P. Pastuszek, S. Patel, J. Pathmanathan, A. Patrignani, M. Perez, A. Peros, S. Persaud, A. Peters, A. Phillips, L. Pineda, M.P. Pizzi, A. Plaku, B. Pompa-Hogan, M.G. Portilla, L. Posada, M. Priestman, B. Prithiviraj, S. Priya, P. Pugdeethosal, C.E. Pugh, B. Pulatov, A. Pupiec, K. Pyrshev, T. Qing, S. Rahiel, S. Rahmatulloev, K. Rajendran, A. Ramcharan, A. Ramirez-Rojas, S. Rana, P. Ratnanandan, T.D. Read, H. Rehrauer, R. Richer, A. Rivera, M. Rivera, A. Robertiello, C. Robinson, P. Rodríguez, N.A. Rojas, P. Roldán, A. Rosario, S. Roth, M. Ruiz, S.E. Boja Ruiz, K. Russell, M. Rybak, T.S. Sabedot, M. Sabina, I. Saito, Y. Saito, G.A. Malca Salas, C. Salazar, K.M. San, J. Sanchez, K. Sanchir, R. Sankar, P.T. de Souza Santos, Z. Saravi, K. Sasaki, Y. Sato, M. Sato, S. Sato, R. Sato, K. Sato, N. Sayara, S. Schaaf, O. Schacher, A.-L.M. Schinke, R. Schlapbach, C. Schori, J.R. Schriml, F. Segato, F. Sepulveda, M.S. Serpa, P.F. De Sessions, J.C. Severyn, M. Shakil, S. Shalaby, A. Shari, H. Shim, H. Shirahata, Y. Shiwa, O. Da Silva, J.M. Silva, G. Simon, S.K. Singh, K. Sluzek, R. Smith, E. So, N. Andreu Somavilla, Y. Sonohara, N. Rufino de Sousa, C. Souza, J. Sperry, N. Sprinsky, S.G. Stark, A. La Storia, K. Suganuma, H. Suliman, J. Sullivan, A.A.M. Supie, C. Suzuki, S. Takagi, F. Takahara, N. Takahashi, K. Takahashi, T. Takeda, I.K. Takenaka, S. Tanaka, A. Tang, Y. Man Tang, E. Tarcitano, A. Tassinari, M. Taye, A. Terrero, E. Thambiraja, A. Thiébaut, S. Thomas, A.M. Thomas, Y. Togashi, T. Togashi, A. Tomaselli, M. Tomita, I. Tomita, O. Toth, N.C. Toussaint, J.M. Tran, C. Truong, S.I. Tsonev, K. Tsuda, T. Tsurumaki, M. Tuz, Y. Tymoshenko, C. Urgiles, M. Usui, S. Vacant, L.E. Vann, F. Velter, V. Ventorino, P. Vera-Wolf, R. Vicedomini, M.A. Suarez-Villamil, S. Vincent, R. Vivancos-Koopman, A. Wan, C. Wang, T. Warashina, A. Watanabe, S. Weekes, J. Werner, D. Westfall, L.H. Wieler, M. Williams, S.A. Wolf, B. Wong, Y.L. Wong, T. Wong, R. Wright, T. Wunderlin, R. Yamanaka, J. Yang, H. Yano, G.C. Yeh, O. Yemets, T. Yeskova, S. Yoshikawa, L. Zafar, Y. Zhang, S. Zhang, A. Zhang, Y. Zheng, S. Zubenko (2021). A global metagenomic map of urban microbiomes and antimicrobial resistance. Cell.

R.L. Ortiz, F. Melis-Arcos, P.C. Covarrubias, J.A. Ugalde, Z.S. Apte, J. Pérez-Donoso, J.P. Cardenas, D.E. Almonacid (2020). Draft Genome Sequence of Blautia luti DSM 14534T, Isolated from Human Stool. Microbiology Resource Announcements.

L.M. Peoples, T.S. Kyaw, J.A. Ugalde, K.K. Mullane, R.A. Chastain, A.A. Yayanos, M. Kusube, B.A. Methé, D.H. Bartlett (2020). Distinctive gene and protein characteristics of extremely piezophilic Colwellia. BMC Genomics.

K.R. Chng, C. Li, D. Bertrand, A.H.Q. Ng, J.S. Kwah, H.M. Low, C. Tong, M. Natrajan, M.H. Zhang, L. Xu, K.K.K. Ko, E.X.P. Ho, T.V. Av-Shalom, J.W.P. Teo, C.C. Khor, S.L. Chen, C.E. Mason, O.T. Ng, K. Marimuthu, B. Ang, N. Nagarajan, D. Danko, D. Bezdan, E. Afshinnekoo, S. Ahsanuddin, C. Bhattacharya, D.J. Butler, F. De Filippis, J. Hecht, A. Kahles, M. Karasikov, N.C. Kyrpides, M.H.Y. Leung, D. Meleshko, H. Mustafa, B. Mutai, R.Y. Neches, A. Ng, M. Nieto-Caballero, O. Nikolayeva, T. Nikolayeva, E. Png, J.L. Sanchez, H. Shaaban, M.A. Sierra, X. Tong, B. Young, J. Alicea, M. Bhattacharyya, R. Blekhman, E. Castro-Nallar, A.M. Cañas, A.D. Chatziefthimiou, R.W. Crawford, Y. Deng, C. Desnues, E. Dias-Neto, D. Donnellan, M. Dybwad, E. Elhaik, D. Ercolini, A. Frolova, A.B. Graf, D.C. Green, I. Hajirasouliha, M. Hernandez, G. Iraola, S. Jang, A. Jones, F.J. Kelly, K. Knights, P.P. Labaj, P.K.H. Lee, L. Shawn, P. Ljungdahl, A. Lyons, G. Mason-Buck, K. McGrath, E.F. Mongodin, M.O. Moraes, H. Noushmehr, M. Oliveira, S. Ossowski, O.O. Osuolale, O. Özcan, D. Paez-Espino, N. Rascovan, H. Richard, G. Rätsch, L.M. Schriml, T. Semmler, O.U. Sezerman, L. Shi, L.H. Song, H. Suzuki, D.S. Court, D. Thomas, S.W. Tighe, K.I. Udekwu, J.A. Ugalde, B. Valentine, D.I. Vassilev, E. Vayndorf, T.P. Velavan, M.M. Zambrano, J. Zhu, S. Zhu (2020). Cartography of opportunistic pathogens and antibiotic resistance genes in a tertiary hospital environment. Nature Medicine.

A. Urrutia, V. García-Angulo, A. Fuentes, M. Caneo, M. Legüe, S. Urquiza, S.E. Delgado, J. Ugalde, P. Burdisso, A. Calixto (2020). Bacterially produced metabolites protect C. elegans neurons from degeneration. PLoS Biology.

R. Araos, T. Battaglia, J.A. Ugalde, M. Rojas-Herrera, M.J. Blaser, E.M.C. D'Agata (2019). Fecal microbiome characteristics and the resistome associated with acquisition of multidrug-resistant organisms among elderly subjects. Frontiers in Microbiology.

E.M. Bik, J.A. Ugalde, J. Cousins, A.D. Goddard, J. Richman, Z.S. Apte (2018). Microbial biotransformations in the human distal gut. British Journal of Pharmacology.

R. Araos, N. Andreatos, J. Ugalde, S. Mitchell, E. Mylonakis, E.M.C. D'Agata (2018). Fecal Microbiome Among Nursing Home Residents with Advanced Dementia and Clostridium difficile. Digestive Diseases and Sciences.

A.M. Plominsky, C. Henríquez-Castillo, N. Delherbe, S. Podell, S. Ramirez-Flandes, J.A. Ugalde, J.F. Santibañez, G. van den Engh, K. Hanselmann, O. Ulloa, R. De la Iglesia, E.E. Allen, N. Trefault (2018). Distinctive archaeal composition of an artisanal crystallizer pond and functional insights into salt-saturated hypersaline environment adaptation. Frontiers in Microbiology.

A. Undabarrena, F. Salvà-Serra, D. Jaén-Luchoro, E. Castro-Nallar, K.N. Mendez, R. Valencia, J.A. Ugalde, E.R.B. Moore, M. Seeger, B. Cámara (2018). Complete genome sequence of the marine Rhodococcus sp. H-CA8f isolated from Comau fjord in Northern Patagonia, Chile. Marine Genomics.

S. Fujio-Vejar, Y. Vasquez, P. Morales, F. Magne, P. Vera-Wolf, J.A. Ugalde, P. Navarrete, M. Gotteland (2017). The gut microbiota of healthy Chilean subjects reveals a high abundance of the phylum Verrucomicrobia. Frontiers in Microbiology.

N. Millán-Aguinãga, K.L. Chavarria, J.A. Ugalde, A.-C. Letzel, G.W. Rouse, P.R. Jensen (2017). Phylogenomic Insight into Salinispora (Bacteria, Actinobacteria) Species Designations. Scientific Reports.

R. Araos, V. Montgomery, J.A. Ugalde, G.M. Snyder, E.M.C. D'Agata (2017). Microbial Disruption Indices to Detect Colonization with Multidrug-Resistant Organisms. Infection Control and Hospital Epidemiology.

A. Undabarrena, J.A. Ugalde, M. Seeger, B. Cámara (2017). Genomic data mining of the marine actinobacteria Streptomyces sp. H-KF8 unveils insights into multi-stress related genes and metabolic pathways involved in antimicrobial synthesis. PeerJ.

A. Undabarrena, J.A. Ugalde, E. Castro-Nallar, M. Seeger, B. Cámara (2017). Genome sequence of streptomyces sp. H-KF8, a marine actinobacterium isolated from a northern chilean patagonian fjord. Genome Announcements.

P. Morales, S. Fujio, P. Navarrete, J.A. Ugalde, F. Magne, C. Carrasco-Pozo, K. Tralma, M. Quezada, C. Hurtado, N. Covarrubias, J. Brignardello, D. Henriquez, M. Gotteland (2016). Impact of Dietary Lipids on Colonic Function and Microbiota: An Experimental Approach Involving Orlistat-Induced Fat Malabsorption in Human Volunteers. Clinical and Translational Gastroenterology.

F. Asenjo, A. Olmos, P. Henríquez-Piskulich, V. Polanco, P. Aldea, J.A. Ugalde, A.N. Trombert (2016). Genome sequencing and analysis of the first complete genome of Lactobacillus kunkeei strain MP2, an Apis mellifera gut isolate. PeerJ.

X. Tang, J. Li, N. Millán-Aguinãga, J.J. Zhang, E.C. O'Neill, J.A. Ugalde, P.R. Jensen, S.M. Mantovani, B.S. Moore (2015). Identification of Thiotetronic Acid Antibiotic Biosynthetic Pathways by Target-directed Genome Mining. ACS Chemical Biology.

R. Rojas, C.D. Miranda, J. Romero, F. Asenjo, K. Valderrama, C. Segovia, J.A. Ugalde, J. Santander (2015). Genome sequence of Vibrio VPAP30, isolated from an episode of massive mortality of reared larvae of scallop Argopecten purpuratus. Genome Announcements.

L.J. Martin, R.I. Adams, A. Bateman, H.M. Bik, J. Hawks, S.M. Hird, D. Hughes, S.W. Kembel, K. Kinney, S.-O. Kolokotronis, G. Levy, C. McClain, J.F. Meadow, R.F. Medina, G. Mhuireach, C.S. Moreau, J. Munshi-South, L.M. Nichols, C. Palmer, L. Popova, C. Schal, M. Täubel, M. Trautwein, J.A. Ugalde, R.R. Dunn (2015). Evolution of the indoor biome. Trends in Ecology and Evolution.

S. Podell, J.B. Emerson, C.M. Jones, J.A. Ugalde, S. Welch, K.B. Heidelberg, J.F. Banfield, E.E. Allen (2014). Seasonal fluctuations in ionic concentrations drive microbial succession in a hypersaline lake community. ISME Journal.

F. Malfatti, V. Turk, T. Tinta, P. Mozetič, M. Manganelli, T.J. Samo, J.A. Ugalde, N. Kovač, M. Stefanelli, M. Antonioli, S. Fonda-Umani, P. Del Negro, B. Cataletto, A. Hozić, N. Ivošević DeNardis, V. Žutić, V. Svetličić, T. Mišić Radić, T. Radić, D. Fuks, F. Azam (2014). Microbial mechanisms coupling carbon and phosphorus cycles in phosphorus-limited northern Adriatic Sea. Science of the Total Environment.

C. Valenzuela, J.A. Ugalde, G.C. Mora, S. Álvarez, I. Contreras, C.A. Santiviago (2014). Draft Genome Sequence of Salmonella enterica Serovar Typhi Strain STH2370. Genome Announcements.

J.J. Kharbush, J.A. Ugalde, S.L. Hogle, E.E. Allen, L.I. Aluwihare (2014). Composite bacterial hopanoids and their microbial producers across oxygen gradients in the water column of the California current. Applied and Environmental Microbiology.

J.A. Ugalde, M.J. Gallardo, C. Belmar, P. Muñoz, N. Ruiz-Tagle, S. Ferrada-Fuentes, C. Espinoza, E.E. Allen, V.A. Gallardo (2013). Microbial Life in a Fjord: Metagenomic Analysis of a Microbial Mat in Chilean Patagonia. PLoS ONE.

J.A. Ugalde, P. Narasingarao, S. Kuo, S. Podell, E.E. Allen (2013). Draft genome sequence of \"Candidatus Halobonum tyrrellensis\" strain G22, isolated from the hypersaline waters of Lake Tyrrell, Australia. Genome Announcements.

J.J. Kharbush, J.A. Ugalde, S.L. Hogle, E.E. Allen, L.I. Aluwihare (2013). Composite bacterial hopanoids and their microbial producers across oxygen gradients in the water column of the California current. Applied and Environmental Microbiology.

S. Podell, J.A. Ugalde, P. Narasingarao, J.F. Banfield, K.B. Heidelberg, E.E. Allen (2013). Assembly-Driven Community Genomics of a Hypersaline Microbial Ecosystem. PLoS ONE.

P. Narasingarao, S. Podell, J.A. Ugalde, C. Brochier-Armanet, J.B. Emerson, J.J. Brocks, K.B. Heidelberg, J.F. Banfield, E.E. Allen (2012). De novo metagenomic assembly reveals abundant novel major lineage of Archaea in hypersaline microbial communities. ISME Journal.

J.A. Ugalde, S. Podell, P. Narasingarao, E.E. Allen (2011). Xenorhodopsins, an enigmatic new class of microbial rhodopsins horizontally transferred between archaea and bacteria. Biology Direct.

G. Levicán, J.A. Ugalde, N. Ehrenfeld, A. Maass, P. Parada (2008). Comparative genomic analysis of carbon and nitrogen assimilation mechanisms in three indigenous bioleaching bacteria: Predictions and validations. BMC Genomics.

M.V. Matz, Y.A. Labas, J. Ugalde (2005). Evolution of function and color in GFP-like proteins. Methods of Biochemical Analysis.

B.S.W. Chang, J.A. Ugalde, M.V. Matz (2005). Applications of ancestral protein reconstruction in understanding protein function: GFP-like proteins. Methods in Enzymology.

D.A. Shagin, E.V. Barsova, Y.G. Yanushevich, A.F. Fradkov, K.A. Lukyanov, Y.A. Labas, T.N. Semenova, J.A. Ugalde, A. Meyers, J.M. Nunez, E.A. Widder, S.A. Lukyanov, M.V. Matz (2004). GFP-like Proteins as Ubiquitous Metazoan Superfamily: Evolution of Functional Features and Structural Complexity. Molecular Biology and Evolution.

J.A. Ugalde, B.S.W. Chang, M.V. Matz (2004). Evolution of coral pigments recreated. Science.