The Gile Lab

Macher J-N, Coots NL, Poh Y-P, Girard E, Langerak A, Muñoz-Gómez S, Sinha S, Jirsová D, Vos R, Wissels R, Gile GH, Renema W, Wideman J. 2023. Single-cell genomics reveals the divergent mitochondrial genomes of Retaria (Foraminifera and Radiolaria). mBio, in press.

Noda S, Kitade O, Radek R, pTaerum SJ, uJasso-Selles DE, Takayanagi M, Radek R, Lo N, Ohkuma M, Gile GH. 2023. Molecular phylogeny of Spirotrichonymphea (Parabasalia) with emphasis on Spironympha, Spirotrichonympha, and three new genera Pseudospironympha, Nanospironympha, and Brugerollina. Journal of Eukaryotic Microbiology, in press.

Maciejowski W, Gile GH, Jerlström-Hultqvist J, Dacks JB. 2023. Ancient and pervasive expansion of adaptin-related vesicle coat machinery across Parabasalia. International Journal for Parasitology, in press.

Kassaye A, Getu E, Wakgari M, Goftishu M, Seid A, gMontoya SJ, Gile GH. 2021. Survey and identification of termites (Insecta, Isoptera) using morphological and molecular methods from eastern, central, and western Ethiopia. SINET: Ethiopian Journal of Science 44:193-204.

Gile GH, pTaerum SJ, uJasso-Selles DE, Sillam-Dussès D, Ohkuma M, Kitade O, Noda S. 2021. Molecular phylogenetic position of Microjoenia (Spirotrichonymphea: Parabasalia) from Reticulitermes and Hodotermopsis hosts. Protist 172:125836.

Gavelis GS, Gile GH, Leander BS. 2021. Convergent evolution of animal-like organelles across the tree of eukaryotes. In: Hall B, Moody S editors. Origin and Evolution of Metazoan Cell Types. CRC Press, doi:10.1201/b21831-3.

Finn DR, Maldonado J, De Martini F, Yu J, Penton CR, Fontenele RS, Schmidlin K, Kraberger S, Varsani A, Gile GH, Barker B, Kollath DR, Muenich RL, Herckes P, Fraser M, Garcia-Pichel F. 2021. Agricultural practices drive biological loads, seasonal patterns, and potential pathogens in the aerobiome of a mixed-use dryland. Science of the Total Environment 798:149239.

De Martini F, Coots N, Jasso-Selles DE, Garcia MD, Shevat J, Ravenscraft A, Stiblík P, Šobotník J, Sillam-Dussès D, Scheffrahn RH, Carrijo T, Gile GH. 2021. Biogeography and independent diversification in the protist symbiont community of Heterotermes tenuis. Frontiers in Ecology and Evolution 9:640625.

Velenovsky JF, Gile GH, Su N-Y, Chouvenc T. 2021. Dynamic protozoan abundance of Coptotermes kings and queens during the transition from biparental to alloparental care. Insectes Sociaux 68:33-40.

Taerum SJ, Jasso-Selles DE, Hileman JT, De Martini F, Mizumoto N, Gile GH. 2020. Spirotrichonymphea (Parabasalia) symbionts of the termite Paraneotermes simplicicornis. European Journal of Protistology 76:125742.

Jasso-Selles DE, De Martini F, Velenovsky JF, Mee ED, Hileman JT, Montoya SJ, Garcia MD, Su N-Y, Chouvenc T, Gile GH. 2020. The protist symbiont communities of Coptotermes formosanus and Coptotermes gestroi: Morphological and molecular characterization of five new species. Journal of Eukaryotic Microbiology 67:626-641.

Mizumoto N, Gile GH, Pratt SC. 2021. Behavioral rules for soil excavation by colony founders and workers in termites. Annals of the Entomological Society of America 114:654-661.

Mee ED, Gaylor MG, Jasso-Selles DE, Mizumoto N, Gile GH. 2020. Molecular phylogenetic position of Hoplonympha natator (Trichonymphea, Parabasalia): Horizontal symbiont transfer or differential loss? Journal of Eukaryotic Microbiology 67:268-272.

Crowther CV, Sanderlin V, Hayes MA, Gile GH. 2019. Effects of surface treatments on trapping with DC insulator-based dielectrophoresis. Analyst 144:7478-7488.

Piarowski CM, De Martini F, Gile GH. Distribution and relative abundance of three protist genera within the Zootermopsis nevadensis nuttingi hindgut. 2019. Symbiosis 79: 231-238.

Taerum SJ, Jasso-Selles DE, Wilson M, Ware JL, Sillam-Dussès D, Šobotník J, Gile GH. Molecular phylogenetic position of Holomastigotes (Spirotrichonymphea, Parabasalia) with descriptions of Holomastigotes flavipes n. sp. and Holomastigotes tibialis n. sp. 2019. Journal of Eukaryotic Microbiology 66:882-891.

Schmidlin K, Kraberger S, Fontenele RS, De Martini F, Chouvenc T, Gile GH, Varsani A. 2019. Genome sequences of microviruses associated with Coptotermes formosanus. Microbiology Resource Announcements 8:e00185-19.

Dorrell RG, Azuma T, Nomura M, Auren de Kerdrel G, Paoli L, Bowler C, Ishii K, Miyashita H, Gile GH, Kamikawa R. 2019. Principles of plastid reductive evolution illuminated by non-photosynthetic chrysophytes. PNAS 116:6914-6923.

Gavelis GS, Herranz M, Wakeman KC, Ripken C, Mitarai S, Gile GH, Keeling PJ, Leander BS. 2019. Dinoflagellate nucleus contains an extensive endomembrane network, the nuclear net. Scientific Reports 9:839.

Gavelis GS, Gile GH. 2018. How did cyanobacteria first embark on the path to becoming plastids?: Lessons from protist symbioses. FEMS Microbiology Letters 367:fny209.

Taerum SJ, De Martini F, Liebig JR, Gile GH. Incomplete co-cladogenesis between Zootermopsis termites and their associated protists. 2018. Environmental Entomology 47:184-195.

Čepička I, Dolan MF, Gile GH. 2017. Parabasalia. In: Handbook of Protists, Archibald JM, Simpson AGB, Slamovits CH eds. Springer, doi:10.1007/978-3-319-32669-6_9-1.

Jasso-Selles DE, De Martini F, Freeman KD, Garcia MD, Merrell TL, Scheffrahn RH, Gile GH. 2017. The parabasalid symbiont community of Heterotermes aureus: Molecular and morphological characterization and description of four new species and reestablishment of the genus Cononympha. European Journal of Protistology 61:48-63.

Gile GH, James ER, Tai V, Harper JT, Merrell TL, Boscaro V, Husník F, Scheffrahn RH, Keeling PJ. 2017. New species of Spirotrichonympha from Reticulitermes and the relationships among genera in Spirotrichonymphea (Parabasalia). Journal of Eukaryotic Microbiology, 65:159-169.

Dorrell RG, Gile GH, Méheust R, McCallum G, Klinger CM, Brillet-Guéguen L, Freeman KD, Richter DJ, Bapteste EP, Bowler C. 2017. Reconstruction of an ancestral plastid proteome reveals the origin and fate of complex plastid lineages. eLife 6:e23717.

Sierra R, Cañas-Duarte SJ, Burki F, Schwelm A, Fogelqvist J, Dixelius C, González-García LN, Gile GH, Slamovits CH, Klopp C, Restrepo S, Arzul I, and Pawlowski J. 2016. Evolutionary origins of rhizarian parasites. Molecular Biology and Evolution 33:980-983.

Gile GH, Moog D, Slamovits CH, Maier U-G, Archibald JM. 2015. Dual organellar targeting of aminoacyl-tRNA synthetases in diatoms and cryptophytes. Genome Biology and Evolution 7:1728-1742.

Gile GH, James ER, Okamoto N, Carpenter KJ, Scheffrahn RH, Keeling PJ. 2015. Molecular evidence for the polyphyly of Macrotrichomonas (Parabasalia: Cristamonadea) and a proposal for Macrotrichomonoides n. gen. Journal of Eukaryotic Microbiology 62:494-504.

Tai V, Gile GH, Pan J, James ER, Carpenter KJ, Scheffrahn RH, Keeling PJ. 2015. The phylogenetic position of Kofoidia loriculata (Parabasalia) and its implications for the evolution of the Cristamonadea. Journal of Eukaryotic Microbiology 62:255-259.

Gile GH and Slamovits CH. 2014. Transcriptomic analysis reveals evidence for a cryptic plastid in the colpodellid Voromonas pontica, a close relative of chromerids and apicomplexan parasites. PLoS ONE 9:e96258.

Gile GH†, Carpenter KJ†, James ER, Scheffrahn RH, and Keeling PJ. 2013. Morphology and molecular phylogeny of Staurojoenina mulleri sp. nov. (Trichonymphida, Parabasalia) from the hindgut of the kalotermitid Neotermes jouteli. Journal of Eukaryotic Microbiology 60:203-213. †Contributed equally.

Curtis BA, Tanifuji G, Burki F, Gruber A, Irimia M, Maruyama S, Arias MC, Ball SG, Gile GH, Hirakawa Y, Hopkins JF, Kuo A, Rensing SA, Schmutz J, Symeonidi A, Elias M, Eveleigh RJM, Herman EK, Klute MJ, Nakayama T, Oborník M, Reyes-Prieto A, Armbrust EV, Aves SJ, Beiko RG, Coutinho P, Dacks JB, Durnford DG, Fast NM, Green BR, Grisdale CJ, Hempel F, Henrissat B, Höppner MP, Ishida K-I, Kim E, Kořený L, Kroth PG, Liu Y, Malik S-B, Maier U-G, McRose D, Mock T, Neilson JAD, Onodera NT, Poole AM, Pritham EJ, Richards TA, Rocap G, Roy SW, Sarai C, Schaack S, Shirato S, Slamovits CH, Spencer DF, Suzuki S, Worden AZ, Zauner S, Barry K, Bell C, Bharti AK, Crow JA, Grimwood J, Kramer R, Lindquist E, Lucas S, Salamov S, McFadden GI, Lane CE, Keeling PJ, Gray MW, Grigoriev IV, Archibald JM. 2012. Algal genomes reveal evolutionary mosaicism and the fate of nucleomorphs. Nature 492:59-65.

Pawlowski J, Audic S, Adl S, Bass D, Belbahri L, Berney C, Bowser SS, Čepička I, Decelle J, Dunthorn M, Fiore-Donno A-M, Gile GH, Holzmann M, Jahn R, Jirků M, Keeling PJ, Kostka M, Kudryavtsev A, Lara E, Lukeš J, Mann DG, Mitchell EAD, Nitsche F, Romeralo M, Saunders GW, Simpson AGB, Smirnov AV, Spouge JL, Stern RF, Stoeck T, Zimmermann J, Schindel D, de Vargas C. 2012. CBOL Protist Working Group: Barcoding eukaryotic richness beyond the animal, plant and fungal kingdoms. PLoS Biology 10:e1001419.

Gile GH and Slamovits CH. 2012. Phylogenetic position of Lophomonas striata Bütschli (Parabasalia) from the hindgut of the cockroach Periplaneta americana. Protist 163:274-283.

Saldarriaga J†, Gile GH†, James ER, Horák A, Scheffrahn RH, and Keeling PJ. 2011. Morphology and molecular phylogeny of Pseudotrichonympha hertwigi and Pseudotrichonympha paulistana (Trichonymphea, Parabasalia) from neotropical rhinotermitids. Journal of Eukaryotic Microbiology 58:487-496. †Contributed equally.

Gile GH, James ER, Scheffrahn RH, Carpenter KJ, and Keeling PJ. 2011. Molecular and morphological analysis of the Calonymphidae with a description of Calonympha chia sp. nov., Snyderella kirbyi sp. nov., Snyderella swezyae sp. nov., and Snyderella yamini sp. nov. International Journal of Systematic and Evolutionary Microbiology 61:2547-2558.

Cocquyt E, Gile GH, Leliaert F, Verbruggen H, Keeling PJ, and De Clerck O. 2010. Complex phylogenetic distribution of a non-canonical code in green algae. BMC Evolutionary Biology 10:e327.

Hirakawa Y, Gile GH, Ota S, Keeling PJ, and Ishida K. 2010. Characterization of periplastid compartment targeting signals in chlorarachniophytes. Molecular Biology and Evolution 27:1538-1545.

Gile GH†, Stern RF†, James ER, and Keeling PJ. 2010. DNA barcoding of chlorarachniophytes using nucleomorph ITS sequences. Journal of Phycology 46:743-750. †Contributed equally.

Gile GH, Novis PM, Cragg DS, Zuccarello GC, and Keeling PJ. 2009. The distribution of EF-1α, EFL, and a non-canonical genetic code in the Ulvophyceae: Discrete genetic characters support a consistent phylogenetic framework. Journal of Eukaryotic Microbiology 56:367-372.

Harper JT, Gile GH, James ER, Carpenter KJ, and Keeling PJ. 2009. The inadequacy of morphological concepts for species and genus delineation in microbial eukaryotes: An example from the parabasalian termite symbiont, Coronympha. PLoS ONE 4:e6577.

Gile GH, Faktorová D, Castlejohn CA, Burger G, Lang BF, Farmer MA, Lukeš J, and Keeling PJ. 2009. Distribution and phylogeny of EF-1α and EFL in Euglenozoa suggest an ancient introduction of EFL followed by differential loss. PLoS ONE 4:e51162.

Gile GH and Keeling PJ. 2008. Nucleus-encoded periplastid-targeted EFL in chlorarachniophytes. Molecular Biology and Evolution 25:1967-1977.

Gile GH, Patron NJ, and Keeling PJ. 2006. EFL GTPase in cryptomonads and the distribution of EFL and EF-1α in chromalveolates. Protist 157:435-444.

Gould SB, Sommer MS, Kroth PG, Gile GH, Keeling PJ, and Maier UG. 2006. Nucleus-to-nucleus gene transfer and protein retargeting into a remnant cytoplasm of cryptophytes and diatoms. Molecular Biology and Evolution 23:2413-2422.