Genome of Acanthamoeba castellanii highlights extensive lateral gene transfer and early evolution of tyrosine kinase signaling

Clarke M, Lohan AJ, Liu B, Lagkouvardos I, Roy S, Zafar N, Bertelli C, Schilde C, Kianianmomeni A, Bürglin TR, Frech C, et al. (2013)
Genome biology 14(2): R11.

Download
Es wurde kein Volltext hochgeladen. Nur Publikationsnachweis!
Zeitschriftenaufsatz | Veröffentlicht | Englisch
Autor
; ; ; ; ; ; ; ; ; ; ;
Alle
Abstract / Bemerkung
BACKGROUND: The Amoebozoa constitute one of the primary divisions of eukaryotes, encompassing taxa of both biomedical and evolutionary importance, yet its genomic diversity remains largely unsampled. Here we present an analysis of a whole genome assembly of Acanthamoeba castellanii (Ac) the first representative from a solitary free-living amoebozoan. RESULTS: Ac encodes 15,455 compact intron-rich genes, a significant number of which are predicted to have arisen through inter-kingdom lateral gene transfer (LGT). A majority of the LGT candidates have undergone a substantial degree of intronization and Ac appears to have incorporated them into established transcriptional programs. Ac manifests a complex signaling and cell communication repertoire, including a complete tyrosine kinase signaling toolkit and a comparable diversity of predicted extracellular receptors to that found in the facultatively multicellular dictyostelids. An important environmental host of a diverse range of bacteria and viruses, Ac utilizes a diverse repertoire of predicted pattern recognition receptors, many with predicted orthologous functions in the innate immune systems of higher organisms. CONCLUSIONS: Our analysis highlights the important role of LGT in the biology of Ac and in the diversification of microbial eukaryotes. The early evolution of a key signaling facility implicated in the evolution of metazoan multicellularity strongly argues for its emergence early in the Unikont lineage. Overall, the availability of an Ac genome should aid in deciphering the biology of the Amoebozoa and facilitate functional genomic studies in this important model organism and environmental host.
Erscheinungsjahr
Zeitschriftentitel
Genome biology
Band
14
Ausgabe
2
Seite(n)
R11
ISSN
PUB-ID

Zitieren

Clarke M, Lohan AJ, Liu B, et al. Genome of Acanthamoeba castellanii highlights extensive lateral gene transfer and early evolution of tyrosine kinase signaling. Genome biology. 2013;14(2):R11.
Clarke, M., Lohan, A. J., Liu, B., Lagkouvardos, I., Roy, S., Zafar, N., Bertelli, C., et al. (2013). Genome of Acanthamoeba castellanii highlights extensive lateral gene transfer and early evolution of tyrosine kinase signaling. Genome biology, 14(2), R11. doi:10.1186/gb-2013-14-2-r11
Clarke, M., Lohan, A. J., Liu, B., Lagkouvardos, I., Roy, S., Zafar, N., Bertelli, C., Schilde, C., Kianianmomeni, A., Bürglin, T. R., et al. (2013). Genome of Acanthamoeba castellanii highlights extensive lateral gene transfer and early evolution of tyrosine kinase signaling. Genome biology 14, R11.
Clarke, M., et al., 2013. Genome of Acanthamoeba castellanii highlights extensive lateral gene transfer and early evolution of tyrosine kinase signaling. Genome biology, 14(2), p R11.
M. Clarke, et al., “Genome of Acanthamoeba castellanii highlights extensive lateral gene transfer and early evolution of tyrosine kinase signaling”, Genome biology, vol. 14, 2013, pp. R11.
Clarke, M., Lohan, A.J., Liu, B., Lagkouvardos, I., Roy, S., Zafar, N., Bertelli, C., Schilde, C., Kianianmomeni, A., Bürglin, T.R., Frech, C., Turcotte, B., Kopec, K.O., Synnott, J.M., Choo, C., Paponov, I., Finkler, A., Heng Tan, C.S., Hutchins, A.P., Weinmeier, T., Rattei, T., Chu, J.S.C., Gimenez, G., Irimia, M., Rigden, D.J., Fitzpatrick, D.A., Lorenzo-Morales, J., Bateman, A., Chiu, C.-H., Tang, P., Hegemann, P., Fromm, H., Raoult, D., Greub, G., Miranda-Saavedra, D., Chen, N., Nash, P., Ginger, M.L., Horn, M., Schaap, P., Caler, L., Loftus, B.J.: Genome of Acanthamoeba castellanii highlights extensive lateral gene transfer and early evolution of tyrosine kinase signaling. Genome biology. 14, R11 (2013).
Clarke, Michael, Lohan, Amanda J, Liu, Bernard, Lagkouvardos, Ilias, Roy, Scott, Zafar, Nikhat, Bertelli, Claire, Schilde, Christina, Kianianmomeni, Arash, Bürglin, Thomas R, Frech, Christian, Turcotte, Bernard, Kopec, Klaus O, Synnott, John M, Choo, Caleb, Paponov, Ivan, Finkler, Aliza, Heng Tan, Chris Soon, Hutchins, Andrew P, Weinmeier, Thomas, Rattei, Thomas, Chu, Jeffery S C, Gimenez, Gregory, Irimia, Manuel, Rigden, Daniel J, Fitzpatrick, David A, Lorenzo-Morales, Jacob, Bateman, Alex, Chiu, Cheng-Hsun, Tang, Petrus, Hegemann, Peter, Fromm, Hillel, Raoult, Didier, Greub, Gilbert, Miranda-Saavedra, Diego, Chen, Nansheng, Nash, Piers, Ginger, Michael L, Horn, Matthias, Schaap, Pauline, Caler, Lis, and Loftus, Brendan J. “Genome of Acanthamoeba castellanii highlights extensive lateral gene transfer and early evolution of tyrosine kinase signaling”. Genome biology 14.2 (2013): R11.

112 Zitationen in Europe PMC

Daten bereitgestellt von Europe PubMed Central.

Diversity and Evolution of Sensor Histidine Kinases in Eukaryotes.
Kabbara S, Hérivaux A, Dugé de Bernonville T, Courdavault V, Clastre M, Gastebois A, Osman M, Hamze M, Cock JM, Schaap P, Papon N., Genome Biol Evol 11(1), 2019
PMID: 30252070
Reticulate evolution in eukaryotes: Origin and evolution of the nitrate assimilation pathway.
Ocaña-Pallarès E, Najle SR, Scazzocchio C, Ruiz-Trillo I., PLoS Genet 15(2), 2019
PMID: 30789903
Sequencing the Obligate Intracellular Rhabdochlamydia helvetica within Its Tick Host Ixodes ricinus to Investigate Their Symbiotic Relationship.
Pillonel T, Bertelli C, Aeby S, de Barsy M, Jacquier N, Kebbi-Beghdadi C, Mueller L, Vouga M, Greub G., Genome Biol Evol 11(4), 2019
PMID: 30949677
Symbiont-Mediated Defense against Legionella pneumophila in Amoebae.
König L, Wentrup C, Schulz F, Wascher F, Escola S, Swanson MS, Buchrieser C, Horn M., MBio 10(3), 2019
PMID: 31088922
The genome sequence of the soft-rot fungus Penicillium purpurogenum reveals a high gene dosage for lignocellulolytic enzymes.
Mardones W, Di Genova A, Cortés MP, Travisany D, Maass A, Eyzaguirre J., Mycology 9(1), 2018
PMID: 30123662
Yersinia pestis Survival and Replication in Potential Ameba Reservoir.
Markman DW, Antolin MF, Bowen RA, Wheat WH, Woods M, Gonzalez-Juarrero M, Jackson M., Emerg Infect Dis 24(2), 2018
PMID: 29350155
Multiple Roots of Fruiting Body Formation in Amoebozoa.
Hillmann F, Forbes G, Novohradská S, Ferling I, Riege K, Groth M, Westermann M, Marz M, Spaller T, Winckler T, Schaap P, Glöckner G., Genome Biol Evol 10(2), 2018
PMID: 29378020
Environmental adaptation of Acanthamoeba castellanii and Entamoeba histolytica at genome level as seen by comparative genomic analysis.
Shabardina V, Kischka T, Kmita H, Suzuki Y, Makałowski W., Int J Biol Sci 14(3), 2018
PMID: 29559848
Acanthamoeba and Dictyostelium as Cellular Models for Legionella Infection.
Swart AL, Harrison CF, Eichinger L, Steinert M, Hilbi H., Front Cell Infect Microbiol 8(), 2018
PMID: 29552544
Diversity and evolution of the emerging Pandoraviridae family.
Legendre M, Fabre E, Poirot O, Jeudy S, Lartigue A, Alempic JM, Beucher L, Philippe N, Bertaux L, Christo-Foroux E, Labadie K, Couté Y, Abergel C, Claverie JM., Nat Commun 9(1), 2018
PMID: 29891839
Structural and functional studies of histidine biosynthesis in Acanthamoeba spp. demonstrates a novel molecular arrangement and target for antimicrobials.
Rice CA, Campbell SJ, Bisson C, Owen HJ, Sedelnikova SE, Baker PJ, Rice DW, Henriquez FL, Roberts CW., PLoS One 13(7), 2018
PMID: 29969448
A Phylogenomic Study of Acanthamoeba polyphaga Draft Genome Sequences Suggests Genetic Exchanges With Giant Viruses.
Chelkha N, Levasseur A, Pontarotti P, Raoult D, Scola B, Colson P., Front Microbiol 9(), 2018
PMID: 30237791
Applications of Invertebrate Animal Models to Dimorphic Fungal Infections.
Singulani JL, Scorzoni L, de Oliveira HC, Marcos CM, Assato PA, Fusco-Almeida AM, Mendes-Giannini MJS., J Fungi (Basel) 4(4), 2018
PMID: 30347646
Identification and characterization of a large family of superbinding bacterial SH2 domains.
Kaneko T, Stogios PJ, Ruan X, Voss C, Evdokimova E, Skarina T, Chung A, Liu X, Li L, Savchenko A, Ensminger AW, Li SS., Nat Commun 9(1), 2018
PMID: 30382091
Common ancestry of heterodimerizing TALE homeobox transcription factors across Metazoa and Archaeplastida.
Joo S, Wang MH, Lui G, Lee J, Barnas A, Kim E, Sudek S, Worden AZ, Lee JH., BMC Biol 16(1), 2018
PMID: 30396330
A Mutation in the Mesorhizobium loti oatB Gene Alters the Physicochemical Properties of the Bacterial Cell Wall and Reduces Survival inside Acanthamoeba castellanii.
Karaś MA, Turska-Szewczuk A, Marczak M, Jaszek M, Janczarek M, Dworaczek K, Stefaniuk D, Wydrych J., Int J Mol Sci 19(11), 2018
PMID: 30413017
The Protozoan Trichomonas vaginalis Targets Bacteria with Laterally Acquired NlpC/P60 Peptidoglycan Hydrolases.
Pinheiro J, Biboy J, Vollmer W, Hirt RP, Keown JR, Artuyants A, Black MM, Goldstone DC, Simoes-Barbosa A., MBio 9(6), 2018
PMID: 30538181
Therapeutic agents and biocides for ocular infections by free-living amoebae of Acanthamoeba genus.
Carrijo-Carvalho LC, Sant'ana VP, Foronda AS, de Freitas D, de Souza Carvalho FR., Surv Ophthalmol 62(2), 2017
PMID: 27836717
Killing of diverse eye pathogens (Acanthamoeba spp., Fusarium solani, and Chlamydia trachomatis) with alcohols.
Aqeel Y, Rodriguez R, Chatterjee A, Ingalls RR, Samuelson J., PLoS Negl Trop Dis 11(2), 2017
PMID: 28182670
Aberrant splicing in maize rough endosperm3 reveals a conserved role for U12 splicing in eukaryotic multicellular development.
Gault CM, Martin F, Mei W, Bai F, Black JB, Barbazuk WB, Settles AM., Proc Natl Acad Sci U S A 114(11), 2017
PMID: 28242684
Apoptosis in Acanthamoeba castellanii belonging to the T4 genotype.
Baig AM, Lalani S, Khan NA., J Basic Microbiol 57(7), 2017
PMID: 28466971
Targeted disruption of the polyketide synthase gene pks15 affects virulence against insects and phagocytic survival in the fungus Beauveria bassiana.
Toopaang W, Phonghanpot S, Punya J, Panyasiri C, Klamchao K, Wasuwan R, Srisuksam C, Sangsrakru D, Sonthirod C, Tangphatsornruang S, Tanticharoen M, Amnuaykanjanasin A., Fungal Biol 121(8), 2017
PMID: 28705395
Biphasic Metabolism and Host Interaction of a Chlamydial Symbiont.
König L, Siegl A, Penz T, Haider S, Wentrup C, Polzin J, Mann E, Schmitz-Esser S, Domman D, Horn M., mSystems 2(3), 2017
PMID: 28593198
Phosphotyrosine signalling and the origin of animal multicellularity.
Tong K, Wang Y, Su Z., Proc Biol Sci 284(1860), 2017
PMID: 28768887
Cedratvirus lausannensis - digging into Pithoviridae diversity.
Bertelli C, Mueller L, Thomas V, Pillonel T, Jacquier N, Greub G., Environ Microbiol 19(10), 2017
PMID: 28618143
Characterisation of sterol biosynthesis and validation of 14α-demethylase as a drug target in Acanthamoeba.
Thomson S, Rice CA, Zhang T, Edrada-Ebel R, Henriquez FL, Roberts CW., Sci Rep 7(1), 2017
PMID: 28811501
On the origin of biological construction, with a focus on multicellularity.
van Gestel J, Tarnita CE., Proc Natl Acad Sci U S A 114(42), 2017
PMID: 28973893
The Investigation of Promoter Sequences of Marseilleviruses Highlights a Remarkable Abundance of the AAATATTT Motif in Intergenic Regions.
Oliveira GP, Lima MT, Arantes TS, Assis FL, Rodrigues RAL, da Fonseca FG, Bonjardim CA, Kroon EG, Colson P, La Scola B, Abrahão JS., J Virol 91(21), 2017
PMID: 28794030
The emerging picture of the mitochondrial protein import complexes of Amoebozoa supergroup.
Wojtkowska M, Buczek D, Suzuki Y, Shabardina V, Makałowski W, Kmita H., BMC Genomics 18(1), 2017
PMID: 29284403
Homeodomain proteins: an update.
Bürglin TR, Affolter M., Chromosoma 125(3), 2016
PMID: 26464018
Protein import complexes in the mitochondrial outer membrane of Amoebozoa representatives.
Buczek D, Wojtkowska M, Suzuki Y, Sonobe S, Nishigami Y, Antoniewicz M, Kmita H, Makałowski W., BMC Genomics 17(), 2016
PMID: 26852331
Aerobic mitochondria of parasitic protists: Diverse genomes and complex functions.
Zíková A, Hampl V, Paris Z, Týč J, Lukeš J., Mol Biochem Parasitol 209(1-2), 2016
PMID: 26906976
Choanoflagellate models - Monosiga brevicollis and Salpingoeca rosetta.
Hoffmeyer TT, Burkhardt P., Curr Opin Genet Dev 39(), 2016
PMID: 27318693
The multicellularity genes of dictyostelid social amoebas.
Glöckner G, Lawal HM, Felder M, Singh R, Singer G, Weijer CJ, Schaap P., Nat Commun 7(), 2016
PMID: 27357338
Identification of Atg8 from Acanthamoeba castellanii by genetic complementation in Saccharomyces cerevisiae.
Régnacq M, Voisin P, Héchard Y, Bergès T, Braquart-Varnier C, Samba-Louaka A., Mol Biochem Parasitol 210(1-2), 2016
PMID: 27585717
Evolutionary analyses of mitochondrial carrier family of dictyostelids.
Gong M, Zhu Q, Tan Q., Springerplus 5(1), 2016
PMID: 27652040
Acanthamoeba and Dictyostelium Use Different Foraging Strategies.
Kuburich NA, Adhikari N, Hadwiger JA., Protist 167(6), 2016
PMID: 27693864
The Development of Drugs against Acanthamoeba Infections.
Siddiqui R, Aqeel Y, Khan NA., Antimicrob Agents Chemother 60(11), 2016
PMID: 27600042
Legionella pneumophila prevents proliferation of its natural host Acanthamoeba castellanii.
Mengue L, Régnacq M, Aucher W, Portier E, Héchard Y, Samba-Louaka A., Sci Rep 6(), 2016
PMID: 27805070
A set of genes conserved in sequence and expression traces back the establishment of multicellularity in social amoebae.
Schilde C, Lawal HM, Noegel AA, Eichinger L, Schaap P, Glöckner G., BMC Genomics 17(1), 2016
PMID: 27814692
Expansion of the molecular and morphological diversity of Acanthamoebidae (Centramoebida, Amoebozoa) and identification of a novel life cycle type within the group.
Tice AK, Shadwick LL, Fiore-Donno AM, Geisen S, Kang S, Schuler GA, Spiegel FW, Wilkinson KA, Bonkowski M, Dumack K, Lahr DJ, Voelcker E, Clauß S, Zhang J, Brown MW., Biol Direct 11(1), 2016
PMID: 28031045
Testing whether metazoan tyrosine loss was driven by selection against promiscuous phosphorylation.
Pandya S, Struck TJ, Mannakee BK, Paniscus M, Gutenkunst RN., Mol Biol Evol 32(1), 2015
PMID: 25312910
Conserved features and major differences in the outer membrane protein composition of chlamydiae.
Aistleitner K, Anrather D, Schott T, Klose J, Bright M, Ammerer G, Horn M., Environ Microbiol 17(4), 2015
PMID: 25212454
Lateral gene transfers and the origins of the eukaryote proteome: a view from microbial parasites.
Hirt RP, Alsmark C, Embley TM., Curr Opin Microbiol 23(), 2015
PMID: 25483352
The Acanthamoeba shikimate pathway has a unique molecular arrangement and is essential for aromatic amino acid biosynthesis.
Henriquez FL, Campbell SJ, Sundararaj BK, Cano A, Muench SP, Roberts CW., Protist 166(1), 2015
PMID: 25576842
Intranuclear bacteria: inside the cellular control center of eukaryotes.
Schulz F, Horn M., Trends Cell Biol 25(6), 2015
PMID: 25680230
An update on Acanthamoeba keratitis: diagnosis, pathogenesis and treatment.
Lorenzo-Morales J, Khan NA, Walochnik J., Parasite 22(), 2015
PMID: 25687209
The evolution of WRKY transcription factors.
Rinerson CI, Rabara RC, Tripathi P, Shen QJ, Rushton PJ., BMC Plant Biol 15(), 2015
PMID: 25849216
Statins and voriconazole induce programmed cell death in Acanthamoeba castellanii.
Martín-Navarro CM, López-Arencibia A, Sifaoui I, Reyes-Batlle M, Valladares B, Martínez-Carretero E, Piñero JE, Maciver SK, Lorenzo-Morales J., Antimicrob Agents Chemother 59(5), 2015
PMID: 25733513
Growth and Survival of Mesorhizobium loti Inside Acanthamoeba Enhanced Its Ability to Develop More Nodules on Lotus corniculatus.
Karaś MA, Turska-Szewczuk A, Trapska D, Urbanik-Sypniewska T., Microb Ecol 70(2), 2015
PMID: 25779926
Is there evidence of sexual reproduction (meiosis) in Acanthamoeba?
Khan NA, Siddiqui R., Pathog Glob Health 109(4), 2015
PMID: 25800982
Neurofibromin controls macropinocytosis and phagocytosis in Dictyostelium.
Bloomfield G, Traynor D, Sander SP, Veltman DM, Pachebat JA, Kay RR., Elife 4(), 2015
PMID: 25815683
Origin and evolution of lysyl oxidases.
Grau-Bové X, Ruiz-Trillo I, Rodriguez-Pascual F., Sci Rep 5(), 2015
PMID: 26024311
Identification of Paenibacillus as a Symbiont in Acanthamoeba.
Maschio VJ, Corção G, Bücker F, Caumo K, Rott MB., Curr Microbiol 71(3), 2015
PMID: 26159775
KLF/SP Transcription Factor Family Evolution: Expansion, Diversification, and Innovation in Eukaryotes.
Presnell JS, Schnitzler CE, Browne WE., Genome Biol Evol 7(8), 2015
PMID: 26232396
Evidence of ancient genome reduction in red algae (Rhodophyta)
Qiu H, Price DC, Yang EC, Yoon HS, Bhattacharya D, Valentin K., J Phycol 51(4), 2015
PMID: IND603566554
The Evolution of Aggregative Multicellularity and Cell-Cell Communication in the Dictyostelia.
Du Q, Kawabe Y, Schilde C, Chen ZH, Schaap P., J Mol Biol 427(23), 2015
PMID: 26284972
The TALE face of Hox proteins in animal evolution.
Merabet S, Galliot B., Front Genet 6(), 2015
PMID: 26347770
In-depth study of Mollivirus sibericum, a new 30,000-y-old giant virus infecting Acanthamoeba.
Legendre M, Lartigue A, Bertaux L, Jeudy S, Bartoli J, Lescot M, Alempic JM, Ramus C, Bruley C, Labadie K, Shmakova L, Rivkina E, Couté Y, Abergel C, Claverie JM., Proc Natl Acad Sci U S A 112(38), 2015
PMID: 26351664
The Physarum polycephalum Genome Reveals Extensive Use of Prokaryotic Two-Component and Metazoan-Type Tyrosine Kinase Signaling.
Schaap P, Barrantes I, Minx P, Sasaki N, Anderson RW, Bénard M, Biggar KK, Buchler NE, Bundschuh R, Chen X, Fronick C, Fulton L, Golderer G, Jahn N, Knoop V, Landweber LF, Maric C, Miller D, Noegel AA, Peace R, Pierron G, Sasaki T, Schallenberg-Rüdinger M, Schleicher M, Singh R, Spaller T, Storey KB, Suzuki T, Tomlinson C, Tyson JJ, Warren WC, Werner ER, Werner-Felmayer G, Wilson RK, Winckler T, Gott JM, Glöckner G, Marwan W., Genome Biol Evol 8(1), 2015
PMID: 26615215
Interactions in the microbiome: communities of organisms and communities of genes.
Boon E, Meehan CJ, Whidden C, Wong DH, Langille MG, Beiko RG., FEMS Microbiol Rev 38(1), 2014
PMID: 23909933
The cyclic AMP phosphodiesterase RegA critically regulates encystation in social and pathogenic amoebas.
Du Q, Schilde C, Birgersson E, Chen ZH, McElroy S, Schaap P., Cell Signal 26(2), 2014
PMID: 24184654
Tracing the primordial Chlamydiae: extinct parasites of plants?
Subtil A, Collingro A, Horn M., Trends Plant Sci 19(1), 2014
PMID: 24210739
Earliest Holozoan expansion of phosphotyrosine signaling.
Suga H, Torruella G, Burger G, Brown MW, Ruiz-Trillo I., Mol Biol Evol 31(3), 2014
PMID: 24307687
The genome of the foraminiferan Reticulomyxa filosa.
Glöckner G, Hülsmann N, Schleicher M, Noegel AA, Eichinger L, Gallinger C, Pawlowski J, Sierra R, Euteneuer U, Pillet L, Moustafa A, Platzer M, Groth M, Szafranski K, Schliwa M., Curr Biol 24(1), 2014
PMID: 24332546
The natural alternative: protozoa as cellular models for Legionella infection.
Hoffmann C, Harrison CF, Hilbi H., Cell Microbiol 16(1), 2014
PMID: 24168696
Predator vs aliens: bacteria interactions with Acanthamoeba.
Khan NA, Siddiqui R., Parasitology 141(7), 2014
PMID: 24512693
Survival of taylorellae in the environmental amoeba Acanthamoeba castellanii.
Allombert J, Vianney A, Laugier C, Petry S, Hébert L., BMC Microbiol 14(), 2014
PMID: 24641089
Encystment in Acanthamoeba castellanii: a review.
Lloyd D., Exp Parasitol 145 Suppl(), 2014
PMID: 24726698
Origin of spliceosomal introns and alternative splicing.
Irimia M, Roy SW., Cold Spring Harb Perspect Biol 6(6), 2014
PMID: 24890509
Amino Acid Uptake and Metabolism of Legionella pneumophila Hosted by Acanthamoeba castellanii.
Schunder E, Gillmaier N, Kutzner E, Eisenreich W, Herrmann V, Lautner M, Heuner K., J Biol Chem 289(30), 2014
PMID: 24904060
External NAD(P)H dehydrogenases in Acanthamoeba castellanii mitochondria.
Antos-Krzeminska N, Jarmuszkiewicz W., Protist 165(5), 2014
PMID: 25113830
Proteomic profiling of the infective trophozoite stage of Acanthamoeba polyphaga.
Caumo KS, Monteiro KM, Ott TR, Maschio VJ, Wagner G, Ferreira HB, Rott MB., Acta Trop 140(), 2014
PMID: 25149354
Two Dictyostelium tyrosine kinase-like kinases function in parallel, stress-induced STAT activation pathways.
Araki T, Vu LH, Sasaki N, Kawata T, Eichinger L, Williams JG., Mol Biol Cell 25(20), 2014
PMID: 25143406
Missing genes, multiple ORFs, and C-to-U type RNA editing in Acrasis kona (Heterolobosea, Excavata) mitochondrial DNA.
Fu CJ, Sheikh S, Miao W, Andersson SG, Baldauf SL., Genome Biol Evol 6(9), 2014
PMID: 25146648
Complex patterns of gene fission in the eukaryotic folate biosynthesis pathway.
Maguire F, Henriquez FL, Leonard G, Dacks JB, Brown MW, Richards TA., Genome Biol Evol 6(10), 2014
PMID: 25252772
Acanthamoeba castellanii STAT protein.
Kicinska A, Leluk J, Jarmuszkiewicz W., PLoS One 9(10), 2014
PMID: 25338074
The genomic and cellular foundations of animal origins.
Richter DJ, King N., Annu Rev Genet 47(), 2013
PMID: 24050174
Analysis of phenotypic evolution in Dictyostelia highlights developmental plasticity as a likely consequence of colonial multicellularity.
Romeralo M, Skiba A, Gonzalez-Voyer A, Schilde C, Lawal H, Kedziora S, Cavender JC, Glöckner G, Urushihara H, Schaap P., Proc Biol Sci 280(1764), 2013
PMID: 23782883
Pandoraviruses: amoeba viruses with genomes up to 2.5 Mb reaching that of parasitic eukaryotes.
Philippe N, Legendre M, Doutre G, Couté Y, Poirot O, Lescot M, Arslan D, Seltzer V, Bertaux L, Bruley C, Garin J, Claverie JM, Abergel C., Science 341(6143), 2013
PMID: 23869018
A survey of PPR proteins identifies DYW domains like those of land plant RNA editing factors in diverse eukaryotes.
Schallenberg-Rüdinger M, Lenz H, Polsakiewicz M, Gott JM, Knoop V., RNA Biol 10(9), 2013
PMID: 23899506
Bacterial killing in macrophages and amoeba: do they all use a brass dagger?
German N, Doyscher D, Rensing C., Future Microbiol 8(10), 2013
PMID: 24059917
Strategies to discover the structural components of cyst and oocyst walls.
Samuelson J, Bushkin GG, Chatterjee A, Robbins PW., Eukaryot Cell 12(12), 2013
PMID: 24096907
Transcription factor evolution in eukaryotes and the assembly of the regulatory toolkit in multicellular lineages.
de Mendoza A, Sebé-Pedrós A, Šestak MS, Matejcic M, Torruella G, Domazet-Loso T, Ruiz-Trillo I., Proc Natl Acad Sci U S A 110(50), 2013
PMID: 24277850

113 References

Daten bereitgestellt von Europe PubMed Central.

Ecology of Acanthamoeba.
De Jonckheere JF., Rev. Infect. Dis. 13 Suppl 5(), 1991
PMID: 2047667
Soil amoebae rapidly change bacterial community composition in the rhizosphere of Arabidopsis thaliana.
Rosenberg K, Bertaux J, Krome K, Hartmann A, Scheu S, Bonkowski M., ISME J 3(6), 2009
PMID: 19242534
Health effects of Acanthamoeba spp. and its potential for waterborne transmission.
Nwachuku N, Gerba CP., Rev Environ Contam Toxicol 180(), 2004
PMID: 14561077
Free-living amoebae and their intracellular pathogenic microorganisms: risks for water quality.
AUTHOR UNKNOWN, 2009
Bacterial endosymbionts of free-living amoebae.
Horn M, Wagner M., J. Eukaryot. Microbiol. 51(5), 2004
PMID: 15537084
Chlamydiae as symbionts in eukaryotes.
Horn M., Annu. Rev. Microbiol. 62(), 2008
PMID: 18473699
Microorganisms resistant to free-living amoebae.
Greub G, Raoult D., Clin. Microbiol. Rev. 17(2), 2004
PMID: 15084508
Amoebae as training grounds for intracellular bacterial pathogens.
Molmeret M, Horn M, Wagner M, Santic M, Abu Kwaik Y., Appl. Environ. Microbiol. 71(1), 2005
PMID: 15640165
Free-living amoebae, a training field for macrophage resistance of mycobacteria.
Salah IB, Ghigo E, Drancourt M., Clin. Microbiol. Infect. 15(10), 2009
PMID: 19845701
Free-living amoebae protecting Legionella in water: the tip of an iceberg?
Winiecka-Krusnell J, Linder E., Scand. J. Infect. Dis. 31(4), 1999
PMID: 10528878
[Dictyostelium discoideum: a model for the study of bacterial virulence].
Dallaire-Dufresne S, Paquet VE, Charette SJ., Can. J. Microbiol. 57(9), 2011
PMID: 21877947
Acanthamoeba-bacteria: a model to study host interaction with human pathogens.
Sandstrom G, Saeed A, Abd H., Curr Drug Targets 12(7), 2011
PMID: 21366523
The genome of the social amoeba Dictyostelium discoideum.
Eichinger L, Pachebat JA, Glockner G, Rajandream MA, Sucgang R, Berriman M, Song J, Olsen R, Szafranski K, Xu Q, Tunggal B, Kummerfeld S, Madera M, Konfortov BA, Rivero F, Bankier AT, Lehmann R, Hamlin N, Davies R, Gaudet P, Fey P, Pilcher K, Chen G, Saunders D, Sodergren E, Davis P, Kerhornou A, Nie X, Hall N, Anjard C, Hemphill L, Bason N, Farbrother P, Desany B, Just E, Morio T, Rost R, Churcher C, Cooper J, Haydock S, van Driessche N, Cronin A, Goodhead I, Muzny D, Mourier T, Pain A, Lu M, Harper D, Lindsay R, Hauser H, James K, Quiles M, Madan Babu M, Saito T, Buchrieser C, Wardroper A, Felder M, Thangavelu M, Johnson D, Knights A, Loulseged H, Mungall K, Oliver K, Price C, Quail MA, Urushihara H, Hernandez J, Rabbinowitsch E, Steffen D, Sanders M, Ma J, Kohara Y, Sharp S, Simmonds M, Spiegler S, Tivey A, Sugano S, White B, Walker D, Woodward J, Winckler T, Tanaka Y, Shaulsky G, Schleicher M, Weinstock G, Rosenthal A, Cox EC, Chisholm RL, Gibbs R, Loomis WF, Platzer M, Kay RR, Williams J, Dear PH, Noegel AA, Barrell B, Kuspa A., Nature 435(7038), 2005
PMID: 15875012
The genome of the protist parasite Entamoeba histolytica.
Loftus B, Anderson I, Davies R, Alsmark UC, Samuelson J, Amedeo P, Roncaglia P, Berriman M, Hirt RP, Mann BJ, Nozaki T, Suh B, Pop M, Duchene M, Ackers J, Tannich E, Leippe M, Hofer M, Bruchhaus I, Willhoeft U, Bhattacharya A, Chillingworth T, Churcher C, Hance Z, Harris B, Harris D, Jagels K, Moule S, Mungall K, Ormond D, Squares R, Whitehead S, Quail MA, Rabbinowitsch E, Norbertczak H, Price C, Wang Z, Guillen N, Gilchrist C, Stroup SE, Bhattacharya S, Lohia A, Foster PG, Sicheritz-Ponten T, Weber C, Singh U, Mukherjee C, El-Sayed NM, Petri WA Jr, Clark CG, Embley TM, Barrell B, Fraser CM, Hall N., Nature 433(7028), 2005
PMID: 15729342
Acanthamoeba spp. as agents of disease in humans.
Marciano-Cabral F, Cabral G., Clin. Microbiol. Rev. 16(2), 2003
PMID: 12692099
Horizontal gene transfer in eukaryotic evolution.
Keeling PJ, Palmer JD., Nat. Rev. Genet. 9(8), 2008
PMID: 18591983
The rhizome of life: the sympatric Rickettsia felis paradigm demonstrates the random transfer of DNA sequences.
Merhej V, Notredame C, Royer-Carenzi M, Pontarotti P, Raoult D., Mol. Biol. Evol. 28(11), 2011
PMID: 22024628
Gene transfer and diversification of microbial eukaryotes.
Andersson JO., Annu. Rev. Microbiol. 63(), 2009
PMID: 19575565
The origins of genome complexity.
Lynch M, Conery JS., Science 302(5649), 2003
PMID: 14631042
Large-scale comparison of intron positions in mammalian genes shows intron loss but no gain.
Roy SW, Fedorov A, Gilbert W., Proc. Natl. Acad. Sci. U.S.A. 100(12), 2003
PMID: 12777620
Extensive, recent intron gains in Daphnia populations.
Li W, Tucker AE, Sung W, Thomas WK, Lynch M., Science 326(5957), 2009
PMID: 19965475
Intron-rich ancestors.
Roy SW., Trends Genet. 22(9), 2006
PMID: 16857287
The repertoire of G-protein-coupled receptors in fully sequenced genomes.
Fredriksson R, Schioth HB., Mol. Pharmacol. 67(5), 2005
PMID: 15687224
Glucose sensing via the protein kinase A pathway in Schizosaccharomyces pombe.
Hoffman CS., Biochem. Soc. Trans. 33(Pt 1), 2005
PMID: 15667320
The Frizzled family: receptors for multiple signal transduction pathways.
Huang HC, Klein PS., Genome Biol. 5(7), 2004
PMID: 15239825
Olfactory receptors.
Gaillard I, Rouquier S, Giorgi D., Cell. Mol. Life Sci. 61(4), 2004
PMID: 14999405
Multiple lineage specific expansions within the guanylyl cyclase gene family.
Fitzpatrick DA, O'Halloran DM, Burnell AM., BMC Evol. Biol. 6(), 2006
PMID: 16549024
Evolution of phototaxis.
Jekely G., Philos. Trans. R. Soc. Lond., B, Biol. Sci. 364(1531), 2009
PMID: 19720645
Carbohydrate analysis of Acanthamoeba castellanii.
Dudley R, Jarroll EL, Khan NA., Exp. Parasitol. 122(4), 2009
PMID: 19389397
A MAP kinase necessary for receptor-mediated activation of adenylyl cyclase in Dictyostelium.
Segall JE, Kuspa A, Shaulsky G, Ecke M, Maeda M, Gaskins C, Firtel RA, Loomis WF., J. Cell Biol. 128(3), 1995
PMID: 7844154
Genomic survey of premetazoans shows deep conservation of cytoplasmic tyrosine kinases and multiple radiations of receptor tyrosine kinases.
Suga H, Dacre M, de Mendoza A, Shalchian-Tabrizi K, Manning G, Ruiz-Trillo I., Sci Signal 5(222), 2012
PMID: 22550341
The SH2 domain-containing proteins in 21 species establish the provenance and scope of phosphotyrosine signaling in eukaryotes.
Liu BA, Shah E, Jablonowski K, Stergachis A, Engelmann B, Nash PD., Sci Signal 4(202), 2011
PMID: 22155787
Positive selection of tyrosine loss in metazoan evolution.
Tan CS, Pasculescu A, Lim WA, Pawson T, Bader GD, Linding R., Science 325(5948), 2009
PMID: 19589966
The human phosphotyrosine signaling network: evolution and hotspots of hijacking in cancer.
Li L, Tibiche C, Fu C, Kaneko T, Moran MF, Schiller MR, Li SS, Wang E., Genome Res. 22(7), 2011
PMID: 22194470
Phagocytosis: elegant complexity.
Stuart LM, Ezekowitz RA., Immunity 22(5), 2005
PMID: 15894272
A role for the mannose-sensitive hemagglutinin in biofilm formation by Vibrio cholerae El Tor.
Watnick PI, Fullner KJ, Kolter R., J. Bacteriol. 181(11), 1999
PMID: 10348878
An adhesive domain detected in functionally diverse receptors.
Beckmann G, Bork P., Trends Biochem. Sci. 18(2), 1993
PMID: 8387703
Molecular cloning and characterization of a cDNA encoding a laminin-binding protein (AhLBP) from Acanthamoeba healyi.
Hong YC, Lee WM, Kong HH, Jeong HJ, Chung DI., Exp. Parasitol. 106(3-4), 2004
PMID: 15172216
The role of MD-2 in the opsonophagocytosis of Gram-negative bacteria.
Tissieres P, Pugin J., Curr. Opin. Infect. Dis. 22(3), 2009
PMID: 19395959
Mechanisms associated with Acanthamoeba castellanii (T4) phagocytosis.
Alsam S, Sissons J, Dudley R, Khan NA., Parasitol. Res. 96(6), 2005
PMID: 15940518
Biochemical characterization and functional studies of Acanthamoeba mannose-binding protein.
Garate M, Cubillos I, Marchant J, Panjwani N., Infect. Immun. 73(9), 2005
PMID: 16113295
The function of rhamnose-binding lectin in innate immunity by restricted binding to Gb3.
Watanabe Y, Tateno H, Nakamura-Tsuruta S, Kominami J, Hirabayashi J, Nakamura O, Watanabe T, Kamiya H, Naganuma T, Ogawa T, Naude RJ, Muramoto K., Dev. Comp. Immunol. 33(2), 2008
PMID: 18809432
The evolution of cell adhesion.
Hynes RO, Zhao Q., J. Cell Biol. 150(2), 2000
PMID: 10908592
Ameobal pathogen mimivirus infects macrophages through phagocytosis.
Ghigo E, Kartenbeck J, Lien P, Pelkmans L, Capo C, Mege JL, Raoult D., PLoS Pathog. 4(6), 2008
PMID: 18551172
Identification of an L-rhamnose synthetic pathway in two nucleocytoplasmic large DNA viruses.
Parakkottil Chothi M, Duncan GA, Armirotti A, Abergel C, Gurnon JR, Van Etten JL, Bernardi C, Damonte G, Tonetti M., J. Virol. 84(17), 2010
PMID: 20538863
Sequence and expression of the discoidin I gene family in Dictyostelium discoideum.
Poole S, Firtel RA, Lamar E, Rowekamp W., J. Mol. Biol. 153(2), 1981
PMID: 6279874
Biochemical and structural analysis of Helix pomatia agglutinin. A hexameric lectin with a novel fold.
Sanchez JF, Lescar J, Chazalet V, Audfray A, Gagnon J, Alvarez R, Breton C, Imberty A, Mitchell EP., J. Biol. Chem. 281(29), 2006
PMID: 16704980
Highly dynamic exon shuffling in candidate pathogen receptors ... what if brown algae were capable of adaptive immunity?
Zambounis A, Elias M, Sterck L, Maumus F, Gachon CM., Mol. Biol. Evol. 29(4), 2011
PMID: 22144640
GILT is a critical host factor for Listeria monocytogenes infection.
Singh R, Jamieson A, Cresswell P., Nature 455(7217), 2008
PMID: 18815593
Interferon-inducible effector mechanisms in cell-autonomous immunity.
MacMicking JD., Nat. Rev. Immunol. 12(5), 2012
PMID: 22531325
Function and mechanism of action of Dictyostelium Nramp1 (Slc11a1) in bacterial infection.
Peracino B, Wagner C, Balest A, Balbo A, Pergolizzi B, Noegel AA, Steinert M, Bozzaro S., Traffic 7(1), 2006
PMID: 16445684
The hypoxia-inducible transcription factor pathway regulates oxygen sensing in the simplest animal, Trichoplax adhaerens.
Loenarz C, Coleman ML, Boleininger A, Schierwater B, Holland PW, Ratcliffe PJ, Schofield CJ., EMBO Rep. 12(1), 2010
PMID: 21109780
Evolutionary origins of oxygen sensing in animals.
Rytkonen KT, Storz JF., EMBO Rep. 12(1), 2010
PMID: 21109778
Comparative genomics of the social amoebae Dictyostelium discoideum and Dictyostelium purpureum.
Sucgang R, Kuo A, Tian X, Salerno W, Parikh A, Feasley CL, Dalin E, Tu H, Huang E, Barry K, Lindquist E, Shapiro H, Bruce D, Schmutz J, Salamov A, Fey P, Gaudet P, Anjard C, Babu MM, Basu S, Bushmanova Y, van der Wel H, Katoh-Kurasawa M, Dinh C, Coutinho PM, Saito T, Elias M, Schaap P, Kay RR, Henrissat B, Eichinger L, Rivero F, Putnam NH, West CM, Loomis WF, Chisholm RL, Shaulsky G, Strassmann JE, Queller DC, Kuspa A, Grigoriev IV., Genome Biol. 12(2), 2011
PMID: 21356102
Autophagy in protists.
Duszenko M, Ginger ML, Brennand A, Gualdron-Lopez M, Colombo MI, Coombs GH, Coppens I, Jayabalasingham B, Langsley G, de Castro SL, Menna-Barreto R, Mottram JC, Navarro M, Rigden DJ, Romano PS, Stoka V, Turk B, Michels PA., Autophagy 7(2), 2011
PMID: 20962583
A fungal family of transcriptional regulators: the zinc cluster proteins.
MacPherson S, Larochelle M, Turcotte B., Microbiol. Mol. Biol. Rev. 70(3), 2006
PMID: 16959962
Homeodomain subtypes and functional diversity.
Burglin TR., Subcell. Biochem. 52(), 2011
PMID: 21557080
Regulatory Factor X (RFX)-mediated transcriptional rewiring of ciliary genes in animals.
Piasecki BP, Burghoorn J, Swoboda P., Proc. Natl. Acad. Sci. U.S.A. 107(29), 2010
PMID: 20615967
Soil bacteria and protozoa affect root branching via effects on the auxin and cytokinin balance in plants.
AUTHOR UNKNOWN, 2010
CAMTAs: calmodulin-binding transcription activators from plants to human.
Finkler A, Ashery-Padan R, Fromm H., FEBS Lett. 581(21), 2007
PMID: 17689537
Calmodulin-binding transcription activator 1 mediates auxin signaling and responds to stresses in Arabidopsis.
Galon Y, Aloni R, Nachmias D, Snir O, Feldmesser E, Scrase-Field S, Boyce JM, Bouche N, Knight MR, Fromm H., Planta 232(1), 2010
PMID: 20383645
Comparative genomics of Dictyostelium discoideum and Entamoeba histolytica.
Eichinger L, Noegel AA., Curr. Opin. Microbiol. 8(5), 2005
PMID: 16125444
Comparing the Dictyostelium and Entamoeba genomes reveals an ancient split in the Conosa lineage.
Song J, Xu Q, Olsen R, Loomis WF, Shaulsky G, Kuspa A, Sucgang R., PLoS Comput. Biol. 1(7), 2005
PMID: 16362072
Amoebae as genitors and reservoirs of giant viruses.
Raoult D, Boyer M., Intervirology 53(5), 2010
PMID: 20551684
The origins of eukaryotic-like proteins in Legionella pneumophila.
Lurie-Weinberger MN, Gomez-Valero L, Merault N, Glockner G, Buchrieser C, Gophna U., Int. J. Med. Microbiol. 300(7), 2010
PMID: 20537944
Mechanisms of phagocytosis in macrophages.
Aderem A, Underhill DM., Annu. Rev. Immunol. 17(), 1999
PMID: 10358769
Entamoeba histolytica phagocytosis of human erythrocytes involves PATMK, a member of the transmembrane kinase family.
Boettner DR, Huston CD, Linford AS, Buss SN, Houpt E, Sherman NE, Petri WA Jr., PLoS Pathog. 4(1), 2008
PMID: 18208324
Tyrosine phosphorylation-mediated signaling pathways in dictyostelium.
AUTHOR UNKNOWN, 2011
Niche adaptation by expansion and reprogramming of general transcription factors.
AUTHOR UNKNOWN, 2011
Isolation of wheat mitochondrial DNA and RNA.
AUTHOR UNKNOWN, 1992
Transcriptome analysis by strand-specific sequencing of complementary DNA.
Parkhomchuk D, Borodina T, Amstislavskiy V, Banaru M, Hallen L, Krobitsch S, Lehrach H, Soldatov A., Nucleic Acids Res. 37(18), 2009
PMID: 19620212
Identification of genetic variants using bar-coded multiplexed sequencing.
Craig DW, Pearson JV, Szelinger S, Sekar A, Redman M, Corneveaux JJ, Pawlowski TL, Laub T, Nunn G, Stephan DA, Homer N, Huentelman MJ., Nat. Methods 5(10), 2008
PMID: 18794863
Velvet: algorithms for de novo short read assembly using de Bruijn graphs.
Zerbino DR, Birney E., Genome Res. 18(5), 2008
PMID: 18349386
Annotating genomes with massive-scale RNA sequencing.
Denoeud F, Aury JM, Da Silva C, Noel B, Rogier O, Delledonne M, Morgante M, Valle G, Wincker P, Scarpelli C, Jaillon O, Artiguenave F., Genome Biol. 9(12), 2008
PMID: 19087247
Gene finding in novel genomes.
Korf I., BMC Bioinformatics 5(), 2004
PMID: 15144565
MAKER: an easy-to-use annotation pipeline designed for emerging model organism genomes.
Cantarel BL, Korf I, Robb SM, Parra G, Ross E, Moore B, Holt C, Sanchez Alvarado A, Yandell M., Genome Res. 18(1), 2007
PMID: 18025269
MAKER.
AUTHOR UNKNOWN, 0
Apollo: a sequence annotation editor.
Lewis SE, Searle SM, Harris N, Gibson M, Lyer V, Richter J, Wiel C, Bayraktaroglu L, Birney E, Crosby MA, Kaminker JS, Matthews BB, Prochnik SE, Smithy CD, Tupy JL, Rubin GM, Misra S, Mungall CJ, Clamp ME., Genome Biol. 3(12), 2002
PMID: 12537571
Apollo Genome Annotation Curation Tool.
AUTHOR UNKNOWN, 0
New assembly, reannotation and analysis of the Entamoeba histolytica genome reveal new genomic features and protein content information.
Lorenzi HA, Puiu D, Miller JR, Brinkac LM, Amedeo P, Hall N, Caler EV., PLoS Negl Trop Dis 4(6), 2010
PMID: 20559563
Uniref.
AUTHOR UNKNOWN, 0
Pfam.
AUTHOR UNKNOWN, 0
TIGRFAMs.
AUTHOR UNKNOWN, 0
Prosite.
AUTHOR UNKNOWN, 0
InterPro.
AUTHOR UNKNOWN, 0
The Gene Ontology Annotation (GOA) Database: sharing knowledge in Uniprot with Gene Ontology.
Camon E, Magrane M, Barrell D, Lee V, Dimmer E, Maslen J, Binns D, Harte N, Lopez R, Apweiler R., Nucleic Acids Res. 32(Database issue), 2004
PMID: 14681408
Broad Institute.
AUTHOR UNKNOWN, 0
SIMAP--a comprehensive database of pre-calculated protein sequence similarities, domains, annotations and clusters.
Rattei T, Tischler P, Gotz S, Jehl MA, Hoser J, Arnold R, Conesa A, Mewes HW., Nucleic Acids Res. 38(Database issue), 2009
PMID: 19906725
PhyloGenie: automated phylome generation and analysis.
Frickey T, Lupas AN., Nucleic Acids Res. 32(17), 2004
PMID: 15459293
MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods.
Tamura K, Peterson D, Peterson N, Stecher G, Nei M, Kumar S., Mol. Biol. Evol. 28(10), 2011
PMID: 21546353

Export

Markieren/ Markierung löschen
Markierte Publikationen

Open Data PUB

Web of Science

Dieser Datensatz im Web of Science®

Quellen

PMID: 23375108
PubMed | Europe PMC

Suchen in

Google Scholar