Large-Scale Phylogenetic Analysis of Trypanosomatid Adenylate Cyclases Reveals Associations with Extracellular Lifestyle and Host-Pathogen Interplay

. 2020 Dec 06 ; 12 (12) : 2403-2416.

Jazyk angličtina Země Velká Británie, Anglie Médium print

Typ dokumentu časopisecké články, práce podpořená grantem

Perzistentní odkaz   https://www.medvik.cz/link/pmid33104188

Receptor adenylate cyclases (RACs) on the surface of trypanosomatids are important players in the host-parasite interface. They detect still unidentified environmental signals that affect the parasites' responses to host immune challenge, coordination of social motility, and regulation of cell division. A lesser known class of oxygen-sensing adenylate cyclases (OACs) related to RACs has been lost in trypanosomes and expanded mostly in Leishmania species and related insect-dwelling trypanosomatids. In this work, we have undertaken a large-scale phylogenetic analysis of both classes of adenylate cyclases (ACs) in trypanosomatids and the free-living Bodo saltans. We observe that the expanded RAC repertoire in trypanosomatids with a two-host life cycle is not only associated with an extracellular lifestyle within the vertebrate host, but also with a complex path through the insect vector involving several life cycle stages. In Trypanosoma brucei, RACs are split into two major clades, which significantly differ in their expression profiles in the mammalian host and the insect vector. RACs of the closely related Trypanosoma congolense are intermingled within these two clades, supporting early RAC diversification. Subspecies of T. brucei that have lost the capacity to infect insects exhibit high numbers of pseudogenized RACs, suggesting many of these proteins have become redundant upon the acquisition of a single-host life cycle. OACs appear to be an innovation occurring after the expansion of RACs in trypanosomatids. Endosymbiont-harboring trypanosomatids exhibit a diversification of OACs, whereas these proteins are pseudogenized in Leishmania subgenus Viannia. This analysis sheds light on how ACs have evolved to allow diverse trypanosomatids to occupy multifarious niches and assume various lifestyles.

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Almagro Armenteros JJ, et al. 2019. SignalP 5.0 improves signal peptide predictions using deep neural networks. Nat Biotechnol. 37(4):420–423. PubMed

Bachmaier S, et al. 2019. Nucleoside analogue activators of cyclic AMP-independent protein kinase A of trypanosoma. Nat Commun. 10(1):1421. PubMed PMC

Bao Y, Weiss LM, Braunstein VL, Huang H. 2008. Role of protein kinase A in PubMed PMC

Bao Y, Weiss LM, Ma YF, Kahn S, Huang H. 2010. Protein kinase A catalytic subunit interacts and phosphorylates members of PubMed PMC

Barquilla A, et al. 2012. Third target of rapamycin complex negatively regulates development of quiescence in PubMed PMC

Beneke T, et al. 2017. A CRISPR Cas9 high-throughput genome editing toolkit for kinetoplastids. R Soc Open Sci. 4(5):1–16. PubMed PMC

Bonilla M, Krull E, Irigoín F, Salinas G, Comini MA. 2016. Selenoproteins of African trypanosomes are dispensable for parasite survival in a mammalian host. Mol Biochem Parasitol. 206(1–2):13–19. PubMed

Bruschi F, Gradoni L, editors. 2018. The leishmaniases: old neglected tropical diseases. Cham, Switzerland: Springer.

Büscher P, Cecchi G, Jamonneau V, Priotto G. 2017. Human African trypanosomiasis. Lancet 390(10110):2397–2409. PubMed

Capella-Gutierrez S, Silla-Martinez JM, Gabaldon T. 2009. trimAl: a tool for automated alignment trimming in large-scale phylogenetic analyses. Bioinformatics 25(15):1972–1973. PubMed PMC

Carnes J, et al. 2015. Genome and phylogenetic analyses of PubMed PMC

De Koning HP, et al. 2012. Pharmacological validation of PubMed PMC

Dean S, et al. 2015. A toolkit enabling efficient, scalable and reproducible gene tagging in trypanosomatids. Open Biol. 5(1):140197. PubMed PMC

Durante IM, Cámara MDLM, Buscaglia CA. 2015. A novel PubMed PMC

Edgar RC. 2004. MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res. 32(5):1792–1797. PubMed PMC

El-Sayed NM. 2005. Comparative genomics of trypanosomatid parasitic protozoa. Science. 309(5733):404–409. PubMed

Flegontov P, et al. 2013. PubMed

Fraidenraich D, et al. 1993. Stimulation of PubMed PMC

Gancedo JM. 2013. Biological roles of cAMP: variations on a theme in the different kingdoms of life. Biol Rev. 88(3):645–668. PubMed

Gibson W, Kay C, Peacock L. 2017. PubMed

Gould MK, et al. 2013. Cyclic AMP effectors in African trypanosomes revealed by genome-scale RNA interference library screening for resistance to the phosphodiesterase inhibitor CpdA. Antimicrob Agents Chemother. 57(10):4882–4893. PubMed PMC

Grisard EC. 2002. Salivaria or Stercoraria? The PubMed PMC

Hashimi H, McDonald L, Stříbrná E, Lukeš J. 2013. Trypanosome letm1 protein is essential for mitochondrial potassium homeostasis. J Biol Chem. 288(37):26914–26925. PubMed PMC

Hoare CA. 1929. Studies on

Hoare CA. 1972. The trypanosomes of mammals. A zoological monograph. Science. 169(4068):60.

Huelsenbeck JP, Ronquist F. 2001. MRBAYES: Bayesian inference of phylogenetic trees. Bioinformatics 17(8):754–755. PubMed

Jackson AP, et al. 2013. A cell-surface phylome for African trypanosomes. PLoS Negl Trop Dis. 7(3):e2121. PubMed PMC

Jackson AP, et al. 2016. Kinetoplastid phylogenomics reveals the evolutionary innovations associated with the origins of parasitism. Curr Biol. 26(2):161–172. PubMed PMC

Jaskowska E, Butler C, Preston G, Kelly S. 2015. PubMed PMC

Kelly S, Ivens A, Manna PT, Gibson W, Field MC. 2014. A draft genome for the African crocodilian trypanosome. Sci Data. 1(1):140024. PubMed PMC

Kostygov AY, et al. 2016. Novel trypanosomatid-bacterium association: evolution of endosymbiosis in action. mBio 7(2):e01985. PubMed PMC

Kostygov AY, Grybchuk-Ieremenko A, Malysheva MN, Frolov AO, Yurchenko V. 2014. Molecular revision of the genus PubMed

Kostygov AY, Yurchenko V. 2017. Revised classification of the subfamily Leishmaniinae (Trypanosomatidae). Folia Parasit. 64:020. PubMed

Kraeva N, et al. 2019. LmxM.22.0250-encoded dual specificity protein/lipid phosphatase impairs PubMed PMC

Krogh A, Larsson B, Von Heijne G, Sonnhammer ELL. 2001. Predicting transmembrane protein topology with a hidden Markov model: application to complete genomes. J Mol Biol. 305(3):567–580. PubMed

Labunskyy VM, Hatfield DL, Gladyshev VN. 2014. Selenoproteins: molecular pathways and physiological roles. Physiol Rev. 94(3):739–777. PubMed PMC

Lai D-H, Hashimi H, Lun Z-R, Ayala FJ, Lukes J. 2008. Adaptations of PubMed PMC

Lobanov AV, Gromer S, Salinas G, Gladyshev VN. 2006. Selenium metabolism in PubMed PMC

Lopez MA, Saada EA, Hill KL. 2015. Insect stage-specific adenylate cyclases regulate social motility in African trypanosomes. Eukaryot Cell 14(1):104–112. PubMed PMC

Lukeš J, et al. 2018. Trypanosomatids are much more than just trypanosomes: clues from the expanded family tree. Trends Parasitol. 34(6):466–480. PubMed

Lukeš J, Skalický T, Týč J, Votýpka J, Yurchenko V. 2014. Evolution of parasitism in kinetoplastid flagellates. Mol Biochem Parasitol. 195(2):115–122. PubMed

Madeira F, et al. 2019. The EMBL-EBI search and sequence analysis tools APIs in 2019. Nucleic Acids Res. 47(W1):W636–W641. PubMed PMC

Makin L, Gluenz E. 2015. cAMP signalling in trypanosomatids: role in pathogenesis and as a drug target. Trends Parasitol. 31(8):373–379. PubMed PMC

Maslov DA, et al. 2019. Recent advances in trypanosomatid research: genome organization, expression, metabolism, taxonomy and evolution. Parasitology. 146(1):1–27. PubMed

Maslov DA, Votýpka J, Yurchenko V, Lukeš J. 2013. Diversity and phylogeny of insect trypanosomatids: all that is hidden shall be revealed. Trends Parasitol. 29(1):43–52. PubMed

Minh BQ, Nguyen MAT, von Haeseler A. 2013. Ultrafast approximation for phylogenetic bootstrap. Mol Biol Evol. 30(5):1188–1195. PubMed PMC

Musikant D, et al. 2017. Host Epac1 is required for cAMP-mediated invasion by PubMed PMC

Oberholzer M, et al. 2007. The PubMed

Oberholzer M, Saada EA, Hill KL. 2015. Cyclic AMP regulates social behavior in African trypanosomes. mBio. 6(3):e01954. PubMed PMC

Ooi CP, et al. 2016. The cyclical development of PubMed PMC

Opperdoes FR, Butenko A, Flegontov P, Yurchenko V, Lukeš J. 2016. Comparative metabolism of free-living PubMed

Paindavoine P, et al. 1992. A gene from the variant surface glycoprotein expression site encodes one of several transmembrane adenylate cyclases located on the flagellum of PubMed PMC

Pierleoni A, Martelli P, Casadio R. 2008. PredGPI: a GPI-anchor predictor. BMC Bioinformatics. 9(1):392. PubMed PMC

Poon SK, Peacock L, Gibson W, Gull K, Kelly S. 2012. A modular and optimized single marker system for generating PubMed PMC

Porcel BM, et al. 2014. The streamlined genome of PubMed PMC

Robinson O, Dylus D, Dessimoz C, Rosenberg M. 2016. Phylo.io: interactive viewing and comparison of large phylogenetic trees on the web. Mol Biol Evol. 33(8):2163–2166. PubMed PMC

Rogozin I, Charyyeva A, Sidorenko I, Babenko V, Yurchenko V. 2020. Frequent recombination events in PubMed PMC

Rojas F, et al. 2019. Oligopeptide signaling through TbGPR89 drives trypanosome quorum sensing. Cell 176(1–2):306–317. PubMed PMC

Saada EA, et al. 2014. Insect stage-specific receptor adenylate cyclases are localized to distinct subdomains of the PubMed PMC

Saldivia M, Ceballos-Pérez G, Bart JM, Navarro M. 2016. The AMPKα1 pathway positively regulates the developmental transition from proliferation to quiescence in PubMed PMC

Salmon D. 2018. Adenylate cyclases of PubMed PMC

Salmon D, et al. 2012. a. Adenylate cyclases of PubMed

Salmon D, et al. 2012. b. Cytokinesis of PubMed

Sanchez MA, Zeoli D, Klamo EM, Kavanaugh MP, Landfear SM. 1995. A family of putative receptor-adenylate cyclases from PubMed

Sen Santara S, et al. 2013. Globin-coupled heme containing oxygen sensor soluble adenylate cyclase in PubMed PMC

Schindelin J, et al. 2012. Fiji: an open-source platform for biological-image analysis. Nat Methods. 9(7):676–682. PubMed PMC

Schnaufer A, Domingo GJ, Stuart K. 2002. Natural and induced dyskinetoplastic trypanosomatids: how to live without mitochondrial DNA. Int J Parasitol. 32(9):1071–1084. PubMed

Shalaby T, Liniger M, Seebeck T. 2001. The regulatory subunit of a cGMP-regulated protein kinase A of PubMed

Shaw S, et al. 2019. Flagellar cAMP signaling controls trypanosome progression through host tissues. Nat Commun. 10(1):803. PubMed PMC

Shimogawa MM, et al. 2015. Cell surface proteomics provides insight into stage-specific remodeling of the host-parasite interface in PubMed PMC

Smith TK, Bringaud F, Nolan DP, Figueiredo LM. 2017. Metabolic reprogramming during the PubMed PMC

Stoco PH, et al. 2014. Genome of the avirulent human-infective trypanosome- PubMed PMC

Taylor SS, Zhang P, Steichen JM, Keshwani MM, Kornev AP. 2013. PKA: lessons learned after twenty years. Biochim Biophys Acta 1834(7):1271–1278. PubMed PMC

Telleria J, Tibayrenc M, editors. 2017. American trypanosomiasis Chagas disease: one hundred years of research. Cambridge: Elsevier.

Trindade S, et al. 2016. PubMed PMC

Urbaniak MD, Guther MLS, Ferguson MAJ. 2012. Comparative SILAC proteomic analysis of PubMed PMC

Van Den Abbeele J, et al. 1995. PubMed

Vasquez J-J, Hon C-C, Vanselow JT, Schlosser A, Siegel TN. 2014. Comparative ribosome profiling reveals extensive translational complexity in different PubMed PMC

Vassella E, Reuner B, Yutzy B, Boshart M. 1997. Differentiation of African trypanosomes is controlled by a density sensing mechanism which signals cell cycle arrest PubMed

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