Transcriptional remodeling during metacyclogenesis in Trypanosoma cruzi I

References

• OMS. Climate change and health. World Health Organization; 2019.
   Google Scholar
• Tyler KM, Engman DM. The life cycle of Trypanosoma cruzi revisited. Int J Parasitol. 2001;31(5–6):472–481.
   PubMed Web of Science ®Google Scholar
• Goldenberg S, Avila AR. Aspects of Trypanosoma cruzi stage differentiation. Adv Parasitol. 2011;75:285–305.
   PubMed Web of Science ®Google Scholar
• Hamedi A, Botelho L, Britto C, et al. In vitro metacyclogenesis of Trypanosoma cruzi induced by starvation correlates with a transient adenylyl cyclase stimulation as well as with a constitutive upregulation of adenylyl cyclase expression. Mol Biochem Parasitol. 2015;200(1–2):9–18.
   PubMed Web of Science ®Google Scholar
• Nogueira NP, Saraiva FM, Sultano PE, et al. Proliferation and differentiation of Trypanosoma cruzi inside its vector have a new trigger: redox status. PLoS One. 2015;10(2):e0116712.
   PubMed Web of Science ®Google Scholar
• Contreras VT, Morel CM, Goldenberg S. Stage specific gene expression precedes morphological changes during Trypanosoma cruzi metacyclogenesis. Mol Biochem Parasitol. 1985;14(1):83–96.
   PubMed Web of Science ®Google Scholar
• Gonçalves CS, Ávila AR, de Souza W, et al. Revisiting the Trypanosoma cruzi metacyclogenesis: morphological and ultrastructural analyses during cell differentiation. Parasit Vectors. 2018;11(1):83.
   Web of Science ®Google Scholar
• Amorim JC, Batista M, da Cunha ES, et al. Quantitative proteome and phosphoproteome analyses highlight the adherent population during Trypanosoma cruzi metacyclogenesis. Sci Rep. 2017;7(1):9899.
   Web of Science ®Google Scholar
• Bayer-Santos E, Cunha-e-Silva NL, Yoshida N. Franco da Silveira J. Expression and cellular trafficking of GP82 and GP90 glycoproteins during Trypanosoma cruzi metacyclogenesis. Parasit Vectors. 2013;6:127.
   PubMed Web of Science ®Google Scholar
• Ennes-Vidal V, Menna-Barreto RFS, Santos ALS, et al. MDL28170, a calpain inhibitor, affects Trypanosoma cruzi metacyclogenesis, ultrastructure and attachment to Rhodnius prolixus midgut. PLoS One. 2011;6(4):e18371.
   Web of Science ®Google Scholar
• Barisón MJ, Rapado LN, Merino EF, et al. Metabolomic profiling reveals a finely tuned, starvation-induced metabolic switch in Trypanosoma cruzi epimastigotes. J Biol Chem. 2017;292(21):8964–8977.
   PubMed Web of Science ®Google Scholar
• Cardoso J, Lima CDP, Leal T, et al. Analysis of proteasomal proteolysis during the in vitro metacyclogenesis of Trypanosoma cruzi. PLoS One. 2011;6(6):e21027.
   Web of Science ®Google Scholar
• Vanrell MC, Losinno AD, Cueto JA, et al. The regulation of autophagy differentially affects Trypanosoma cruzi metacyclogenesis. PLoS Negl Trop Dis. 2017;11(11):e0006049.
   Web of Science ®Google Scholar
• Minning TA, Weatherly DB, Atwood J 3rd, et al. The steady-state transcriptome of the four major life-cycle stages of Trypanosoma cruzi.BMC Genomics. 2009;10(1):370. [cited 2009 Aug 7].
   PubMedGoogle Scholar
• Smircich P, Eastman G, Bispo S, et al. Ribosome profiling reveals translation control as a key mechanism generating differential gene expression in Trypanosoma cruzi. BMC Genomics. 2015;16(1):443. [Published 2015 Jun 9].
   PubMedGoogle Scholar
• Berná L, Chiribao ML, Greif G, et al. Transcriptomic analysis reveals metabolic switches and surface remodeling as key processes for stage transition. Peer J. 2017;5:e3017.
   PubMed Web of Science ®Google Scholar
• Dos Santos CMB, Ludwig A, RL K, et al. Trypanosoma cruzi transcriptome during axenic epimastigote growth curve. Mem Inst Oswaldo Cruz. 2018;113(5).
   Web of Science ®Google Scholar
• Belew AT, Junqueira C, Rodrigues-Luiz GF, et al. Comparative transcriptome profiling of virulent and non-virulent Trypanosoma cruzi underlines the role of surface proteins during infection. PLoS Pathog. 2017;13(12):e1006767.
   PubMed Web of Science ®Google Scholar
• Houston-Ludlam GA, Belew AT, El-Sayed NM. comparative transcriptome profiling of human foreskin fibroblasts infected with the Sylvio and Y strains of Trypanosoma cruzi. PLoS One. 2016;11(8):e0159197.
   PubMed Web of Science ®Google Scholar
• Li Y, Shah-Simpson S, Okrah K, et al. Transcriptome remodeling in Trypanosoma cruzi and human cells during intracellular infection. PLoS Pathog. 2016;12(4):e1005511.
   PubMed Web of Science ®Google Scholar
• Udoko AN, Johnson CA, Dykan A, et al. Early regulation of profibrotic genes in primary human cardiac myocytes by Trypanosoma cruzi. PLoS Negl Trop Dis. 2016;10(1):e0003747.
   PubMed Web of Science ®Google Scholar
• Avila AR, Dallagiovanna B, Yamada-Ogatta SF, et al. Stage-specific gene expression during Trypanosoma cruzi metacyclogenesis. Genet Mol Res. 2003;2(1):159–168.
   PubMedGoogle Scholar
• Developmental KS. Regulation of gene expression in the absence of transcriptional control: the case of kinetoplastids. Mol Biochem Parasitol. 2012;181:2.
   Web of Science ®Google Scholar
• Michels P, Bringaud F, Herman M, et al. Metabolic functions of glycosomes in Trypanosomatids. Biochim Biophys Acta. 2006;1763(12):1463–1477.
   Web of Science ®Google Scholar
• Quiñones W, Acosta H, Gonçalves CS, et al. Structure, properties, function of glycosomes in Trypanosoma cruzi. Front Cell Infect Microbiol. 2020;10:25.
   Web of Science ®Google Scholar
• Mattos EC, Canuto G, Manchola NC, et al. Reprogramming of Trypanosoma cruzi metabolism triggered by parasite interaction with the host cell extracellular matrix. PLoS Negl Trop Dis. 2019 Feb 6;13(2):e0007103.
   PubMed Web of Science ®Google Scholar
• Marchese L, Nascimento Jde F, Damasceno FS, et al. The uptake and metabolism of amino acids, and their unique role in the biology of pathogenic trypanosomatids. Pathogens. 2018;7(2):36.
   Web of Science ®Google Scholar
• Barrett F, Friend W. Differences in the concentration of free amino acids in the haemolymph of adult male and female Rhodnius Prolixus. Comp Biochem Physiol B. 1975;52:3.
   Web of Science ®Google Scholar
• Contreras VT, Salles JM, Thomas N, et al. In vitro differentiation of Trypanosoma cruzi under chemically defined conditions. Mol Biochem Parasitol. 1985;16(3):315–327.
   PubMed Web of Science ®Google Scholar
• Paes LS, Suárez Mantilla B, Zimbres FM, et al. Proline dehydrogenase regulates redox state and respiratory metabolism in Trypanosoma cruzi. PLoS One. 2013;8(7):e69419.
   Web of Science ®Google Scholar
• Berger BJ, Dai WW, Wang H, et al. Aromatic amino acid transamination and methionine recycling in trypanosomatids. Proc Natl Acad Sci USA. 1996;93(9):4126–4130.
   PubMed Web of Science ®Google Scholar
• Sant’Anna C, Nakayasu ES, Pereira MG, et al. Subcellular proteomics of Trypanosoma cruzi reservosomes. Proteomics. 2009;9(7):1782–1794.
   PubMed Web of Science ®Google Scholar
• Maeda FY, Cortez C, Yoshida N. Cell signaling during Trypanosoma cruzi invasion. Front Immunol. 2012;3:361.
   PubMed Web of Science ®Google Scholar
• Salassa BN, Romano PS. Autophagy: A necessary process during the Trypanosoma cruzi life-cycle. Virulence. 2019;10:460–469.
   PubMed Web of Science ®Google Scholar
• Proto WR, Jones NG, Coombs GH, et al. Tracking autophagy during proliferation and differentiation of Trypanosoma brucei. Microb Cell. 2014;1:9–20.
   PubMedGoogle Scholar
• Brosson S, Fontaine F, Vermeersch M, et al. Specific endocytosis blockade of Trypanosoma cruzi exposed to a Poly-LAcNAc binding lectin suggests that lectin-sugar interactions participate to receptor-mediated endocytosis. PLoS One. 2016;11(9):e0163302.
   PubMed Web of Science ®Google Scholar
• Huang G, Fang J, Sant’Anna C, et al. Adaptor protein-3 (AP-3) complex mediates the biogenesis of acidocalcisomes and is essential for growth and virulence of Trypanosoma brucei*. J Biol Chem. 2011;286:36619–36630.
   PubMed Web of Science ®Google Scholar
• Kalb LC, Frederico YCA, Boehm C, et al. Conservation and divergence within the clathrin interactome of Trypanosoma cruzi. Sci Rep. 2016;6:31212.
   PubMed Web of Science ®Google Scholar
• Moreira CN, Batista CM, Fernandes JC, et al. Knockout of the gamma subunit of the AP-1 adaptor complex in the human parasite Trypanosoma cruzi impairs infectivity and differentiation and prevents the maturation and targeting of the major protease cruzipain. PLoS One. 2017;12(7):e0179615.
   Web of Science ®Google Scholar
• Berry ASF, Salazar-Sanchez R, Castillo-Neyra R, et al. Sexual reproduction in a natural Trypanosoma cruzi population. PLoS Negl Trop Dis. 2019;13(5):e0007392.
   PubMed Web of Science ®Google Scholar
• Ramirez JD, Llewellyn MS. Reproductive clonality in protozoan pathogens–truth or artefact? Mol Ecol. 2014;23(17):4195–4202.
   PubMed Web of Science ®Google Scholar
• Schwabl P, Imamura H, Van den Broeck F, et al. Meiotic sex in Chagas disease parasite Trypanosoma cruzi. Nat Commun. 2019;10(1):3972.
   PubMedGoogle Scholar
• Tibayrenc M, Ayala FJ. The population genetics of Trypanosoma cruzi revisited in the light of the predominant clonal evolution model. Acta Trop. 2015;151:156–165.
   PubMed Web of Science ®Google Scholar
• Tibayrenc M, Ayala FJ. A misleading description of the predominant clonal evolution model in Trypanosoma cruzi. Acta Trop. 2018;187:13–14.
   PubMed Web of Science ®Google Scholar
• Genois MM, Paquet ER, Laffitte MCN, et al. DNA repair pathways in trypanosomatids: from DNA repair to drug resistance. Microbiol Mol Biol Rev. 2014;78:40–73.
   PubMed Web of Science ®Google Scholar
• Gaunt MW, Yeo M, Frame IA, et al. Mechanism of genetic exchange in American trypanosomes. Nature. 2003;421(6926):936–939.
   PubMed Web of Science ®Google Scholar
• Cruz-Saavedra L, Munoz M, Leon C, et al. Purification of Trypanosoma cruzi metacyclic trypomastigotes by ion exchange chromatography in sepharose-DEAE, a novel methodology for host-pathogen interaction studies. J Microbiol Methods. 2017;142:27–32.
   PubMed Web of Science ®Google Scholar
• Trapnell C, Pachter L, Salzberg SL. TopHat: discovering splice junctions with RNA-Seq. Bioinformatics. 2009;25(9):1105–1111.
   PubMed Web of Science ®Google Scholar
• Trapnell C, Roberts A, Goff L, et al. Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks. Nat Proto. 2012;7(3):562–578. .
   PubMed Web of Science ®Google Scholar
• Anders S, Pyl PT, Huber W. HTSeq—a Python framework to work with high-throughput sequencing data. Bioinformatics. 2015;31:166–169.
   PubMed Web of Science ®Google Scholar
• Love MI, Huber W, Anders S. Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2. Genome Biol. 2014;15(12):550.
   PubMed Web of Science ®Google Scholar
• Oliveros JC. Venny. An interactive tool for comparing lists with Venn’s diagrams; 2007-2015. https://bioinfogp.cnb.csic.es/tools/venny/index.html.
   Google Scholar
• Aurrecoechea C, Barreto A, Basenko EY, et al. EuPathDB: the eukaryotic pathogen genomics database resource. Nucleic Acids Res. 2017;45(D1):D581–d591.
   PubMed Web of Science ®Google Scholar
• Warrenfeltz S, Basenko EY, Crouch K, et al. EuPathDB: the eukaryotic pathogen genomics database resource. Methods Mol Biol. 2018;1757:69–113.
   PubMedGoogle Scholar
• Moriya Y, Itoh M, Okuda S, et al. KAAS: an automatic genome annotation and pathway reconstruction server. Nucleic Acids Res. 2007;35(Web Server issue):W182–185.
   PubMed Web of Science ®Google Scholar
• Suzuki S, Kakuta M, Ishida T, et al. GHOSTX: an improved sequence homology search algorithm using a query suffix array and a database suffix array. PLoS One. 2014;9(8):e103833.
   PubMed Web of Science ®Google Scholar