The Repetitive Cytoskeletal Protein H49 of Trypanosoma cruzi Is a Calpain-Like Protein Located at the Flagellum Attachment Zone

Background: Trypanosoma cruzi has a single flagellum attached to the cell body by a network of specialized cytoskeletal and membranous connections called the flagellum attachment zone. Previously, we isolated a DNA fragment (clone H49) which encodes tandemly arranged repeats of 68 amino acids associated with a high molecular weight cytoskeletal protein. in the current study, the genomic complexity of H49 and its relationships to the T. cruzi calpain-like cysteine peptidase family, comprising active calpains and calpain-like proteins, is addressed. Immunofluorescence analysis and biochemical fractionation were used to demonstrate the cellular location of H49 proteins.Methods and Findings: All of H49 repeats are associated with calpain-like sequences. Sequence analysis demonstrated that this protein, now termed H49/calpain, consists of an amino-terminal catalytic cysteine protease domain II, followed by a large region of 68-amino acid repeats tandemly arranged and a carboxy-terminal segment carrying the protease domains II and III. the H49/calpains can be classified as calpain-like proteins as the cysteine protease catalytic triad has been partially conserved in these proteins. the H49/calpains repeats share less than 60% identity with other calpain-like proteins in Leishmania and T. brucei, and there is no immunological cross reaction among them. It is suggested that the expansion of H49/calpain repeats only occurred in T. cruzi after separation of a T. cruzi ancestor from other trypanosomatid lineages. Immunofluorescence and immunoblotting experiments demonstrated that H49/calpain is located along the flagellum attachment zone adjacent to the cell body.Conclusions: H49/calpain contains large central region composed of 68-amino acid repeats tandemly arranged. They can be classified as calpain-like proteins as the cysteine protease catalytic triad is partially conserved in these proteins. H49/calpains could have a structural role, namely that of ensuring that the cell body remains attached to the flagellum by connecting the subpellicular microtubule array to it.Fundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP)Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq)Beca Presidente de la Republica-ChileUniversidade Federal de São Paulo, Dept Microbiol Imunol & Parasitol, Escola Paulista Med, São Paulo, BrazilUniv Antofagasta, Lab Bioquim, Dept Biomed, Antofagasta, ChileUniv Bandeirante São Paulo, São Paulo, BrazilUniv Brasilia, Dept Biol Celular, Inst Biol, Brasilia, DF, BrazilFiocruz MS, Ctr Pesquisa Rene Rachou CPqRR, Belo Horizonte, MG, BrazilUniversidade Federal de São Paulo, Dept Microbiol Imunol & Parasitol, Escola Paulista Med, São Paulo, BrazilWeb of Scienc

Identification and characterization of Tc1/mariner-like DNA transposons in genomes of the pathogenic fungi of the Paracoccidioides species complex

<p>Abstract</p> <p>Background</p> <p><it>Paracoccidioides brasiliensis </it>(Eukaryota, Fungi, Ascomycota) is a thermodimorphic fungus, the etiological agent of paracoccidioidomycosis, the most important systemic mycoses in Latin America. Three isolates corresponding to distinct phylogenetic lineages of the <it>Paracoccidioides </it>species complex had their genomes sequenced. In this study the identification and characterization of class II transposable elements in the genomes of these fungi was carried out.</p> <p>Results</p> <p>A genomic survey for DNA transposons in the sequence assemblies of <it>Paracoccidioides</it>, a genus recently proposed to encompass species <it>P. brasiliensis </it>(harboring phylogenetic lineages S1, PS2, PS3) and <it>P. lutzii </it>(<it>Pb01-like </it>isolates), has been completed. Eight new <it>Tc1/mariner </it>families, referred to as Trem (<b>Tr</b>ansposable <b>e</b>lement <b>m</b>ariner), labeled A through H were identified. Elements from each family have 65-80% sequence similarity with other <it>Tc1/mariner </it>elements. They are flanked by 2-bp TA target site duplications and different termini. Encoded DDD-transposases, some of which have complete ORFs, indicated that they could be functionally active. The distribution of Trem elements varied between the genomic sequences characterized as belonging to <it>P. brasiliensis </it>(S1 and PS2) and <it>P. lutzii</it>. TremC and H elements would have been present in a hypothetical ancestor common to <it>P. brasiliensis </it>and <it>P. lutzii</it>, while TremA, B and F elements were either acquired by <it>P. brasiliensis </it>or lost by <it>P. lutzii </it>after speciation. Although TremD and TremE share about 70% similarity, they are specific to <it>P. brasiliensis </it>and <it>P. lutzii</it>, respectively. This suggests that these elements could either have been present in a hypothetical common ancestor and have evolved divergently after the split between <it>P. brasiliensis </it>and <it>P. Lutzii</it>, or have been independently acquired by horizontal transfer.</p> <p>Conclusions</p> <p>New families of <it>Tc1/mariner </it>DNA transposons in the genomic assemblies of the <it>Paracoccidioides </it>species complex are described. Families were distinguished based on significant BLAST identities between transposases and/or TIRs. The expansion of Trem in a putative ancestor common to the species <it>P. brasiliensis </it>and <it>P. lutzii </it>would have given origin to TremC and TremH, while other elements could have been acquired or lost after speciation had occurred. The results may contribute to our understanding of the organization and architecture of genomes in the genus <it>Paracoccidioides</it>.</p

Subtelomeric I-scel-mediated double-strand breaks are repaired by homologous recombination in trypanosoma cruzi

Trypanosoma cruzi chromosome ends are enriched in surface protein genes and pseudogenes (e.g., trans-sialidases) surrounded by repetitive sequences. It has been proposed that the extensive sequence variability among members of these protein families could play a role in parasite infectivity and evasion of host immune response. In previous reports we showed evidence suggesting that sequences located in these regions are subjected to recombination. To support this hypothesis we introduced a double-strand break (DSB) at a specific target site in a I cruzi subtelomeric region cloned into an artificial chromosome (pTAC). This construct was used to transfect T. cruzi epimastigotes expressing the I-Scel meganuclease. Examination of the repaired sequences showed that DNA repair occurred only through homologous recombination (HR) with endogenous subtelomeric sequences. Our findings suggest that DSBs in subtelomeric repetitive sequences followed by HR between them may contribute to increased variability in T. cruzi multigene families7CONSELHO NACIONAL DE DESENVOLVIMENTO CIENTÍFICO E TECNOLÓGICO - CNPQFUNDAÇÃO DE AMPARO À PESQUISA DO ESTADO DE SÃO PAULO - FAPESP306591/2015-411/51693-0; 11/51475-

Nusinersen in patients older than 7 months with spinal muscular atrophy type 1: A cohort study.

OBJECTIVE: To evaluate the safety and clinical efficacy of nusinersen in patients older than 7 months with spinal muscular atrophy type 1 (SMA1). METHODS: Patients with SMA1 were treated with nusinersen by intrathecal injections as a part of the Expanded Access Program (EAP; NCT02865109). We evaluated patients before treatment initiation (M0) and at 2 months (M2) and 6 months (M6) after treatment initiation. Survival, respiratory, and nutritional data were collected. Motor function was assessed with the modified Hammersmith Infant Neurologic Examination Part 2 (HINE-2) and physiotherapist scales adjusted to patient age (Children's Hospital of Philadelphia Infant Test of Neuromuscular Disorders and the Motor Function Measure 20 or 32). RESULTS: We treated 33 children ranging in age from 8.3 to 113.1 months between December 2016 and May 2017. All patients were alive and were continuing treatment at M6. Median progress on the modified HINE-2 score was 1.5 points after 6 months of treatment (p < 0.001). The need for respiratory support significantly increased over time. There were no statistically significant differences between patients presenting with 2 and those presenting with 3 copies of the survival motor neuron 2 (SMN2) gene. CONCLUSIONS: Our results are in line with the phase 3 study for nusinersen in patients with SMA1 treated before 7 months of age and indicate that patients benefit from nusinersen even at a later stage of the disease. CLINICALTRIALSGOV IDENTIFIER: NCT02865109. CLASSIFICATION OF EVIDENCE: This study provides Class IV evidence that for patients with SMA1 who are older than 7 months, nusinersen is beneficial

Specific gene probes hybridized to chromosomal bands of Brazilian isolates of <i>S. schenckii</i> and <i>S. brasiliensis</i>.

<p>Southern blots show radiolabeled probes hybridized to fungi chromosomes. Probes that specifically targeted A: calmodulin (Calm), B: chitin synthase 1 (CHS1), C: Internal Transcribed Spacer (ITS), D: G protein α subunit (GProt), E: protein kinase C Ss-2 (PKC), F: Pho85 cyclin-dependent kinase (Pho85), and G: topoisomerase II (Topo) hybridized preferentially to large bands in most isolates. Probes for H: β-tubulin (β-tub) and I: catalase (Cata) hybridized preferentially to small bands in most isolates. J: The 7.0 Mb chromosomal band from isolate Ss126 was used as a probe. The hybridization pattern shows evidence for repetitive sequences. The sizes of major chromosomal bands (Mb) are indicated on the left. The open arrows indicate the wells where samples were loaded. Areas enclosed in a dashed box (E and I) are lanes that were exposed for longer times to better visualize the hybridization signals.</p

Molecular phylogenetic tree generated by Neighbor Joining and Maximum Likelihood methods with the concatenated sequences of calmodulin and internal transcribed spacer (ITS).

<p>In the bootstrap test (1,000 replicates), replicate trees in associated taxa were clustered together. The bootatrap for each tree branch is shown next to the corresponding branch. Star symbols indicate that the isolate was used for pulsed field gel electrophoresis (PFGE). The cross symbols indicate isolates used in hybridization experiments with genetic markers (probes).</p

Densitometric analysis of <i>S. schenckii</i>, <i>S. brasiliensis</i>, <i>S. mexicana</i>, and <i>S. luriei</i> isolates.

<p>Each panel shows (<i>left</i>) the ethidium bromide-stained gel after pulsed field gel electrophoresis of chromosomes from the fungus strain indicated, and (<i>right</i>) a graph of the densitometric analysis. The size of each chromosomal band (Mb) is indicated on the left and above the corresponding peaks on the graph. Open arrows indicate where samples were loaded.</p

Strains, species, origin, and GenBank accession numbers (CAL and ITS) for the <i>Sporothrix</i> spp. isolates used in this study.

<p>IPEC, Instituto de Pesquisa Clínica Evandro Chagas, Fiocruz, Brazil; FMR, Facultat de Medicina i Ciències de la Salut, Reus, Spain; CBS, CentraalBureau voor Schimmelcultures, Utrecht, The Netherlands; ATCC, American Type Culture Collection, Manassas, VA, USA; T, type strain. All “Ss” strains belong to the culture collection of the Federal University of São Paulo (UNIFESP).</p

Schematic of probe hybridization to fungal chromosome bands.

<p>The <i>S. schenckii</i> and <i>S. brasiliensis</i> isolates are indicated at the top. Each grey box represents a chromosomal band with the indicated size (Mb, <i>left</i>). The probes that hybridized to each band are color-coded (<i>bottom</i>). β-tubulin (β-Tub), calmodulin (Calm), catalase (Cata), chitin synthase 1 (CHS1), internal transcribed spacer (ITS), Pho85 cyclin-dependent kinase (Pho85), protein kinase C Ss-2 (PKC), G protein α subunit (GProt), and topoisomerase II (Topo).</p