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Minor structural variation and complex clonal genomic structure in Leishmania (Viannia) panamensis

ABSTRACT: Minor structural variation and complex clonal genomic structure in Leishmania (Viannia) panamensis

PROVIDER: PRJEB35090 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	ERR3648460.fastq.gz	Fastqsanger.gz
	ERR3648460_1.fastq.gz	Fastqsanger.gz
	ERR3648460_2.fastq.gz	Fastqsanger.gz
	ERR3648470.fastq.gz	Fastqsanger.gz
	ERR3648470_1.fastq.gz	Fastqsanger.gz

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Leishmania panamensis

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Human Macrophage Response to Leishmania (Viannia) panamensis Infection: Evidence for an Early Inflammatory Response

Project description:Transcriptional profile of human monocyte-derived macrophages infected with L.(V.)panamensis was compared to the profile of uninfected cells to delineate transcriptional activation triggered by the infection. two condition experiment: human monocyte-derived macrophages infected with L.(V.)panamensis. 6-5 donors per time point. 3 times point. 1-3 replicates per donor-time point.

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Project description:Leishmania (Viannia) panamensis is one of the most important Leishmania species associated with cutaneous leishmaniasis (CL) in Latin America. Despite its wide geographic distribution and pathogenic potential in humans and animals, the genomic variability of this species is low compared with other Leishmania species circulating in the same geographical area. No studies have reported a detailed analysis of the whole genome of L. panamensis from clinical isolates using DNA high-throughput sequencing to clarify its intraspecific genomic variability or plausible divergence. Therefore, this study aimed to evaluate the intraspecific genomic variability of L. panamensis from Colombia and Panama. A total of 22 genomes were analyzed, 19 from Colombian patients with CL and three genomes from Panama obtained from public databases. The phylogenomic analysis revealed the potential existence of three well-supported clades as evidence of intraspecific divergence. Additionally, the whole-genome analysis showed low structural variations in terms of ploidy, copy number variations, and single-nucleotide polymorphisms (SNPs). SNPs shared among all clades were identified, revealing their importance in different biological processes of L. panamensis. The findings not only expand our knowledge of intraspecific genomic variability of one of the most important Leishmania species in South America but also highlights the possible existence of different clades/lineages/subpopulations across a geographic scale.

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Leishmania sp.

Project description:Leishmania (Viannia) braziliensis Transcriptome or Gene expression

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Project description:Genomic characterization of Leishmania panamensis clinical isolates from patients with cutaneous Leishmaniasis

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Major changes in chromosomal somy, gene expression and gene dosage 2 driven by SbIII in Leishmania braziliensis and Leishmania panamensis

Project description:Major changes in chromosomal somy, gene expression and gene dosage driven by SbIII in Leishmania braziliensis and Leishmania panamensis

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Minor intron retention drives clonal hematopoietic disorders and diverse cancer predisposition.

Project description:Most metazoans contain two distinct pre-mRNA splicing machineries: the major spliceosome, which removes >99% of introns, and the minor spliceosome, which recognizes <1% of introns. Despite their rarity, minor introns are exquisitely conserved amongst species, suggesting important regulatory functions. However, physiologic roles for the minor spliceosome and the relevance of recurrent, leukemia-associated mutations affecting minor spliceosome components are not well understood. Here, we identify that mutational loss of the minor spliceosomal factor ZRSR2 enhances hematopoietic stem cell self-renewal via impaired minor intron splicing that converges on LZTR1, a regulator of Ras-related GTPases. LZTR1 minor intron retention is additionally observed in Noonan syndrome and diverse cancers. These data uncover minor intron recognition as a regulator of hematopoiesis and mechanistic links between ZRSR2 mutations, LZTR1, and leukemia.

2020-11-26 | GSE162136 | GEO

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