Complete assembly of the Leishmania donovani (HU3 strain) genome and transcriptome annotation.

Authors:
Esther Camacho
Esther Camacho
Centro de Biología Molecular "Severo Ochoa" (CSIC-UAM)
Alberto Rastrojo
Alberto Rastrojo
Centro de Biología Molecular Severo Ochoa
Laura Tabera
Laura Tabera
University of Catania
Italy
Francisco Gamarro
Francisco Gamarro
Instituto de Parasitología y Biomedicina López-Neyra
Fernando Carrasco-Ramiro
Fernando Carrasco-Ramiro
Centro de Biología Molecular Severo Ochoa (CSIC-UAM)
Spain

Sci Rep 2019 Apr 16;9(1):6127. Epub 2019 Apr 16.

Centro de Biología Molecular "Severo Ochoa" (CSIC/UAM), Campus de Excelencia Internacional (CEI) UAM+CSIC, Universidad Autónoma de Madrid, Madrid, Spain.

Leishmania donovani is a unicellular parasite that causes visceral leishmaniasis, a fatal disease in humans. In this study, a complete assembly of the genome of L. donovani is provided. Apart from being the first published genome of this strain (HU3), this constitutes the best assembly for an L. donovani genome attained to date. The use of a combination of sequencing platforms enabled to assemble, without any sequence gap, the 36 chromosomes for this species. Additionally, based on this assembly and using RNA-seq reads derived from poly-A + RNA, the transcriptome for this species, not yet available, was delineated. Alternative SL addition sites and heterogeneity in the poly-A addition sites were commonly observed for most of the genes. After a complete annotation of the transcriptome, 2,410 novel transcripts were defined. Additionally, the relative expression for all transcripts present in the promastigote stage was determined. Events of cis-splicing have been documented to occur during the maturation of the transcripts derived from genes LDHU3_07.0430 and LDHU3_29.3990. The complete genome assembly and the availability of the gene models (including annotation of untranslated regions) are important pieces to understand how differential gene expression occurs in this pathogen, and to decipher phenotypic peculiarities like tissue tropism, clinical disease, and drug susceptibility.

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http://dx.doi.org/10.1038/s41598-019-42511-4DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6467909PMC

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April 2019

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