Identification of a unique conserved region from a kinetoplastid genome of Leishmania orientalis (formerly named Leishmania siamensis) strain PCM2 in Thailand.

Leishmania / genetics DNA, Kinetoplast / genetics Phylogeny Thailand Base Sequence DNA, Mitochondrial

Journal

Scientific reports
ISSN: 2045-2322
Titre abrégé: Sci Rep
Pays: England
ID NLM: 101563288

Informations de publication

Date de publication:
10 11 2023
Historique:
received: 27 02 2023
accepted: 03 11 2023
medline: 13 11 2023
pubmed: 11 11 2023
entrez: 10 11 2023
Statut: epublish

Résumé

Mitochondrial DNAs (mtDNAs) appear in almost all eukaryotic species and are useful molecular markers for phylogenetic studies and species identification. Kinetoplast DNAs (kDNAs) are structurally complex circular mtDNA networks in kinetoplastids, divided into maxicircles and minicircles. Despite several kDNAs of many Leishmania species being examined, the kDNAs of the new species, Leishmania orientalis (formerly named Leishmania siamensis) strain PCM2, have not been explored. This study aimed to investigate the maxicircle and minicircle DNAs of L. orientalis strain PCM2 using hybrid genome sequencing technologies and bioinformatic analyses. The kDNA sequences were isolated and assembled using the SPAdes hybrid assembler from the Illumina short-read and PacBio long-read data. Circular contigs of the maxicircle and minicircle DNAs were reconstructed and confirmed by BLASTn and rKOMICs programs. The kDNA genome was annotated by BLASTn before the genome comparison and phylogenetic analysis by progressiveMauve, MAFFT, and MEGA programs. The maxicircle of L. orientalis strain PCM2 (18,215 bp) showed 99.92% similarity and gene arrangement to Leishmania enriettii strain LEM3045 maxicircle with variation in the 12s rRNA gene and divergent region. Phylogenetics of the whole sequence, coding regions, divergent regions, and 12s rRNA gene also confirmed this relationship and subgenera separation. The identified 105 classes of minicircles (402-1177 bp) were clustered monophyletically and related to the Leishmania donovani minicircles. The kinetoplast maxicircle and minicircle DNAs of L. orientalis strain PCM2 contained a unique conserved region potentially useful for specific diagnosis of L. orientalis and further exploration of this parasite population genetics in Thailand and related regions.

Identifiants

DOI: 10.1038/s41598-023-46638-3 PMID: 37950023 PMC: PMC10638283
pubmed: 37950023
doi: 10.1038/s41598-023-46638-3
pii: 10.1038/s41598-023-46638-3
pmc: PMC10638283
doi:

Substances chimiques

DNA, Kinetoplast 0
DNA, Mitochondrial 0

Types de publication

Journal Article Research Support, Non-U.S. Gov't

Langues

eng

Sous-ensembles de citation

IM

Pagination

19644

Informations de copyright

© 2023. The Author(s).

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Auteurs

Pornchai Anuntasomboon (P)

Department of Genetics, Faculty of Science, Kasetsart University, Bangkok, Thailand.
Omics Center for Agriculture, Bioresources, Food, and Health, Kasetsart University (OmiKU), Bangkok, Thailand.

Suradej Siripattanapipong (S)

Department of Microbiology, Faculty of Science, Mahidol University, Bangkok, Thailand.

Sasimanas Unajak (S)

Department of Biochemistry, Faculty of Science, Kasetsart University, Bangkok, Thailand.

Kiattawee Choowongkomon (K)

Department of Biochemistry, Faculty of Science, Kasetsart University, Bangkok, Thailand.

Richard Burchmore (R)

Glasgow Polyomics, College of Medical, Veterinary and Life Sciences, University of Glasgow, Glasgow, UK.

Saovanee Leelayoova (S)

Department of Parasitology, Phramongkutklao College of Medicine, Bangkok, Thailand.

Mathirut Mungthin (M)

Department of Parasitology, Phramongkutklao College of Medicine, Bangkok, Thailand.

Teerasak E-Kobon (T)

Department of Genetics, Faculty of Science, Kasetsart University, Bangkok, Thailand. teerasak.e@ku.th.
Omics Center for Agriculture, Bioresources, Food, and Health, Kasetsart University (OmiKU), Bangkok, Thailand. teerasak.e@ku.th.

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Classifications MeSH

questionsmedicales.fr › Eucaryotes › Euglénozoaires › Kinetoplastida › Trypanosomatina › Leishmania › Identification of a unique conserved region...
questionsmedicales.fr › Acides nucléiques, nucléotides et nucléosides › Acides nucléiques › ADN › ADN des protozoaires › ADN kinétoplastique › Identification of a unique conserved region...
questionsmedicales.fr › Sciences de l'information › Phylogenèse › Identification of a unique conserved region...
questionsmedicales.fr › Régions géographiques › Asie › Asie du Sud-Est › Thaïlande › Identification of a unique conserved region...
questionsmedicales.fr › Sciences de l'information › Sources d'information › Services d'information › Documentation › Données de séquences moléculaires › Séquence nucléotidique › Identification of a unique conserved region...
questionsmedicales.fr › Acides nucléiques, nucléotides et nucléosides › Acides nucléiques › ADN › ADN mitochondrial › Identification of a unique conserved region...