TY - JOUR
T1 - Draft genomes of Blastocystis subtypes from human samples of Colombia
AU - Higuera, Adriana
AU - Salas-Leiva, Dayana E.
AU - Curtis, Bruce
AU - Patiño, Luz H.
AU - Zhao, Dandan
AU - Jerlström-Hultqvist, Jon
AU - Dlutek, Marlena
AU - Muñoz, Marina
AU - Roger, Andrew J.
AU - Ramírez, Juan David
N1 - Funding Information:
We thank Ivan Wawrzyniak of the Université Clermont Auvergne, Laboratoire Microorganismes: Génome et Environnement, and Lee O´Brien Andersen and Christen Rune Stensvold of the Department of Microbiology and Infection Control, Statens Serum Institut, for providing the reads of their publicly available genomes. Also, we thank the High Computing Cluster (CENTAURO) Service from Universidad del Rosario.
Funding Information:
Open Access funding provided by Colombia Consortium. This work was funded by BECAS DE APOYO PARA ESTUDIANTES doctorales (DIRECCION ACADEMICA) and DIRECCIÓN DE INVESTIGACIÓN E INNOVACIÓN from Universidad del Rosario (AH). Work conducted in AJR’s lab at Dalhousie University was supported by a Foundation Grant FRN 142349 awarded to AJR by the Canadian Institutes of Health Research.
Publisher Copyright:
© 2023, The Author(s).
PY - 2023/12
Y1 - 2023/12
N2 - Background: Blastocystis is one of the most common eukaryotic microorganisms colonizing the intestines of both humans and animals, but the conditions under which it may be a pathogen are unclear. Methods: To study the genomic characteristics of circulating subtypes (ST) in Colombia, we established nine xenic cultures from Blastocystis isolated from human fecal samples, we identified 10 different subtypes, since one sample had a mixed infection. Thus, the genomes of the subtypes ST1 (n = 3), ST2 (n = 1), ST3 (n = 2), ST6 (n = 1), ST7 (n = 1), and ST8 (n = 2) were sequenced using Illumina and Oxford Nanopore Technologies (ONT). Results: Analyses of these draft nuclear genomes indicated remarkable diversity in terms of genome size and guanine-cytosine (GC) content among the compared STs. Illumina sequencing-only draft genomes contained 824 to 2077 scaffolds, with total genome size ranging from 12 to 13.2 Mb and N50 values ranging from 10,585 to 29,404 base pairs (bp). The genome of one ST1 isolate was sequenced using ONT. This assembly was more contiguous, with a size of 20 million base pairs (Mb) spread over 116 scaffolds, and an N50 of 248,997 bp. Conclusion: This work represents one of the few large-scale comparative genomic analyses of Blastocystis isolates, providing an additional glimpse into its genomic diversity. Graphical Abstract: [Figure not available: see fulltext.].
AB - Background: Blastocystis is one of the most common eukaryotic microorganisms colonizing the intestines of both humans and animals, but the conditions under which it may be a pathogen are unclear. Methods: To study the genomic characteristics of circulating subtypes (ST) in Colombia, we established nine xenic cultures from Blastocystis isolated from human fecal samples, we identified 10 different subtypes, since one sample had a mixed infection. Thus, the genomes of the subtypes ST1 (n = 3), ST2 (n = 1), ST3 (n = 2), ST6 (n = 1), ST7 (n = 1), and ST8 (n = 2) were sequenced using Illumina and Oxford Nanopore Technologies (ONT). Results: Analyses of these draft nuclear genomes indicated remarkable diversity in terms of genome size and guanine-cytosine (GC) content among the compared STs. Illumina sequencing-only draft genomes contained 824 to 2077 scaffolds, with total genome size ranging from 12 to 13.2 Mb and N50 values ranging from 10,585 to 29,404 base pairs (bp). The genome of one ST1 isolate was sequenced using ONT. This assembly was more contiguous, with a size of 20 million base pairs (Mb) spread over 116 scaffolds, and an N50 of 248,997 bp. Conclusion: This work represents one of the few large-scale comparative genomic analyses of Blastocystis isolates, providing an additional glimpse into its genomic diversity. Graphical Abstract: [Figure not available: see fulltext.].
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U2 - 10.1186/s13071-022-05619-7
DO - 10.1186/s13071-022-05619-7
M3 - Research Article
C2 - 36732768
AN - SCOPUS:85147319224
SN - 1756-3305
VL - 16
JO - Parasites and Vectors
JF - Parasites and Vectors
IS - 1
M1 - 52
ER -
